Complet list of 2gb1 hssp file
Complete list of 2gb1.hssp file
HSSP HOMOLOGY DERIVED SECONDARY STRUCTURE OF PROTEINS , VERSION 2.0 2011
PDBID 2GB1
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 2014-05-19
HEADER IMMUNOGLOBULIN BINDING PROTEIN 15-MAY-91 2GB1
COMPND MOL_ID: 1; MOLECULE: PROTEIN G; CHAIN: A; ENGINEERED: YES
SOURCE MOL_ID: 1; ORGANISM_SCIENTIFIC: STREPTOCOCCUS SP. 'GROUP G'; ORGANISM_
AUTHOR A.M.GRONENBORN,G.M.CLORE
DBREF 2GB1 A 2 56 UNP P06654 SPG1_STRSG 228 282
SEQLENGTH 56
NCHAIN 1 chain(s) in 2GB1 data set
NALIGN 25
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 : C5WHI8_STRDG 1.00 1.00 2 56 303 357 55 0 0 523 C5WHI8 Immunoglobulin G-binding protein OS=Streptococcus dysgalactiae subsp. equisimilis (strain GGS_124) GN=spg PE=3 SV=1
2 : F5U588_STREQ 1.00 1.00 2 56 19 73 55 0 0 239 F5U588 Putative immunoglobulin G-binding protein G (Fragment) OS=Streptococcus dysgalactiae subsp. equisimilis SK1249 GN=HMPREF9964_0770 PE=4 SV=1
3 : F9NHM5_STREQ 1.00 1.00 2 56 202 256 55 0 0 422 F9NHM5 Immunoglobulin G-binding protein G OS=Streptococcus dysgalactiae subsp. equisimilis SK1250 GN=spg PE=4 SV=1
4 : K4Q980_STREQ 1.00 1.00 2 56 303 357 55 0 0 523 K4Q980 Immunoglobulin G-binding protein G OS=Streptococcus dysgalactiae subsp. equisimilis AC-2713 GN=spg PE=3 SV=1
5 : Q53291_FINMA1MHX 1.00 1.00 2 56 330 384 55 0 0 455 Q53291 Protein LG (Fragment) OS=Finegoldia magna PE=1 SV=1
6 : SPG1_STRSG 3GB1 1.00 1.00 2 56 228 282 55 0 0 448 P06654 Immunoglobulin G-binding protein G OS=Streptococcus sp. group G GN=spg PE=1 SV=1
7 : SPG2_STRSG 1GB4 1.00 1.00 2 56 303 357 55 0 0 593 P19909 Immunoglobulin G-binding protein G OS=Streptococcus sp. group G GN=spg PE=1 SV=1
8 : E8QBR8_STRED 0.98 1.00 2 56 228 282 55 0 0 448 E8QBR8 IgG binding protein Zag OS=Streptococcus dysgalactiae subsp. equisimilis (strain ATCC 12394 / D166B) GN=SDE12394_07285 PE=3 SV=1
9 : M4YXE4_STREQ 0.98 1.00 2 56 240 294 55 0 0 460 M4YXE4 Immunoglobulin G-binding protein OS=Streptococcus dysgalactiae subsp. equisimilis RE378 GN=spg PE=3 SV=1
10 : U3TN53_STREQ 0.98 1.00 2 56 329 383 55 0 0 532 U3TN53 Immunoglobulin G-binding protein OS=Streptococcus dysgalactiae subsp. equisimilis 167 GN=SDSE167_1496 PE=4 SV=1
11 : Q54181_STRSG2OED 0.96 1.00 2 56 61 115 55 0 0 185 Q54181 Protein G' OS=Streptococcus sp. group G GN=Protein G'gene PE=1 SV=1
12 : E7Q004_STRDY 0.87 0.93 2 56 364 418 55 0 0 519 E7Q004 Ig, alpha2-macroglobulin and albumin binding protein Zag OS=Streptococcus dysgalactiae subsp. dysgalactiae ATCC 27957 GN=SDD27957_06725 PE=3 SV=1
13 : Q53337_9STRE 0.87 0.93 2 56 3 57 55 0 0 60 Q53337 Protein G IgG Fc binding domain OS=Streptococcus sp. CMCC 32138 GN=PGFB PE=4 SV=1
14 : Q53974_STRDY 0.87 0.93 2 56 258 312 55 0 0 413 Q53974 Mag protein (Precursor) OS=Streptococcus dysgalactiae GN=mag PE=3 SV=1
15 : Q53975_STRDY 0.87 0.93 2 56 504 558 55 0 0 664 Q53975 Streptococcal surface protein (Precursor) OS=Streptococcus dysgalactiae GN=mig PE=3 SV=1
16 : Q93EM8_STRDY 0.85 0.91 2 56 504 558 55 0 0 669 Q93EM8 Mig (Precursor) OS=Streptococcus dysgalactiae PE=3 SV=1
17 : C0MA37_STRE4 0.73 0.89 2 56 300 354 55 0 0 429 C0MA37 Ig, alpha2-macroglobulin and albumin binding protein Eag OS=Streptococcus equi subsp. equi (strain 4047) GN=SEQ_0721 PE=3 SV=1
18 : C0MCK9_STRS7 0.73 0.89 2 56 300 354 55 0 0 429 C0MCK9 Ig, alpha2-macroglobulin and albumin binding protein Zag (Precursor) OS=Streptococcus equi subsp. zooepidemicus (strain H70) GN=SZO_13070 PE=3 SV=1
19 : F8INR7_STREC 0.73 0.89 2 56 300 354 55 0 0 429 F8INR7 Cell surface protein OS=Streptococcus equi subsp. zooepidemicus (strain ATCC 35246 / C74-63) GN=SeseC_00850 PE=3 SV=1
20 : Q56212_STRSZ 0.73 0.89 2 56 300 354 55 0 0 429 Q56212 Cell surface protein (Precursor) OS=Streptococcus equi subsp. zooepidemicus PE=3 SV=1
21 : B4U242_STREM 0.71 0.89 2 56 316 370 55 0 0 445 B4U242 IgG binding protein Zag OS=Streptococcus equi subsp. zooepidemicus (strain MGCS10565) GN=zag PE=3 SV=1
22 : Q76K19_STRSZ 0.71 0.89 2 56 304 358 55 0 0 433 Q76K19 Cell surface protein OS=Streptococcus equi subsp. zooepidemicus GN=zag PE=3 SV=2
23 : T0I4N1_STRSZ 0.71 0.89 2 56 304 358 55 0 0 433 T0I4N1 IgG binding protein Zag OS=Streptococcus equi subsp. zooepidemicus SzS31A1 GN=zag PE=3 SV=1
24 : K9E8M0_9LACT 0.55 0.66 14 56 458 501 44 1 1 598 K9E8M0 YSIRK family Gram-positive signal peptide (Fragment) OS=Alloiococcus otitis ATCC 51267 GN=HMPREF9698_01324 PE=4 SV=1
25 : E4KPW8_9LACT 0.41 0.61 2 56 43 98 56 1 1 100 E4KPW8 B domain protein OS=Eremococcus coleocola ACS-139-V-Col8 GN=HMPREF9257_1607 PE=4 SV=1
## ALIGNMENTS 1 - 25
SeqNo PDBNo AA STRUCTURE BP1 BP2 ACC NOCC VAR ....:....1....:....2....:....3....:....4....:....5....:....6....:....7
1 1 A M 0 0 148 1 0
2 2 A T E -A 19 0A 66 25 0 TTTTTTTTTTTTTTTTTTTTTTT T
3 3 A Y E -A 18 0A 23 25 0 YYYYYYYYYYYYYYYYYYYYYYY Y
4 4 A K E -Ab 17 51A 94 25 30 KKKKKKKKKKKKKKKKRRRRRRR K
5 5 A L E -A 16 0A 0 25 0 LLLLLLLLLLLLLLLLLLLLLLL L
6 6 A I E -A 15 0A 56 25 16 IIIIIIIIIIVVVVVVVVVVVVV V
7 7 A L E +Ac 14 54A 5 25 33 LLLLLLLLLLIIIIIIIIIIIII V
8 8 A N + 0 0 71 25 48 NNNNNNNNNNNNNNNNKKKKKKK N
9 9 A G - 0 0 2 25 14 GGGGGGGGGGGGGGGGGGGGGGG S
10 10 A K S S+ 0 0 182 25 87 KKKKKKKKKKKKKKKKVVAVVVV E
11 11 A T S S+ 0 0 143 25 20 TTTTTTTTTTTTTTTTTTTTTTT D
12 12 A L - 0 0 83 25 39 LLLLLLLLLLLLLLLLFFFFFFF A
13 13 A K + 0 0 158 25 70 KKKKKKKKKKKKKKKKSSSSSSS Q
14 14 A G E -A 7 0A 29 26 25 GGGGGGGGGGGGGGGGGGGGGGGGI
15 15 A E E +A 6 0A 122 26 38 EEEEEEEQQQEEEEEEEEEEEEEAT
16 16 A T E -A 5 0A 45 26 16 TTTTTTTTTTTTTTTTTTTTTTTTS
17 17 A T E -A 4 0A 82 26 58 TTTTTTTTTTTTTTTTASAAAAATE
18 18 A T E -A 3 0A 33 26 38 TTTTTTTTTTTTTTTTTTTTTTTVY
19 19 A E E +A 2 0A 158 26 61 EEEEEEEEEEEKKKKKKKKKKKKKT
20 20 A A - 0 0 10 26 4 AAAAAAAAAAAATAAAAAAAAAAAA
21 21 A V S S+ 0 0 113 26 38 VVVVVVVVVVVVVVVVVVVVVVVSS
22 22 A D S > S- 0 0 68 26 31 DDDDDDDDDDDDDDDDDDDDDDDSS
23 23 A A H > S+ 0 0 40 26 22 AAAAAAAAAAAAAAAVAAAAAAAAV
24 24 A A H >> S+ 0 0 62 26 43 AAAAAAAAAAAEEEEEAAAAAAAEE
25 25 A T H 3> S+ 0 0 38 26 39 TTTTTTTTTTTTTTTTTTTTTTTQL
26 26 A A H 3X S+ 0 0 0 26 0 AAAAAAAAAAAAAAAAAAAAAAAAA
27 27 A E H X S+ 0 0 2 26 0 FFFFFFFFFFFFFFFFFFFFFFFFF
31 31 A K H 3X S+ 0 0 110 26 32 KKKKKKKKKKKKKKKKRRRRRRRKR
32 32 A Q H 3X S+ 0 0 141 26 22 QQQQQQQQQQQQQQQQQQQQQQQND
33 33 A Y H X< S+ 0 0 104 26 1 YYYYYYYYYYYYYYYYYYYYYYYFY
34 34 A A H >X>S+ 0 0 0 26 31 AAAAAAAAAAAAAAAAAAAAAAAVV
35 35 A N H 3<5S+ 0 0 98 26 0 NNNNNNNNNNNNNNNNNNNNNNNNN
36 36 A D T <<5S+ 0 0 131 26 23 DDDDDDDDDDDEDEEEDDDDDDDEN
37 37 A N T <45S- 0 0 70 26 0 NNNNNNNNNNNNNNNNNNNNNNNNN
38 38 A G T <5 + 0 0 51 26 0 GGGGGGGGGGGGGGGGGGGGGGGgg
39 39 A V < + 0 0 5 26 38 VVVVVVVVVVVVVVVVVVVVIIIgg
40 40 A D + 0 0 65 26 51 DDDDDDDDDDDDDDDDTTTTTTTDD
41 41 A G S S+ 0 0 51 26 48 GGGGGGGGGGGGGGGGGGGGGGGLL
42 42 A E E -D 55 0A 144 26 37 EEEEEEEEEEEVVVVVEEEEEEEEE
43 43 A W E -D 54 0A 67 26 0 WWWWWWWWWWWWWWWWWWWWWWWWW
44 44 A T E -D 53 0A 74 26 63 TTTTTTTTTTTTTTTTAAAAAAASS
45 45 A Y E -D 52 0A 71 26 0 YYYYYYYYYYYYYYYYYYYYYYYYY
46 46 A D E >>> +D 51 0A 64 26 0 DDDDDDDDDDDDDDDDDDDDDDDDD
47 47 A D T 345 + 0 0 125 26 67 DDDDDDDDDDDDDDDDAAAATTTEP
48 48 A A T 345S+ 0 0 84 26 13 AAAAAAAAAAAAAAAAAAAAAAADA
49 49 A T T <45S- 0 0 91 26 0 TTTTTTTTTTTTTTTTTTTTTTTTT
50 50 A K T <5S+ 0 0 125 26 29 KKKKKKKKKKKKKKKKKKKKKKKKY
51 51 A T E < -bD 4 46A 24 26 0 TTTTTTTTTTTTTTTTTTTTTTTTT
52 52 A F E - D 0 45A 2 26 0 FFFFFFFFFFFFFFFFFFFFFFFFF
53 53 A T E + D 0 44A 26 26 0 TTTTTTTTTTTTTTTTTTTTTTTTT
54 54 A V E -cD 7 43A 0 26 31 VVVVVVVVVVVVVVVVVVVVVVVAA
55 55 A T E D 0 42A 53 26 14 TTTTTTTTTTTTTTTTTTTTTTTIT
56 56 A E 0 0 120 26 6 EEEEEEEEEEEEEEEEEEEEEEEED
## SEQUENCE PROFILE AND ENTROPY
SeqNo PDBNo V L I M F W Y G A P S T C H R K Q E N D NOCC NDEL NINS ENTROPY RELENT WEIGHT
1 1 A 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 1 0 0 0.000 0 1.00
2 2 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 25 0 0 0.000 0 1.00
3 3 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 25 0 0 0.000 0 1.00
4 4 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 28 72 0 0 0 0 25 0 0 0.593 19 0.69
5 5 A 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 25 0 0 0.000 0 1.00
6 6 A 56 0 44 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 25 0 0 0.686 22 0.83
7 7 A 4 44 52 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 25 0 0 0.830 27 0.67
8 8 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 28 0 0 72 0 25 0 0 0.593 19 0.52
9 9 A 0 0 0 0 0 0 0 96 0 0 4 0 0 0 0 0 0 0 0 0 25 0 0 0.168 5 0.85
10 10 A 24 0 0 0 0 0 0 0 4 0 0 0 0 0 0 68 0 4 0 0 25 0 0 0.862 28 0.13
11 11 A 0 0 0 0 0 0 0 0 0 0 0 96 0 0 0 0 0 0 0 4 25 0 0 0.168 5 0.79
12 12 A 0 68 0 0 28 0 0 0 4 0 0 0 0 0 0 0 0 0 0 0 25 0 0 0.747 24 0.61
13 13 A 0 0 0 0 0 0 0 0 0 0 28 0 0 0 0 68 4 0 0 0 25 0 0 0.747 24 0.29
14 14 A 0 0 4 0 0 0 0 96 0 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.163 5 0.75
15 15 A 0 0 0 0 0 0 0 0 4 0 0 4 0 0 0 0 12 81 0 0 26 0 0 0.672 22 0.62
16 16 A 0 0 0 0 0 0 0 0 0 0 4 96 0 0 0 0 0 0 0 0 26 0 0 0.163 5 0.83
17 17 A 0 0 0 0 0 0 0 0 23 0 4 69 0 0 0 0 0 4 0 0 26 0 0 0.844 28 0.42
18 18 A 4 0 0 0 0 0 4 0 0 0 0 92 0 0 0 0 0 0 0 0 26 0 0 0.325 10 0.61
19 19 A 0 0 0 0 0 0 0 0 0 0 0 4 0 0 0 50 0 46 0 0 26 0 0 0.829 27 0.39
20 20 A 0 0 0 0 0 0 0 0 96 0 0 4 0 0 0 0 0 0 0 0 26 0 0 0.163 5 0.95
21 21 A 92 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 0 0 26 0 0 0.271 9 0.61
22 22 A 0 0 0 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 0 92 26 0 0 0.271 9 0.69
23 23 A 8 0 0 0 0 0 0 0 92 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.271 9 0.77
24 24 A 0 0 0 0 0 0 0 0 73 0 0 0 0 0 0 0 0 27 0 0 26 0 0 0.582 19 0.56
25 25 A 0 4 0 0 0 0 0 0 0 0 0 92 0 0 0 0 4 0 0 0 26 0 0 0.325 10 0.61
26 26 A 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.000 0 1.00
27 27 A 0 0 0 0 0 0 0 4 0 0 0 0 0 0 0 0 0 96 0 0 26 0 0 0.163 5 0.86
28 28 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 69 31 0 0 0 26 0 0 0.617 20 0.49
29 29 A 46 0 0 0 0 0 8 0 27 0 0 19 0 0 0 0 0 0 0 0 26 0 0 1.224 40 0.11
30 30 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.000 0 1.00
31 31 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 31 69 0 0 0 0 26 0 0 0.617 20 0.68
32 32 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 92 0 4 4 26 0 0 0.325 10 0.77
33 33 A 0 0 0 0 4 0 96 0 0 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.163 5 0.99
34 34 A 8 0 0 0 0 0 0 0 92 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.271 9 0.69
35 35 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 26 0 0 0.000 0 1.00
36 36 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 19 4 77 26 0 0 0.644 21 0.77
37 37 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 0 26 0 0 0.000 0 1.00
38 38 A 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 26 0 2 0.000 0 1.00
39 39 A 81 0 12 0 0 0 0 8 0 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.619 20 0.61
40 40 A 0 0 0 0 0 0 0 0 0 0 0 27 0 0 0 0 0 0 0 73 26 0 0 0.582 19 0.48
41 41 A 0 8 0 0 0 0 0 92 0 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.271 9 0.52
42 42 A 19 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 81 0 0 26 0 0 0.490 16 0.63
43 43 A 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.000 0 1.00
44 44 A 0 0 0 0 0 0 0 0 27 0 8 65 0 0 0 0 0 0 0 0 26 0 0 0.828 27 0.36
45 45 A 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.000 0 1.00
46 46 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 100 26 0 0 0.000 0 1.00
47 47 A 0 0 0 0 0 0 0 0 15 4 0 12 0 0 0 0 0 4 0 65 26 0 0 1.066 35 0.33
48 48 A 0 0 0 0 0 0 0 0 96 0 0 0 0 0 0 0 0 0 0 4 26 0 0 0.163 5 0.87
49 49 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 26 0 0 0.000 0 1.00
50 50 A 0 0 0 0 0 0 4 0 0 0 0 0 0 0 0 96 0 0 0 0 26 0 0 0.163 5 0.71
51 51 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 26 0 0 0.000 0 1.00
52 52 A 0 0 0 0 100 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.000 0 1.00
53 53 A 0 0 0 0 0 0 0 0 0 0 0 100 0 0 0 0 0 0 0 0 26 0 0 0.000 0 1.00
54 54 A 92 0 0 0 0 0 0 0 8 0 0 0 0 0 0 0 0 0 0 0 26 0 0 0.271 9 0.69
55 55 A 0 0 4 0 0 0 0 0 0 0 0 96 0 0 0 0 0 0 0 0 26 0 0 0.163 5 0.86
56 56 A 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 0 96 0 4 26 0 0 0.163 5 0.93
## INSERTION LIST
AliNo IPOS JPOS Len Sequence
24 26 483 1 gLg
25 38 80 1 gLg
//