Complet list of 1vre hssp file
Complete list of 1vre.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 1VRE
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 2014-05-11
HEADER HEME PROTEIN 25-MAR-99 1VRE
COMPND MOL_ID: 1; MOLECULE: PROTEIN (GLOBIN, MONOMERIC COMPONENT M-IV); CHAIN
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: GLYCERA DIBRANCHIATA; ORGANISM_TAXID:
AUTHOR B.F.VOLKMAN,S.L.ALAM,J.D.SATTERLEE,J.L.MARKLEY
DBREF 1VRE A 1 147 UNP P15447 GLB4_GLYDI 1 147
SEQLENGTH 147
NCHAIN 1 chain(s) in 1VRE data set
NALIGN 9
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 : GLB4_GLYDI 1VRE 0.98 0.99 1 147 2 148 147 0 0 148 P15447 Globin, monomeric component M-IV OS=Glycera dibranchiata PE=1 SV=2
2 : GLB1_GLYDI 2HBG 0.93 0.98 1 147 1 147 147 0 0 147 P02216 Globin, major monomeric component OS=Glycera dibranchiata PE=1 SV=2
3 : GLBP3_GLYDI 0.37 0.65 2 147 3 147 151 3 11 147 P21660 Globin, polymeric component P3 OS=Glycera dibranchiata PE=1 SV=1
4 : GLBP1_GLYDI 0.36 0.64 2 147 3 147 151 3 11 147 P23216 Globin, major polymeric component P1 OS=Glycera dibranchiata PE=1 SV=1
5 : GLBP2_GLYDI 0.35 0.67 2 147 3 147 151 3 11 147 P21659 Globin, polymeric component P2 OS=Glycera dibranchiata PE=2 SV=1
6 : C7FFW4_BRASE 0.34 0.57 27 145 23 137 119 2 4 138 C7FFW4 Extracellular single-domain globin (Fragment) OS=Branchipolynoe seepensis PE=3 SV=1
7 : E7BQB4_9ANNE 0.34 0.57 2 146 2 138 145 3 8 138 E7BQB4 Hemoglobin OS=Branchinotogluma trifurcus GN=Hb PE=2 SV=1
8 : E7BQB5_9ANNE 0.33 0.59 31 145 27 137 115 2 4 138 E7BQB5 Hemoglobin OS=Branchinotogluma segonzaci GN=Hb PE=2 SV=1
9 : C7FFW3_BRAST 0.32 0.55 2 145 2 137 144 3 8 138 C7FFW3 Extracellular single-domain globin (Fragment) OS=Branchipolynoe symmytilida PE=3 SV=1
## ALIGNMENTS 1 - 9
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A G 0 0 110 3 0 GG
2 2 A L - 0 0 39 8 26 LLLLL V V
3 3 A S > - 0 0 52 8 53 SSTTT S S
4 4 A A H > S+ 0 0 74 8 0 AAAAA A A
5 5 A A H > S+ 0 0 69 8 53 AADDD A A
6 6 A Q H > S+ 0 0 46 8 0 QQQQQ Q Q
7 7 A R H X S+ 0 0 108 8 91 RRVVV K K
8 8 A Q H X S+ 0 0 126 8 55 QQAAA A A
9 9 A V H X S+ 0 0 30 8 55 VVAAA A A
10 10 A V H X S+ 0 0 0 8 36 VILLL I I
11 11 A A H X S+ 0 0 27 8 73 AAKKK R K
12 12 A S H < S+ 0 0 46 8 56 SAAAA D S
13 13 A T H X S+ 0 0 5 8 51 TTSSS S S
14 14 A W H X S+ 0 0 19 8 0 WWWWW W W
15 15 A K H < S+ 0 0 132 8 81 KKPPP A S
16 16 A D H >4 S+ 0 0 94 8 46 DDEEE G G
17 17 A I H 3< S+ 0 0 2 8 17 IIVVV I V
18 18 A A T 3< S+ 0 0 7 8 74 AASSS D D
19 19 A G S < S- 0 0 48 8 86 GGAAA L L
20 20 A S S S+ 0 0 124 7 68 SAGGG . Q
21 21 A D S S- 0 0 30 7 31 DDDDD . A
22 22 A N S S- 0 0 82 7 66 NNGGG . A
23 23 A G S >> S+ 0 0 0 7 0 GGGGG . G
24 24 A A H 3> S+ 0 0 28 8 57 AAAAG Q V
25 25 A G H 34 S+ 0 0 17 8 72 GGQQQ A A
26 26 A V H <> S+ 0 0 0 8 60 VVLLL A F
27 27 A G H X>S+ 0 0 0 9 33 GGGGGGG Y
28 28 A K H X5S+ 0 0 86 9 97 KKLLLVN H
29 29 A E H >5S+ 0 0 36 9 50 EDEEEAA Q
30 30 A C H X5S+ 0 0 3 9 92 CCMMLFF L
31 31 A F H X5S+ 0 0 10 9 13 FLFFFYYY.
32 32 A T H X< + 0 0 58 10 83 HHNNNAAAA
39 39 A H T 3 S+ 0 0 151 10 33 HPPPPPPPP
40 40 A D T 3 S+ 0 0 73 10 34 DQQQQDDDD
41 41 A M S <> S+ 0 0 4 10 75 IMMMMAAAA
42 42 A A H >>S+ 0 0 10 10 103 AAMMMYYYY
43 43 A A H 45S+ 0 0 78 10 81 AAFFFAAAA
44 44 A V H 45S+ 0 0 12 10 11 VVVIIVVVV
45 45 A F H <5S- 0 0 49 10 0 FFFFFFFFF
46 46 A G T <5S+ 0 0 54 10 51 GGGGGNNNN
47 47 A F < - 0 0 24 10 38 FFYYYLLLL
48 48 A S S S- 0 0 114 10 42 SSSSSGGGG
49 49 A G S S- 0 0 13 10 32 GGgggSGSS
50 50 A A S S+ 0 0 33 6 87 AAkkk....
51 51 A S S S+ 0 0 121 10 83 SSHHHDDDD
52 52 A D >> - 0 0 49 10 72 DDNSNAASA
53 53 A P H >> S+ 0 0 107 10 66 PPSSAGGGG
54 54 A G H >> S+ 0 0 17 10 60 GGKKKKKKK
55 55 A V H <> S+ 0 0 0 10 37 VVLLLIIII
56 56 A A H << S+ 0 0 29 10 53 AAQQQAAAA
57 57 A D H S+ 0 0 25 10 104 AAKKKLLLL
61 61 A K H X S+ 0 0 154 10 70 KKIVVKKKK
62 62 A V H X S+ 0 0 50 10 43 VVIIITVVT
63 63 A L H X S+ 0 0 1 10 38 LLVIIMMMM
64 64 A A H >X S+ 0 0 28 10 81 AAHDDTTTT
65 65 A Q H 3X S+ 0 0 43 10 108 QQQQQFFFF
66 66 A I H 3X S+ 0 0 10 10 0 IIIIIIIII
67 67 A G H XX S+ 0 0 8 10 37 GGGGGDDDD
68 68 A V H 3< S+ 0 0 74 10 94 VVQKKGGGG
69 69 A A H >< S+ 0 0 2 10 63 AAAAAVVIV
70 70 A V H << S+ 0 0 16 10 0 VVVVVVVVV
71 71 A S T 3< S+ 0 0 88 10 77 SSSAAKKKK
72 72 A H < + 0 0 71 10 79 HHEEEGGGG
73 73 A L S S+ 0 0 4 10 5 LLLMMLLLL
74 74 A G S S+ 0 0 36 10 30 GGDDDDDDD
75 75 A D >> + 0 0 98 10 23 DDDNNDDDD
76 76 A E T 34 + 0 0 119 10 96 EEGAAMMMM
77 77 A G T 34 S+ 0 0 67 10 62 GGSKKGGDG
78 78 A K T X> S+ 0 0 149 10 83 KKKQQGGGG
79 79 A M H 3X S+ 0 0 7 10 52 MMFMMVVVV
80 80 A V H 3> S+ 0 0 24 10 96 VVEAAKKKK
81 81 A A H <> S+ 0 0 60 10 23 AAAGGAAAA
82 82 A E H X S+ 0 0 97 10 83 EQTTTSSSS
83 83 A M H X S+ 0 0 5 10 40 MMLLLIIII
84 84 A K H X S+ 0 0 102 10 76 KKHHHDDDD
85 85 A A H X S+ 0 0 26 10 66 AAKAATNTT
86 86 A V H X S+ 0 0 24 10 26 VVLLLLLLL
87 87 A G H X S+ 0 0 0 10 0 GGGGGGGGG
88 88 A V H >< S+ 0 0 57 10 82 VVQVVSQGS
89 89 A R H >< S+ 0 0 150 10 22 RRERRRRRR
90 90 A H H >< S+ 0 0 38 10 0 HHHHHHHHH
91 91 A K T << S+ 0 0 98 10 61 KKKKKTTTT
92 92 A G T < S+ 0 0 52 10 11 GGGGGGGSG
93 93 A Y < - 0 0 81 10 4 YYFFFYYYY
94 94 A G S S+ 0 0 83 10 0 GGGGGGGGG
95 95 A N S S- 0 0 17 7 90 YN...AAAA
96 96 A K + 0 0 149 7 0 KK...KKKK
97 97 A H + 0 0 112 10 78 HHDDDKKKK
98 98 A I + 0 0 31 8 55 IIIII.A.A
99 99 A K > - 0 0 70 7 51 KKKRR.H..
100 100 A A T 3> S+ 0 0 32 6 19 AAGAA....
101 101 A E T 34 S+ 0 0 106 8 66 EQEEDA.V.
102 102 A Y T <> S+ 0 0 42 9 60 YYYFFH.HH
103 103 A F H > S+ 0 0 41 10 0 FFFFFFFFF
104 104 A E H X S+ 0 0 158 10 74 EEPPPGGGG
105 105 A P H > S+ 0 0 51 10 40 PPAAAPPPP
106 106 A L H < S+ 0 0 17 10 75 LLLLLAAAA
107 107 A G H X S+ 0 0 16 10 0 GGGGGGGGG
108 108 A A H >X S+ 0 0 66 10 87 AADMMPPPP
109 109 A S H 3X S+ 0 0 63 10 43 SSACCCCCC
110 110 A L H >> S+ 0 0 4 10 0 LLLLLLLLL
111 111 A L H X S+ 0 0 0 9 9 MMM.MLLLL
115 115 A E H 3< S+ 0 0 71 9 68 EEN.EAAAA
116 116 A H H <4 S+ 0 0 100 9 64 HHS.EEEEE
117 117 A R H << S+ 0 0 118 10 94 RRKAKAVVV
118 118 A I S >X S+ 0 0 14 10 77 IIVMVCCCC
119 119 A G T 34 S+ 0 0 53 8 24 GG.E.GGGG
120 120 A G T 34 S+ 0 0 86 8 24 GG.E.GGGG
121 121 A K T <4 S+ 0 0 156 8 0 KK.K.KKKK
122 122 A M < + 0 0 19 8 66 MM.V.FFFF
123 123 A N > - 0 0 83 10 75 TNHPPTTTT
124 124 A A H > S+ 0 0 63 10 64 AAGGGPPPP
125 125 A A H > S+ 0 0 41 10 65 AALLLAAAA
126 126 A A H > S+ 0 0 0 10 52 AADNNAAAA
127 127 A K H X S+ 0 0 104 10 28 KKRRRKKKK
128 128 A D H X S+ 0 0 82 10 53 DDTTTDDDD
129 129 A A H X S+ 0 0 1 10 93 AALLLGGGG
130 130 A W H X S+ 0 0 1 10 0 WWWWWWWWW
131 131 A A H < S+ 0 0 53 10 51 AAAAATTTT
132 132 A A H X S+ 0 0 21 10 0 AAAAAAAAA
133 133 A A H >X S+ 0 0 0 10 83 AAGAALLLL
134 134 A Y H 3X>S+ 0 0 17 10 0 YYYYYYYYY
135 135 A A H 3>5S+ 0 0 52 10 91 AARRRGGGG
136 136 A D H X5S+ 0 0 29 10 27 SSSSSASSA
139 139 A G H 3<