Complet list of 1qn0 hssp file
Complete list of 1qn0.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1QN0
THRESHOLD according to: t(L)=(290.15 * L ** -0.562) + 5
REFERENCE Sander C., Schneider R. : Database of homology-derived protein structures. Proteins, 9:56-68 (1991).
CONTACT Maintained at http://www.cmbi.ru.nl/ by Maarten L. Hekkelman
DATE file generated on 2014-05-07
HEADER ELECTRON TRANSPORT 11-OCT-99 1QN0
COMPND MOL_ID: 1; MOLECULE: CYTOCHROME C3; CHAIN: A; SYNONYM: TETRAHEME CYTOC
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: DESULFOVIBRIO GIGAS; ORGANISM_TAXID: 8
AUTHOR A.C.MESSIAS,M.L.TEODORO,L.BRENNAN,J.LEGALL,H.SANTOS, A.V.XAVIER,D.L.TU
DBREF 1QN0 A 1 112 UNP P00133 CYC3_DESGI 1 112
SEQLENGTH 112
NCHAIN 1 chain(s) in 1QN0 data set
NALIGN 32
NOTATION : ID: EMBL/SWISSPROT identifier of the aligned (homologous) protein
NOTATION : STRID: if the 3-D structure of the aligned protein is known, then STRID is the Protein Data Bank identifier as taken
NOTATION : from the database reference or DR-line of the EMBL/SWISSPROT entry
NOTATION : %IDE: percentage of residue identity of the alignment
NOTATION : %SIM (%WSIM): (weighted) similarity of the alignment
NOTATION : IFIR/ILAS: first and last residue of the alignment in the test sequence
NOTATION : JFIR/JLAS: first and last residue of the alignment in the alignend protein
NOTATION : LALI: length of the alignment excluding insertions and deletions
NOTATION : NGAP: number of insertions and deletions in the alignment
NOTATION : LGAP: total length of all insertions and deletions
NOTATION : LSEQ2: length of the entire sequence of the aligned protein
NOTATION : ACCNUM: SwissProt accession number
NOTATION : PROTEIN: one-line description of aligned protein
NOTATION : SeqNo,PDBNo,AA,STRUCTURE,BP1,BP2,ACC: sequential and PDB residue numbers, amino acid (lower case = Cys), secondary
NOTATION : structure, bridge partners, solvent exposure as in DSSP (Kabsch and Sander, Biopolymers 22, 2577-2637(1983)
NOTATION : VAR: sequence variability on a scale of 0-100 as derived from the NALIGN alignments
NOTATION : pair of lower case characters (AvaK) in the alignend sequence bracket a point of insertion in this sequence
NOTATION : dots (....) in the alignend sequence indicate points of deletion in this sequence
NOTATION : SEQUENCE PROFILE: relative frequency of an amino acid type at each position. Asx and Glx are in their
NOTATION : acid/amide form in proportion to their database frequencies
NOTATION : NOCC: number of aligned sequences spanning this position (including the test sequence)
NOTATION : NDEL: number of sequences with a deletion in the test protein at this position
NOTATION : NINS: number of sequences with an insertion in the test protein at this position
NOTATION : ENTROPY: entropy measure of sequence variability at this position
NOTATION : RELENT: relative entropy, i.e. entropy normalized to the range 0-100
NOTATION : WEIGHT: conservation weight
## PROTEINS : identifier and alignment statistics
NR. ID STRID %IDE %WSIM IFIR ILAS JFIR JLAS LALI NGAP LGAP LSEQ2 ACCNUM PROTEIN
1 : Q9RM62_DESGI 1.00 1.00 1 112 26 137 112 0 0 137 Q9RM62 Cytochrome c3 OS=Desulfovibrio gigas GN=cyc PE=4 SV=1
2 : T2G7I6_DESGI 1.00 1.00 1 112 26 137 112 0 0 137 T2G7I6 Cytochrome c3 OS=Desulfovibrio gigas DSM 1382 = ATCC 19364 GN=cyc PE=4 SV=1
3 : CYC3_DESGI 1WAD 0.99 1.00 1 112 1 112 112 0 0 112 P00133 Cytochrome c3 OS=Desulfovibrio gigas PE=1 SV=2
4 : G2HAW1_9DELT 0.56 0.69 23 111 42 130 90 2 2 130 G2HAW1 Cytochrome c3 OS=Desulfovibrio sp. A2 GN=DA2_2915 PE=4 SV=1
5 : CYC3_DESVM 2YXC 0.49 0.65 13 111 32 130 100 2 2 130 P00132 Cytochrome c3 OS=Desulfovibrio vulgaris (strain Miyazaki F / DSM 19637) GN=DvMF_2499 PE=1 SV=2
6 : Q30WH0_DESDG2A3M 0.49 0.69 1 111 19 130 112 1 1 130 Q30WH0 Cytochrome c class III (Precursor) OS=Desulfovibrio desulfuricans (strain G20) GN=Dde_3182 PE=1 SV=1
7 : Q9RF05_DESDE 0.49 0.69 1 111 19 130 112 1 1 130 Q9RF05 Cytochrome c3 (Precursor) OS=Desulfovibrio desulfuricans GN=cycA PE=4 SV=1
8 : A1V9X3_DESVV 0.48 0.61 3 110 21 128 109 2 2 129 A1V9X3 Cytochrome c, class III (Precursor) OS=Desulfovibrio vulgaris subsp. vulgaris (strain DP4) GN=Dvul_0215 PE=4 SV=1
9 : CYC3_DESVH 2CYM 0.48 0.61 3 110 21 128 109 2 2 129 P00131 Cytochrome c3 OS=Desulfovibrio vulgaris (strain Hildenborough / ATCC 29579 / NCIMB 8303) GN=DVU_3171 PE=1 SV=1
10 : E3IQX1_DESVR 0.48 0.61 3 110 21 128 109 2 2 129 E3IQX1 Cytochrome c, class III, conserved region (Precursor) OS=Desulfovibrio vulgaris (strain RCH1) GN=Deval_2928 PE=4 SV=1
11 : T2G7I8_DESGI 0.42 0.65 2 112 22 133 112 1 1 133 T2G7I8 Cytochrome c class III OS=Desulfovibrio gigas DSM 1382 = ATCC 19364 GN=DGI_0326 PE=4 SV=1
12 : B6WXU8_9DELT 0.40 0.55 14 111 34 135 102 2 4 135 B6WXU8 Cytochrome c3 OS=Desulfovibrio piger ATCC 29098 GN=DESPIG_02928 PE=4 SV=1
13 : Q9FDJ8_DESDE 0.39 0.52 2 111 19 128 111 2 2 128 Q9FDJ8 Cytochrome c3 (Precursor) OS=Desulfovibrio desulfuricans PE=4 SV=1
14 : C6BUH4_DESAD 0.38 0.53 22 111 47 133 92 4 7 137 C6BUH4 Cytochrome c class III (Precursor) OS=Desulfovibrio salexigens (strain ATCC 14822 / DSM 2638 / NCIB 8403 / VKM B-1763) GN=Desal_1922 PE=4 SV=1
15 : B8J2Z0_DESDA2KSU 0.37 0.49 18 111 35 128 95 2 2 128 B8J2Z0 Cytochrome c class III (Precursor) OS=Desulfovibrio desulfuricans (strain ATCC 27774 / DSM 6949) GN=Ddes_2013 PE=1 SV=1
16 : Q9L915_DESDE1I77 0.37 0.49 18 111 35 128 95 2 2 128 Q9L915 Cytochrome c3 (Precursor) OS=Desulfovibrio desulfuricans GN=cytc3 PE=1 SV=2
17 : G1UXA9_9DELT 0.36 0.53 19 111 37 129 94 2 2 129 G1UXA9 Uncharacterized protein OS=Desulfovibrio sp. 6_1_46AFAA GN=HMPREF1022_03232 PE=4 SV=1
18 : L0REF7_9DELT 0.36 0.56 18 112 45 136 97 4 7 139 L0REF7 Cytochrome c class III OS=Desulfovibrio hydrothermalis AM13 = DSM 14728 GN=DESAM_22330 PE=4 SV=1
19 : C4XGG7_DESMR 0.35 0.51 1 91 26 113 92 3 5 128 C4XGG7 Cytochrome c3 OS=Desulfovibrio magneticus (strain ATCC 700980 / DSM 13731 / RS-1) GN=DMR_02560 PE=4 SV=1
20 : D9YC16_9DELT 0.34 0.51 13 111 31 129 100 2 2 129 D9YC16 Uncharacterized protein OS=Desulfovibrio sp. 3_1_syn3 GN=HMPREF0326_01176 PE=4 SV=1
21 : G7Q9B6_9DELT 0.34 0.50 1 91 26 113 92 3 5 128 G7Q9B6 Cytochrome c, class III, conserved region OS=Desulfovibrio sp. FW1012B GN=DFW101_2153 PE=4 SV=1
22 : I2PYE7_9DELT 0.34 0.50 1 91 26 113 92 3 5 128 I2PYE7 Class III cytochrome C family protein (Precursor) OS=Desulfovibrio sp. U5L GN=DesU5LDRAFT_0852 PE=4 SV=1
23 : K6GTK6_9DELT 0.34 0.51 1 91 26 113 92 3 5 128 K6GTK6 Class III cytochrome C family protein (Precursor) OS=Desulfovibrio magneticus str. Maddingley MBC34 GN=B193_0988 PE=4 SV=1
24 : A1VAR1_DESVV 0.33 0.56 5 105 30 126 103 3 8 144 A1VAR1 Cytochrome c, class III (Precursor) OS=Desulfovibrio vulgaris subsp. vulgaris (strain DP4) GN=Dvul_0504 PE=4 SV=1
25 : C0QHA6_DESAH 0.33 0.54 16 112 44 139 100 4 7 142 C0QHA6 Cytochrome c, class III family protein OS=Desulfobacterium autotrophicum (strain ATCC 43914 / DSM 3382 / HRM2) GN=HRM2_47160 PE=4 SV=1
26 : E3IN89_DESVR 0.33 0.56 5 105 30 126 103 3 8 144 E3IN89 Cytochrome c, class III, conserved region (Precursor) OS=Desulfovibrio vulgaris (strain RCH1) GN=Deval_2595 PE=4 SV=1
27 : Q727P6_DESVH 0.33 0.56 5 105 30 126 103 3 8 144 Q727P6 Cytochrome c3 OS=Desulfovibrio vulgaris (strain Hildenborough / ATCC 29579 / NCIMB 8303) GN=DVU_2809 PE=4 SV=1
28 : B8DK10_DESVM 0.32 0.53 5 105 30 126 103 3 8 143 B8DK10 Cytochrome c class III (Precursor) OS=Desulfovibrio vulgaris (strain Miyazaki F / DSM 19637) GN=DvMF_0649 PE=4 SV=1
29 : D9YHI1_9DELT 0.31 0.55 2 105 27 125 105 3 7 141 D9YHI1 Uncharacterized protein OS=Desulfovibrio sp. 3_1_syn3 GN=HMPREF0326_02960 PE=4 SV=1
30 : F0JIY2_DESDE 0.31 0.47 19 104 45 132 90 4 6 135 F0JIY2 Cytochrome c, class III, conserved region (Precursor) OS=Desulfovibrio desulfuricans ND132 GN=DND132_2678 PE=4 SV=1
31 : G1UX31_9DELT 0.31 0.55 2 105 28 126 105 3 7 142 G1UX31 Uncharacterized protein OS=Desulfovibrio sp. 6_1_46AFAA GN=HMPREF1022_03154 PE=4 SV=1
32 : K1YPP7_9BACT 0.30 0.46 5 112 27 139 115 6 9 140 K1YPP7 Cytochrome c, class III OS=uncultured bacterium GN=ACD_75C00507G0001 PE=4 SV=1
## ALIGNMENTS 1 - 32
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A V 0 0 155 10 20 VVV LL V VVV
2 2 A D - 0 0 149 14 63 DDD PP A A D EED N N
3 3 A V - 0 0 90 17 54 VVV VVVVVV L A AAA L L
4 4 A P - 0 0 77 17 63 PPP IIAAAA A P PPP S S
5 5 A A - 0 0 80 22 16 AAA AAAAAA A A AAAA AAAN NA
6 6 A D S S+ 0 0 97 22 68 DDD AAPPPP P D DDDP PPPI ID
7 7 A G + 0 0 32 22 78 GGG EEKKKQ T G MLGK KKKK KQ
8 8 A A E -A 24 0A 37 22 72 AAA AAAAAS A E TTEK KKKK KG
9 9 A K E -A 23 0A 140 22 75 KKK PPPPPP P I IIVA AAAP PP
10 10 A I E +A 22 0A 46 22 82 III AAAAAS D K KKKI IIII IA
11 11 A D + 0 0 70 22 58 DDD DDDDDS K A VVAE EEEE EE
12 12 A F + 0 0 98 22 93 FFF GGGGGP P P PPPL LLLL LV
13 13 A I S S- 0 0 39 24 89 III LLLLLLL L ELAAAK KKKN NT
14 14 A A - 0 0 75 25 86 AAA KKKKKKTQE GEGGGH HHHG GL
15 15 A G - 0 0 42 25 78 GGG MMMMMMLGF MLMMFG GGGG GG
16 16 A G S S- 0 0 80 26 73 GGG DEEEEERSK PKTTATSTTTT TE
17 17 A E S S+ 0 0 187 26 72 EEE KNNAAAYNG AGAAASESSSS SS
18 18 A K - 0 0 156 29 71 KKK TTTTTTLPA SS KTSTTTKRKKKK KG
19 19 A N - 0 0 82 31 57 NNN KKKKKKKKQ QQKDQKQQQRDRRRRKRK
20 20 A L - 0 0 110 31 78 LLL QMMQQQKKK KKKLSKAASMLMMMMTMK
21 21 A T - 0 0 55 31 79 TTT PPPPPPEPT TTTGPTEEPHSHHHFPFP
22 22 A V E -A 10 0A 31 32 6 VVV VVVVVVVVVVVVVVVVVVVVVVVVVVVA
23 23 A V E -A 9 0A 77 33 61 VVVVVIIVVVVTMVMMMVKMAAKMMMMKTVTV
24 24 A F E -A 8 0A 67 33 0 FFFFFFFFFFFFFFFFFFFFFFFFFFFFFFFF
25 25 A N > - 0 0 32 33 53 NNNNNNNNNNPNPNPPPNSPSSSNNNNNNPNP
26 26 A H T 4 S+ 0 0 54 33 0 HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
27 27 A S T 4 S+ 0 0 57 33 61 SSSSSSSSSSASASAAASKAKKKTSTTTSKSK
28 28 A T T 4 S+ 0 0 83 33 63 TTTTTSSTTTATPSPPPSGPGGGTSTTSSKSK
29 29 A H S >< S+ 0 0 58 33 0 HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
30 30 A K T 3 S+ 0 0 176 33 67 KKKKKSSKKKGKAEEEQEAQAAAKEKKKKVKQ
31 31 A D T 3 S+ 0 0 129 33 68 DDDAASSSSSATKNKKKNKKKKKDSDDDGDGD
32 32 A V S < S- 0 0 32 33 48 VVVVVYYVVVLVVYVVVYIVIIVIYIIVVgVa
33 33 A K - 0 0 142 33 61 KKKKKQQKKKEEEEEEEDDEDDDADAAAKdKk
34 34 A C S >> S+ 0 0 69 33 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
35 35 A D T 34 S+ 0 0 103 33 87 DDDGGAAGGGRVVIVVVAKVKKKESEEERLRA
36 36 A D T 34 S+ 0 0 57 33 71 DDDDDDDDDDTITDTTTDATVVVQEQQQTVTE
37 37 A C T <4 S+ 0 0 74 33 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
38 38 A H < + 0 0 42 33 0 HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
39 39 A H + 0 0 94 33 0 HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
40 40 A Q - 0 0 42 33 81 QQDppppppppplNllkNKkKKKdkdddekeg
41 41 A P > - 0 0 102 27 79 PPPnndnnnnddn.ddq..q...skaadltlg
42 42 A G T 3 S+ 0 0 44 29 68 GGGGGGGGGGGGGIGGDI.D...PLPPPPSPK
43 43 A D T 3 S+ 0 0 173 33 61 DDDKKKKKKKEKKKKKKKGKGGGDLDDAKKKQ
44 44 A K S < S+ 0 0 135 33 52 KKKEEEEEEENEEKEEEKEEEEEKKKKKDDDV
45 45 A Q S S+ 0 0 75 33 75 QQQDDNNDDDPSSSSSNSANAAAPEPPPRDRP
46 46 A Y S S+ 0 0 120 33 66 YYYYYLLYYYMYFGYYFGTFTTTYgYYFYVYy
47 47 A A - 0 0 28 33 63 AAAQQAARRRPAAEAAQKQQQQQApAAAAKAe
48 48 A G > - 0 0 40 33 65 GGGKKKKKKKKKKPKKKPKKKKKSPSSSSGSA
49 49 A C T 3 S+ 0 0 51 33 28 CCCCCCCCCCCCCTCCCTCCCCCCRCCCCCCQ
50 50 A T T 3 S+ 0 0 35 33 59 TTTAAAAGGGSAGSGGASSAAASTSTTTTATK
51 51 A T X - 0 0 59 33 70 TTTTTTTTTTETSCSSTCSTSSSDCDDNNSNV
52 52 A D T 3 S+ 0 0 132 33 54 DDDAAAAAAAAAAASSAAAAAAANANNNEEEE
53 53 A G T 3 S+ 0 0 76 33 39 GGGGGGGGGGGGGTGGGSGGGGGDTDDDEGEK
54 54 A C S < S- 0 0 45 33 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
55 55 A H S S+ 0 0 31 33 5 HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHE
56 56 A N + 0 0 68 33 54 NNNDDDDDDDDDDDDDDDDDDDDATAAASIST
57 57 A I - 0 0 43 33 82 IIISNVVSSSVNDNDDDNSDSSSTGTTTIDIC
58 58 A L + 0 0 102 33 80 LLLMMFFMMMFLLYLLLFLLTTTPTPPPKAKH
59 59 A D - 0 0 85 32 52 DDDDDDDDDDDK.STTTEDTDDDGDGGGGSGN
60 60 A K S S+ 0 0 120 33 69 KKKKKKKKKKADKAAAAAPAPPPPIPPPAAAA
61 61 A A S S+ 0 0 82 33 63 AAAKKKKKKKKKAMKKKMKKKKKRNRRRHART
62 62 A D - 0 0 72 33 55 DDDDDDDDDDDKKPKKKPDKDDDEEEEEEAEV
63 63 A K + 0 0 201 33 63 KKKKKKKKKKKGKTGGGAKGKKKRTRRRRKRL
64 64 A S S > S- 0 0 52 33 70 SSSSSSSSSSSTGKEEEKTETTTDKDDDDKDA
65 65 A V T 3 S+ 0 0 107 33 81 VVVAAVVAAAENEgKKKgsKsssTgTTTTeTG
66 66 A N T 3 + 0 0 56 33 78 NNNKKHHKKKKSKkSSSkkShhkMkMMMMtMK
67 67 A S X> - 0 0 5 33 58 SSSGGSSGGGSLSSLLLSSLSSSSPSSSSSSM
68 68 A W T 34 S+ 0 0 47 33 45 WWWYYYYYYYFYLYYYFYFFFFFMYMMMLFLK
69 69 A Y T 3> S+ 0 0 108 33 13 YYYYYYYYYYYYYFYYYFYYYYYFFFFFFYFD
70 70 A K T <4 S+ 0 0 91 33 80 KKKHHKKHHHKVAKVVVKRVKKRVKVVVMSMK
71 71 A V T < S+ 0 0 34 33 55 VVVAAIIVVVIMVAVVVAAVAAAAAAAAAAAL
72 72 A V T 4 S+ 0 0 30 33 79 VVVMMIIMMMVHVMHHHMFHFYFYMYYYYFYA
73 73 A H S < S+ 0 0 79 33 37 HHHHHHHHHHHAHHAATHHTHHHHHHHHHHHL
74 74 A D + 0 0 37 33 74 DDDDDDDDDDGKTYKKKYDKDDDAMAAASSSD
75 75 A A + 0 0 80 32 79 AAA.KRRKKKPERKGGTKMTMMMKIKKKPKPT
76 76 A K S S- 0 0 173 33 67 KKKKGKKNNNGKTREEGRKGKKKDKDDDDKDL
77 77 A G + 0 0 53 33 79 GGGGTAATTTAAENLLLNSLSSSTKTTTTSTK
78 78 A G - 0 0 64 32 69 GGGTKTTKK.ADLNKKKNEKEEEDNDDDDDDG
79 79 A A S S+ 0 0 116 32 88 AAAKFTT.FKAAKAHHHEKHKNKRFRRRRARA
80 80 A K S S- 0 0 65 32 84 KKKFKVVF.FApHkTTQkSQSSSSRSSSSSSg
81 81 A P - 0 0 60 18 72 PPPKSAAKKKPqMp...p......P......g
82 82 A T > - 0 0 23 21 49 TTTT.TTSSSSSTSSSTS.T....S......N
83 83 A C T 4 S+ 0 0 61 33 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
84 84 A I T > S+ 0 0 31 33 54 IIIVVMMVVVLLLLLLLVMLIIMYIYYYYLYL
85 85 A S H > S+ 0 0 26 33 44 SSSGGSSGGGASGGAAESGEGGGGAGGGGAGE
86 86 A C H >X S+ 0 0 62 33 0 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
87 87 A H H 3> S+ 0 0 32 33 0 HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
88 88 A K H 3< S+ 0 0 93 33 76 KKKLLLLVVVKVSVSSTIKTKKKKTKKKRKRK
89 89 A D H X< S+ 0 0 133 33 53 DDDEEEEEEEDKKKKKKRKKKKKKRKKQKKKT
90 90 A K H 3< S+ 0 0 142 33 83 KKKATAAVVVTVVEVVVEEVEEEMEMMMLELK
91 91 A A T 3< S+ 0 0 1 33 57 AAAAAAAAAAAVVFVVVFAVAATAFAAAAKAA
92 92 A G S < S+ 0 0 50 29 44 GGGGGGGGGGAAAGAAAG A AGAAKGKGN
93 93 A D S S+ 0 0 131 28 66 DDDAASSAAAKEENEEEQ E Q.QQDKAKE
94 94 A D > - 0 0 63 28 69 DDDDDDDDDDNKKDKKKD K H.HHHYGYD
95 95 A K T >4 S+ 0 0 162 27 60 KKKAAKKAAAPPP.PPPK P P.PPPPKPA
96 96 A E G >4 S+ 0 0 131 27 47 EEEAADDAAAEDE.EEED E E.EEENNNA
97 97 A L G >>>S+ 0 0 31 28 64 LLLKKLLKKKRLL.LLLM L FDFFFFVFL
98 98 A K G <<5S+ 0 0 91 28 42 KKKKKKKKKKKKK.KKKT K TDTTSKPKk
99 99 A K G <45S+ 0 0 127 22 23 KKKKKKKKKKKKKKKKK. K .P....V.k
100 100 A K T <45S+ 0 0 88 22 57 KKKEEEEDDDVDDEDDD. D .D....S.K
101 101 A L T <5S+ 0 0 42 22 20 LLLLLLLLLLLLLMLLL. L .M....C.L
102 102 A T S