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= 040744
(440 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1CNF|A Chain A, Structural Studies On Corn Nitrate Reductase: Refined
Structure Of The Cytochrome B Reductase Fragment At 2.5
Angstroms, Its Adp Complex And An Active Site Mutant And
Modeling Of The Cytochrome B Domain
pdb|2CND|A Chain A, Structural Studies On Corn Nitrate Reductase: Refined
Structure Of The Cytochrome B Reductase Fragment At 2.5
Angstroms, Its Adp Complex And An Active Site Mutant And
Modeling Of The Cytochrome B Domain
Length = 270
Score = 35.4 bits (80), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 42/172 (24%), Positives = 65/172 (37%), Gaps = 34/172 (19%)
Query: 63 ISVSKLSSLNFVTRVQVPVPSISFGVPSSGHKFI--------------PSNLCSSVASFP 108
++ +LS + R +P P G+P H F+ P+++ + F
Sbjct: 18 VAKKELSRDVRLFRFSLPSPDQVLGLPIGKHIFVCATIEGKLCMRAYTPTSMVDEIGHFD 77
Query: 109 LLVNVYQSAELAKASKPTKTTGSIPASYSDVLYRWHLPETDAIDVSGTSDCLAMKSRTVV 168
LLV VY K P G + Y D LP IDV G + R
Sbjct: 78 LLVKVY-----FKNEHPKFPNGGLMTQYLD-----SLPVGSYIDVKGPLGHVEYTGRGSF 127
Query: 169 VLLGWLGAKQKHLRKYAEWYTSKGFHVITFTFPMAEILSYQVGGKAEQNIEL 220
V+ G KQ++ R+ A G IT PM +I+ + + E + E+
Sbjct: 128 VING----KQRNARRLAMICGGSG---IT---PMYQIIQAVLRDQPEDHTEM 169
>pdb|1CNE|A Chain A, Structural Studies On Corn Nitrate Reductase: Refined
Structure Of The Cytochrome B Reductase Fragment At 2.5
Angstroms, Its Adp Complex And An Active Site Mutant And
Modeling Of The Cytochrome B Domain
Length = 270
Score = 35.4 bits (80), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 42/172 (24%), Positives = 65/172 (37%), Gaps = 34/172 (19%)
Query: 63 ISVSKLSSLNFVTRVQVPVPSISFGVPSSGHKFI--------------PSNLCSSVASFP 108
++ +LS + R +P P G+P H F+ P+++ + F
Sbjct: 18 VAKKELSRDVRLFRFSLPSPDQVLGLPIGKHIFVCATIEGKLCMRAYTPTSMVDEIGHFD 77
Query: 109 LLVNVYQSAELAKASKPTKTTGSIPASYSDVLYRWHLPETDAIDVSGTSDCLAMKSRTVV 168
LLV VY K P G + Y D LP IDV G + R
Sbjct: 78 LLVKVY-----FKNEHPKFPNGGLMTQYLD-----SLPVGSYIDVKGPLGHVEYTGRGSF 127
Query: 169 VLLGWLGAKQKHLRKYAEWYTSKGFHVITFTFPMAEILSYQVGGKAEQNIEL 220
V+ G KQ++ R+ A G IT PM +I+ + + E + E+
Sbjct: 128 VING----KQRNARRLAMICGGSG---IT---PMYQIIQAVLRDQPEDHTEM 169
>pdb|2I7H|A Chain A, Crystal Structure Of The Nitroreductase-like Family
Protein From Bacillus Cereus
pdb|2I7H|B Chain B, Crystal Structure Of The Nitroreductase-like Family
Protein From Bacillus Cereus
pdb|2I7H|C Chain C, Crystal Structure Of The Nitroreductase-like Family
Protein From Bacillus Cereus
pdb|2I7H|D Chain D, Crystal Structure Of The Nitroreductase-like Family
Protein From Bacillus Cereus
pdb|2I7H|E Chain E, Crystal Structure Of The Nitroreductase-like Family
Protein From Bacillus Cereus
pdb|2I7H|F Chain F, Crystal Structure Of The Nitroreductase-like Family
Protein From Bacillus Cereus
Length = 189
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 36/74 (48%), Gaps = 8/74 (10%)
Query: 365 QPACPQLYIYSSADRVIPAESVESFIEEQRKAGREVRACNFVSTPH--VDHFRNDPKLYT 422
+P +LYI +++ A + SF EE+R ++ + F+STP V + DP+
Sbjct: 50 EPWNCKLYIGEGRKKLVDA-VLNSFTEEERAKRGKILSDRFLSTPAQIVVYXNEDPRQI- 107
Query: 423 TQLSQFLEDYVVTC 436
Q EDY TC
Sbjct: 108 ----QRDEDYAATC 117
>pdb|2WE8|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Rv0376c
Homologue From Mycobacterium Smegmatis
pdb|2WE8|B Chain B, Crystal Structure Of Mycobacterium Tuberculosis Rv0376c
Homologue From Mycobacterium Smegmatis
Length = 386
Score = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 41/143 (28%), Positives = 59/143 (41%), Gaps = 32/143 (22%)
Query: 247 LTYGAILEKF-----QNKDPSLMGRIRGCIVDSAPVA------SPDPQVWASGFSAAFLK 295
LT G IL+ F Q P L G IR I PVA PD Q W
Sbjct: 93 LTCGGILDVFVEPVSQKTFPQL-GAIRDDIEAQRPVAVATVITHPDAQ-W---------- 140
Query: 296 KNSVATKGIVYTNELETDELVGSRASGEPKPAVTETALLVVLEKFFEVILHLPAVNRRLS 355
+ + +V+T DE+ GS S AVT+ A ++ EV+ + P RR
Sbjct: 141 ---IGRRLVVHT-----DEVAGSLGSSRADAAVTDDARGLLAAGRSEVLTYGPDGQRRGE 192
Query: 356 DVLGLLSSGQPACPQLYIYSSAD 378
+ +SS P P++ ++ + D
Sbjct: 193 GMEVFVSSYAPR-PRMLVFGAID 214
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
0.317 0.131 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,375,598
Number of Sequences: 62578
Number of extensions: 498613
Number of successful extensions: 1210
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1210
Number of HSP's gapped (non-prelim): 5
length of query: 440
length of database: 14,973,337
effective HSP length: 102
effective length of query: 338
effective length of database: 8,590,381
effective search space: 2903548778
effective search space used: 2903548778
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)