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= 003789
(795 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2J7N|A Chain A, Structure Of The Rnai Polymerase From Neurospora Crassa
pdb|2J7N|B Chain B, Structure Of The Rnai Polymerase From Neurospora Crassa
pdb|2J7O|A Chain A, Structure Of The Rnai Polymerase From Neurospora Crassa
Length = 1022
Score = 82.4 bits (202), Expect = 9e-16, Method: Compositional matrix adjust.
Identities = 90/358 (25%), Positives = 144/358 (40%), Gaps = 54/358 (15%)
Query: 218 GITYCFSDGIGKISAELAEIVAKNCGFTIYTPSAFQIRYGGYKG--VVAVDPTS-----S 270
G +DG+G++S +A+ + G PSA Q R+G KG V+ VD T
Sbjct: 322 GTGEVMNDGVGRMSRSVAKRIRDVLGLGD-VPSAVQGRFGSAKGMWVIDVDDTGDEDWIE 380
Query: 271 TKLSLRKSMLKY-KSESTSLDILA-NSKYQPCFLNRQLITLLS---------TLGIRDHV 319
T S RK + +L++ + S+ + LN QL+ +L I D +
Sbjct: 381 TYPSQRKWECDFVDKHQRTLEVRSVASELKSAGLNLQLLPVLEDRARDKVKMRQAIGDRL 440
Query: 320 FEKKQREGVAQLDAILTDPLKAHEALELMSSGENTNV------------------LKELL 361
QR+ Q A L P++ + + S T V L L+
Sbjct: 441 INDLQRQFSEQKHA-LNRPVEFRQWVYESYSSRATRVSHGRVPFLAGLPDSQEETLNFLM 499
Query: 362 MCGYKPDVEPFLLMMLQTFRASNLLELRTRTRIFIQNGRAMMGCLDETGTLESGQVFVQC 421
G+ P + +L + + L+++ I + + D G LE +V V
Sbjct: 500 NSGFDPKKQKYLQDIAWDLQKRKCDTLKSKLNIRVGRSAYIYMIADFWGVLEENEVHVGF 559
Query: 422 SASRRRE----FLDNSCNNRSXXXXXXXXXXXXAKNPCLHPGDMRVLRAVDVPSLHHMVD 477
S+ R E L + C+ A++P P D++ +RAV P LH + D
Sbjct: 560 SSKFRDEEESFTLLSDCD------------VLVARSPAHFPSDIQRVRAVFKPELHSLKD 607
Query: 478 CVVFPAKGKRPHTNECSGSDLDGDVYFVCWDHELIPPLQFPPMDYTPAPEKVLARDMT 535
++F KG P + SG D DGD+ +VCWD E++ M P + L +D T
Sbjct: 608 VIIFSTKGDVPLAKKLSGGDYDGDMAWVCWDPEIVDGFVNAEMPLEPDLSRYLKKDKT 665
>pdb|4ESO|A Chain A, Crystal Structure Of A Putative Oxidoreductase Protein
From Sinorhizobium Meliloti 1021 In Complex With Nadp
pdb|4ESO|B Chain B, Crystal Structure Of A Putative Oxidoreductase Protein
From Sinorhizobium Meliloti 1021 In Complex With Nadp
pdb|4ESO|C Chain C, Crystal Structure Of A Putative Oxidoreductase Protein
From Sinorhizobium Meliloti 1021 In Complex With Nadp
pdb|4ESO|D Chain D, Crystal Structure Of A Putative Oxidoreductase Protein
From Sinorhizobium Meliloti 1021 In Complex With Nadp
Length = 255
Score = 32.0 bits (71), Expect = 1.3, Method: Composition-based stats.
Identities = 26/96 (27%), Positives = 41/96 (42%), Gaps = 9/96 (9%)
Query: 129 RNGIVIGDKKFETLAFSNSQVKDNSMWMFASRPELTAADIRESMG--------DFRDIKN 180
+ IVIG LA V+ + + R E A IRE G D D+
Sbjct: 9 KKAIVIGGTHGXGLATVRRLVEGGAEVLLTGRNESNIARIREEFGPRVHALRSDIADLNE 68
Query: 181 VAKYAARLGQSFGSSREALHVDSSDIEIIPDVEVED 216
+A A GQ+ G+ + LH+++ E+ P +V +
Sbjct: 69 IAVLGAAAGQTLGAI-DLLHINAGVSELEPFDQVSE 103
>pdb|3VC7|A Chain A, Crystal Structure Of A Putative Oxidoreductase From
Sinorhizobium Meliloti 1021
pdb|3VC7|B Chain B, Crystal Structure Of A Putative Oxidoreductase From
Sinorhizobium Meliloti 1021
Length = 254
Score = 32.0 bits (71), Expect = 1.3, Method: Composition-based stats.
Identities = 26/96 (27%), Positives = 41/96 (42%), Gaps = 9/96 (9%)
Query: 129 RNGIVIGDKKFETLAFSNSQVKDNSMWMFASRPELTAADIRESMG--------DFRDIKN 180
+ IVIG LA V+ + + R E A IRE G D D+
Sbjct: 8 KKAIVIGGTHGXGLATVRRLVEGGAEVLLTGRNESNIARIREEFGPRVHALRSDIADLNE 67
Query: 181 VAKYAARLGQSFGSSREALHVDSSDIEIIPDVEVED 216
+A A GQ+ G+ + LH+++ E+ P +V +
Sbjct: 68 IAVLGAAAGQTLGAI-DLLHINAGVSELEPFDQVSE 102
>pdb|4GJ1|A Chain A, Crystal Structure Of
1-(5-Phosphoribosyl)-5-[(5-Phosphoribosylamino)
Methylideneamino] Imidazole-4-Carboxamide Isomerase
(Hisa)
Length = 243
Score = 30.8 bits (68), Expect = 3.3, Method: Composition-based stats.
Identities = 22/80 (27%), Positives = 36/80 (45%), Gaps = 6/80 (7%)
Query: 617 CYESQRVIGKLYRAVKDIAPPTATIKSFTKEVAMQSYDTDMEVDGFEDYITDAFKYKTEY 676
C + VIG A+KD +K F E + + DT ++ EDY+ ++
Sbjct: 96 CGVKRVVIGSX--AIKDATLCLEILKEFGSEAIVLALDTILK----EDYVVAVNAWQEAS 149
Query: 677 DNRLGNLMDYYGIKTEAEIL 696
D +L ++D+Y K IL
Sbjct: 150 DKKLXEVLDFYSNKGLKHIL 169
>pdb|3SLJ|A Chain A, Pre-Cleavage Structure Of The Autotransporter Espp -
N1023a Mutant
Length = 313
Score = 30.4 bits (67), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 22/91 (24%), Positives = 41/91 (45%), Gaps = 4/91 (4%)
Query: 166 ADIRESMGDFRDIKNVAKYAARLGQSFGSSREALHVDSSDIEIIPDVEVEDDGI----TY 221
A++ + MGD RDI A AR+ GS+ + + +++ D + E DG+ +
Sbjct: 36 ANLNKRMGDLRDINGEAGAWARIMSGTGSASGGFSDNYTHVQVGVDKKHELDGLDLFTGF 95
Query: 222 CFSDGIGKISAELAEIVAKNCGFTIYTPSAF 252
+ SA++ K+ G +Y + F
Sbjct: 96 TVTHTDSSASADVFSGKTKSVGAGLYASAMF 126
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
0.319 0.135 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,825,119
Number of Sequences: 62578
Number of extensions: 941256
Number of successful extensions: 2433
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 2431
Number of HSP's gapped (non-prelim): 8
length of query: 795
length of database: 14,973,337
effective HSP length: 107
effective length of query: 688
effective length of database: 8,277,491
effective search space: 5694913808
effective search space used: 5694913808
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)