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= 011435
(486 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3HRP|A Chain A, Crystal Structure Of Structural Genomics Protein Of
Unknown Function (np_812590.1) From Bacteroides
Thetaiotaomicron Vpi-5482 At 1.70 A Resolution
Length = 409
Score = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 41/125 (32%), Positives = 60/125 (48%), Gaps = 11/125 (8%)
Query: 77 PYKIRVSEDGELFAVDEVNSNIVKITPP-LSQYSRGRLVAGSFQGYTGHVDGKPNEARFN 135
PY I D + D+ S++ KITP ++ G + Q DG EA F
Sbjct: 270 PYLIYYFVDSNFYXSDQNLSSVYKITPDGECEWFCGSATQKTVQ------DGLREEALFA 323
Query: 136 HPKGVTMDDKGNLYVADTL-NLAIRK--IGDAGVTTIAGGKSNVAGFRDGPSEDAKFSND 192
P G T+D+ GN Y+ D +RK I D V+T+A G+ +VA DG +A F+
Sbjct: 324 QPNGXTVDEDGNFYIVDGFKGYCLRKLDILDGYVSTVA-GQVDVASQIDGTPLEATFNYP 382
Query: 193 FDVVY 197
+D+ Y
Sbjct: 383 YDICY 387
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 37/84 (44%), Gaps = 3/84 (3%)
Query: 77 PYKIRVSEDGELFAVDEVNSNIVKITPPLSQYSRGRLVAGSFQGYTGHVDGKPNEARFNH 136
P V EDG + VD ++ L Y VAG +DG P EA FN+
Sbjct: 325 PNGXTVDEDGNFYIVDGFKGYCLRKLDILDGYVS--TVAGQVD-VASQIDGTPLEATFNY 381
Query: 137 PKGVTMDDKGNLYVADTLNLAIRK 160
P + D +G ++A+ AIRK
Sbjct: 382 PYDICYDGEGGYWIAEAWGKAIRK 405
>pdb|3TC9|A Chain A, Crystal Structure Of A Hypothetical Hydrolase (Bt_3476)
From Bacteroides Thetaiotaomicron Vpi-5482 At 2.23 A
Resolution
pdb|3TC9|B Chain B, Crystal Structure Of A Hypothetical Hydrolase (Bt_3476)
From Bacteroides Thetaiotaomicron Vpi-5482 At 2.23 A
Resolution
Length = 430
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 36/121 (29%), Positives = 56/121 (46%), Gaps = 13/121 (10%)
Query: 113 LVAGSFQGYTGHVDGKPNEARFNHPKGVTM---------DDKGNLYVADTLNLAIRKIGD 163
+V G QG VDG +AR + P+ T D+ + Y D N IR +
Sbjct: 311 IVCGQ-QGAKDWVDGVGKKARXHAPRQGTFVKNPAYKGSSDEYDFYFCDRENHCIRILTP 369
Query: 164 AG-VTTIAG-GKSNVAGFRDGP-SEDAKFSNDFDVVYVRPTCSLLVIDRGNAALRQISLN 220
G VTT AG G + +G+ DG ++A+F++ +VY + DR N +R+I
Sbjct: 370 QGRVTTFAGRGSNGTSGYNDGDLRQEARFNHPEGIVYDEERECFFIGDRENRRIRKIGYE 429
Query: 221 Q 221
+
Sbjct: 430 E 430
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 30/86 (34%), Positives = 45/86 (52%), Gaps = 13/86 (15%)
Query: 83 SEDGELFAVDEVNSNIVKITPPLSQYSRGRLVA----GSFQGYTGHVDGK-PNEARFNHP 137
S++ + + D N I +TP +GR+ GS G +G+ DG EARFNHP
Sbjct: 349 SDEYDFYFCDRENHCIRILTP------QGRVTTFAGRGS-NGTSGYNDGDLRQEARFNHP 401
Query: 138 KGVTMD-DKGNLYVADTLNLAIRKIG 162
+G+ D ++ ++ D N IRKIG
Sbjct: 402 EGIVYDEERECFFIGDRENRRIRKIG 427
>pdb|3KYA|A Chain A, Crystal Structure Of Putative Phosphatase (Np_812416.1)
From Bacteroides Thetaiotaomicron Vpi-5482 At 1.77 A
Resolution
Length = 496
Score = 34.7 bits (78), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 31/119 (26%), Positives = 51/119 (42%), Gaps = 17/119 (14%)
Query: 122 TGHVDGKPNEARFNHP-KGV-------TMDDKGNLYVADTLNLAIRKIGDAGVTTIAGGK 173
+G+ D EAR N+P +GV T +++ + Y D LN +RK+ G+ + G+
Sbjct: 359 SGYRDDVGTEARXNNPCQGVFVKNPDYTGEEEYDFYFVDRLNFCVRKVTPEGIVSTYAGR 418
Query: 174 SNVAGFRDGPS---------EDAKFSNDFDVVYVRPTCSLLVIDRGNAALRQISLNQDD 223
DG E A+F + +VY V D+ +R IS Q++
Sbjct: 419 GASTSLADGNQWGTDDGDLREVARFRDVSGLVYDDVKEXFYVHDQVGHTIRTISXEQEE 477
>pdb|1RWI|B Chain B, Extracellular Domain Of Mycobacterium Tuberculosis Pknd
pdb|1RWI|A Chain A, Extracellular Domain Of Mycobacterium Tuberculosis Pknd
pdb|1RWL|A Chain A, Extracellular Domain Of Mycobacterium Tuberculosis Pknd
Length = 270
Score = 32.3 bits (72), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 38/85 (44%), Gaps = 18/85 (21%)
Query: 77 PYKIRVSEDGELFAVDEVNSNIVKITPPLSQYSRGRLVAGSFQGYTGHVDGKPNEARFNH 136
P + V G ++ D N+ +VK L+ S+ + V F G N
Sbjct: 110 PEGLAVDTQGAVYVADRGNNRVVK----LAAGSKTQTVL-PFTG-------------LND 151
Query: 137 PKGVTMDDKGNLYVADTLNLAIRKI 161
P GV +D+ GN+YV DT N + K+
Sbjct: 152 PDGVAVDNSGNVYVTDTDNNRVVKL 176
>pdb|2OHF|A Chain A, Crystal Structure Of Human Ola1 In Complex With Amppcp
Length = 396
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 20/31 (64%), Gaps = 1/31 (3%)
Query: 40 WTTRSSSKAPQADGNV-LQFENGYLVETVIE 69
WT R +KAPQA G + FE G+++ V++
Sbjct: 319 WTIRKGTKAPQAAGKIHTDFEKGFIMAEVMK 349
>pdb|1Q7S|A Chain A, Crystal Structure Of Bit1
pdb|1Q7S|B Chain B, Crystal Structure Of Bit1
Length = 117
Score = 28.5 bits (62), Expect = 7.7, Method: Composition-based stats.
Identities = 15/35 (42%), Positives = 18/35 (51%)
Query: 151 ADTLNLAIRKIGDAGVTTIAGGKSNVAGFRDGPSE 185
A L L + I DAG T IA G V G GP++
Sbjct: 71 AKMLGLTVSLIQDAGRTQIAPGSQTVLGIGPGPAD 105
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
0.314 0.133 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,856,186
Number of Sequences: 62578
Number of extensions: 636351
Number of successful extensions: 1142
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 1131
Number of HSP's gapped (non-prelim): 27
length of query: 486
length of database: 14,973,337
effective HSP length: 103
effective length of query: 383
effective length of database: 8,527,803
effective search space: 3266148549
effective search space used: 3266148549
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 53 (25.0 bits)