BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy8909
(138 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1R6F|A Chain A, The Structure Of Yersinia Pestis V-Antigen, An Essential
Virulence Factor And Mediator Of Immunity Against Plague
Length = 310
Score = 28.9 bits (63), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 36/69 (52%), Gaps = 5/69 (7%)
Query: 29 HDPRLNELATNMFKKTADYLIGELNSTQADYEVLEKMNNATITKYSDMKQITVNISNSIE 88
HD +N + N++ T + E+ A+Y++LEKM TI K+I V+I + +
Sbjct: 165 HDKSINLMDKNLYGYTDE----EIFKASAEYKILEKMPQTTIQVDGSEKKI-VSIKDFLG 219
Query: 89 EQNQRYKQL 97
+N+R L
Sbjct: 220 SENKRTGAL 228
>pdb|2PTF|A Chain A, Crystal Structure Of Protein Mth_863 From Methanobacterium
Thermoautotrophicum Bound To Fmn
pdb|2PTF|B Chain B, Crystal Structure Of Protein Mth_863 From Methanobacterium
Thermoautotrophicum Bound To Fmn
Length = 233
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 3/47 (6%)
Query: 2 TENVENSLSNKMTSLSTSTSSFEPMISHDPRLNELATNMFKKTADYL 48
T VEN L+N +++ + +P+I D L +L +MF D+L
Sbjct: 72 TRTVENVLNNGRFTVNVT---LDPLIFTDSTLGDLEEDMFSHYRDFL 115
>pdb|3L1W|A Chain A, The Crystal Structure Of A Functionally Unknown Conserved
Protein From Enterococcus Faecalis V583
pdb|3L1W|B Chain B, The Crystal Structure Of A Functionally Unknown Conserved
Protein From Enterococcus Faecalis V583
pdb|3L1W|C Chain C, The Crystal Structure Of A Functionally Unknown Conserved
Protein From Enterococcus Faecalis V583
pdb|3L1W|D Chain D, The Crystal Structure Of A Functionally Unknown Conserved
Protein From Enterococcus Faecalis V583
pdb|3L1W|E Chain E, The Crystal Structure Of A Functionally Unknown Conserved
Protein From Enterococcus Faecalis V583
pdb|3L1W|F Chain F, The Crystal Structure Of A Functionally Unknown Conserved
Protein From Enterococcus Faecalis V583
Length = 257
Score = 27.7 bits (60), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 39/91 (42%), Gaps = 5/91 (5%)
Query: 48 LIGELNSTQADYEVLEKMNNATITKYSDMKQITVNISNSIEEQNQRYKQLIPQLEQIDQI 107
L G+ N+ E E+++ K+ D K + + QN Y + +LE+ID I
Sbjct: 163 LXGDFNA-----ESGEEVHQLVQKKFQDSKNLATHYGPRGTFQNFTYTKPWAELEEIDYI 217
Query: 108 YDSVLKLEQAAYKLDHYAKRLEAKFKQLEKQ 138
Y +++Q A D R + LE +
Sbjct: 218 YVKGWQVQQTASLTDSIDGRFPSDHFPLEAE 248
>pdb|1EWF|A Chain A, The 1.7 Angstrom Crystal Structure Of Bpi
Length = 456
Score = 27.3 bits (59), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 44/101 (43%), Gaps = 20/101 (19%)
Query: 7 NSLSNKMTSLSTSTSSFEPMISHDPRLNELATNMFKKTADYLIGELNSTQADYEVLEKMN 66
N S K T +S SS +N + ++ K +LI +L + + + KMN
Sbjct: 122 NPTSGKPTITCSSCSS---------HINSVHVHISKSKVGWLI-QLFHKKIESALRNKMN 171
Query: 67 NATITKYSDMKQITVNISNSIEEQNQRYKQLIPQLEQIDQI 107
+ Q+ ++NS+ + Q Y Q +P + +ID +
Sbjct: 172 S----------QVCEKVTNSVSSELQPYFQTLPVMTKIDSV 202
>pdb|1BP1|A Chain A, Crystal Structure Of Bpi, The Human Bactericidal
Permeability-Increasing Protein
Length = 456
Score = 27.3 bits (59), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 44/101 (43%), Gaps = 20/101 (19%)
Query: 7 NSLSNKMTSLSTSTSSFEPMISHDPRLNELATNMFKKTADYLIGELNSTQADYEVLEKMN 66
N S K T +S SS +N + ++ K +LI +L + + + KMN
Sbjct: 122 NPTSGKPTITCSSCSS---------HINSVHVHISKSKVGWLI-QLFHKKIESALRNKMN 171
Query: 67 NATITKYSDMKQITVNISNSIEEQNQRYKQLIPQLEQIDQI 107
+ Q+ ++NS+ + Q Y Q +P + +ID +
Sbjct: 172 S----------QVCEKVTNSVSSKLQPYFQTLPVMTKIDSV 202
>pdb|3KZW|A Chain A, Crystal Structure Of Cytosol Aminopeptidase From
Staphylococcus Aureus Col
pdb|3KZW|B Chain B, Crystal Structure Of Cytosol Aminopeptidase From
Staphylococcus Aureus Col
pdb|3KZW|C Chain C, Crystal Structure Of Cytosol Aminopeptidase From
Staphylococcus Aureus Col
pdb|3KZW|D Chain D, Crystal Structure Of Cytosol Aminopeptidase From
Staphylococcus Aureus Col
pdb|3KZW|E Chain E, Crystal Structure Of Cytosol Aminopeptidase From
Staphylococcus Aureus Col
pdb|3KZW|F Chain F, Crystal Structure Of Cytosol Aminopeptidase From
Staphylococcus Aureus Col
pdb|3KZW|G Chain G, Crystal Structure Of Cytosol Aminopeptidase From
Staphylococcus Aureus Col
pdb|3KZW|H Chain H, Crystal Structure Of Cytosol Aminopeptidase From
Staphylococcus Aureus Col
pdb|3KZW|I Chain I, Crystal Structure Of Cytosol Aminopeptidase From
Staphylococcus Aureus Col
pdb|3KZW|J Chain J, Crystal Structure Of Cytosol Aminopeptidase From
Staphylococcus Aureus Col
pdb|3KZW|K Chain K, Crystal Structure Of Cytosol Aminopeptidase From
Staphylococcus Aureus Col
pdb|3KZW|L Chain L, Crystal Structure Of Cytosol Aminopeptidase From
Staphylococcus Aureus Col
Length = 515
Score = 26.9 bits (58), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 23/97 (23%), Positives = 43/97 (44%), Gaps = 12/97 (12%)
Query: 49 IGELNSTQADYE------VLEKMNNATITKYSDMKQITVNI-----SNSIEEQNQRYKQL 97
+G++ +T D + + + N Y DM +I ++ S IE+
Sbjct: 78 VGKIYTTAFDVQDQTYRLITVGLGNLKTRSYQDMLKIWGHLFQYIKSEHIEDTYLLMDSF 137
Query: 98 IPQLEQI-DQIYDSVLKLEQAAYKLDHYAKRLEAKFK 133
I + +Q+ D + ++ E+A Y+ DHY +A FK
Sbjct: 138 ISKYDQLSDVLMACGIQSERATYEFDHYKSSKKAPFK 174
>pdb|2B5E|A Chain A, Crystal Structure Of Yeast Protein Disulfide Isomerase
pdb|3BOA|A Chain A, Crystal Structure Of Yeast Protein Disulfide Isomerase
Length = 504
Score = 26.2 bits (56), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 30/75 (40%), Gaps = 9/75 (12%)
Query: 23 FEPMISHDPRL----NELATNMFKKTADYLIGELNSTQADYEVLEKMNNATITKYSDMKQ 78
+ P H RL ELA T+D LI +L+ T+ D + TI Y K+
Sbjct: 384 YAPWCGHCKRLAPTYQELADTYANATSDVLIAKLDHTENDVRGVVIEGYPTIVLYPGGKK 443
Query: 79 ITVNISNSIEEQNQR 93
S S+ Q R
Sbjct: 444 -----SESVVYQGSR 453
>pdb|1NO1|A Chain A, Structure Of Truncated Variant Of B.Subtilis Spp1 Phage
G39p Helicase LoaderINHIBITOR PROTEIN
pdb|1NO1|B Chain B, Structure Of Truncated Variant Of B.Subtilis Spp1 Phage
G39p Helicase LoaderINHIBITOR PROTEIN
pdb|1NO1|C Chain C, Structure Of Truncated Variant Of B.Subtilis Spp1 Phage
G39p Helicase LoaderINHIBITOR PROTEIN
Length = 126
Score = 25.8 bits (55), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 30/51 (58%), Gaps = 2/51 (3%)
Query: 57 ADYEVLEKMNNATITKYSDMKQITVNISNSIEEQNQRYKQLIPQLEQIDQI 107
A+YE+ E NN +T Y+ + + +S+ ++ Q+++ + IP E+ +I
Sbjct: 38 AEYELEEIXNN--LTDYAKVNKFPPTVSDLLKAQSEQRDRFIPSYEETQRI 86
>pdb|3EUA|A Chain A, Crystal Structure Of A Putative Phosphosugar Isomerase
(Bsu32610) From Bacillus Subtilis At 1.90 A Resolution
pdb|3EUA|B Chain B, Crystal Structure Of A Putative Phosphosugar Isomerase
(Bsu32610) From Bacillus Subtilis At 1.90 A Resolution
pdb|3EUA|C Chain C, Crystal Structure Of A Putative Phosphosugar Isomerase
(Bsu32610) From Bacillus Subtilis At 1.90 A Resolution
pdb|3EUA|D Chain D, Crystal Structure Of A Putative Phosphosugar Isomerase
(Bsu32610) From Bacillus Subtilis At 1.90 A Resolution
pdb|3EUA|E Chain E, Crystal Structure Of A Putative Phosphosugar Isomerase
(Bsu32610) From Bacillus Subtilis At 1.90 A Resolution
pdb|3EUA|F Chain F, Crystal Structure Of A Putative Phosphosugar Isomerase
(Bsu32610) From Bacillus Subtilis At 1.90 A Resolution
pdb|3EUA|G Chain G, Crystal Structure Of A Putative Phosphosugar Isomerase
(Bsu32610) From Bacillus Subtilis At 1.90 A Resolution
pdb|3EUA|H Chain H, Crystal Structure Of A Putative Phosphosugar Isomerase
(Bsu32610) From Bacillus Subtilis At 1.90 A Resolution
Length = 329
Score = 25.8 bits (55), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 71 TKYSDMKQITVNISNSIEEQNQRYKQLIPQLEQIDQIYDSVLKLE 115
T Y + QI + + E N +++Q I L+Q+ +Y+ LK E
Sbjct: 136 TNYGVLYQIVFG-TLQVLENNTKFEQAIEGLDQLQAVYEKALKQE 179
>pdb|3SHG|A Chain A, Vbht Fic Protein From Bartonella Schoenbuchensis In
Complex With Vbha Antitoxin
Length = 205
Score = 25.4 bits (54), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 4/41 (9%)
Query: 18 TSTSSFEPMI----SHDPRLNELATNMFKKTADYLIGELNS 54
T S+ P I + + L L N F + A Y +GELN+
Sbjct: 94 TQIESYAPQITQQLAREQHLRGLDANEFSQRAGYYMGELNA 134
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.308 0.123 0.316
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,346,107
Number of Sequences: 62578
Number of extensions: 114280
Number of successful extensions: 340
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 331
Number of HSP's gapped (non-prelim): 27
length of query: 138
length of database: 14,973,337
effective HSP length: 89
effective length of query: 49
effective length of database: 9,403,895
effective search space: 460790855
effective search space used: 460790855
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 46 (22.3 bits)