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= 011201
(491 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1SB8|A Chain A, Crystal Structure Of Pseudomonas Aeruginosa
Udp-N-Acetylglucosamine 4- Epimerase Complexed With
Udp-N-Acetylgalactosamine
pdb|1SB9|A Chain A, Crystal Structure Of Pseudomonas Aeruginosa
Udp-N-Acetylglucosamine 4- Epimerase Complexed With
Udp-Glucose
Length = 352
Score = 32.3 bits (72), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 37/80 (46%), Gaps = 7/80 (8%)
Query: 374 GLRRLRKGVEASGLMEKMLKEGILPDSVTFNCLLE---DLCDVGRTVDADRLRLLASTKG 430
G R+ G A+ ++ K I D V N E D C + TV A+ LLA+T G
Sbjct: 209 GRRQDPNGAYAA-VIPKWTSSMIQGDDVYINGDGETSRDFCYIENTVQAN---LLAATAG 264
Query: 431 LDPDGMTYHILVSGYTRENR 450
LD Y+I V G T N+
Sbjct: 265 LDARNQVYNIAVGGRTSLNQ 284
>pdb|1PZN|A Chain A, Rad51 (Rada)
pdb|1PZN|B Chain B, Rad51 (Rada)
pdb|1PZN|C Chain C, Rad51 (Rada)
pdb|1PZN|D Chain D, Rad51 (Rada)
pdb|1PZN|E Chain E, Rad51 (Rada)
pdb|1PZN|F Chain F, Rad51 (Rada)
pdb|1PZN|G Chain G, Rad51 (Rada)
Length = 349
Score = 32.0 bits (71), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 4/57 (7%)
Query: 411 CDVGRTVDADRLRLLASTKGLDPDGMTYHILVSGYTRENRR----KEGENLVNEMLD 463
D T +R+R +A +GLDPD + HI V+ N + ++ E+ + E+L+
Sbjct: 171 IDTENTFRPERIREIAQNRGLDPDEVLKHIYVARAFNSNHQXLLVQQAEDKIKELLN 227
>pdb|4A6P|A Chain A, Rada C-Terminal Atpase Domain From Pyrococcus Furiosus
pdb|4A6X|A Chain A, Rada C-Terminal Atpase Domain From Pyrococcus Furiosus
Bound To Atp
pdb|4A6X|B Chain B, Rada C-Terminal Atpase Domain From Pyrococcus Furiosus
Bound To Atp
pdb|4A74|A Chain A, Rada C-Terminal Atpase Domain From Pyrococcus Furiosus
Bound To Amppnp
pdb|4A74|B Chain B, Rada C-Terminal Atpase Domain From Pyrococcus Furiosus
Bound To Amppnp
pdb|4A7O|A Chain A, Rada C-Terminal Atpase Domain From Pyrococcus Furiosus
Bound To Adp
Length = 231
Score = 32.0 bits (71), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 37/75 (49%), Gaps = 11/75 (14%)
Query: 393 KEGILPDSVTFNCLLEDLCDVGRTVDADRLRLLASTKGLDPDGMTYHILVSGYTRENRR- 451
+EG L SV + D T +R+R +A +GLDPD + HI V+ N +
Sbjct: 54 EEGGLNGSVIW-------IDTENTFRPERIREIAQNRGLDPDEVLKHIYVARAFNSNHQM 106
Query: 452 ---KEGENLVNEMLD 463
++ E+ + E+L+
Sbjct: 107 LLVQQAEDKIKELLN 121
>pdb|3IB7|A Chain A, Crystal Structure Of Full Length Rv0805
pdb|3IB8|A Chain A, Crystal Structure Of Full Length Rv0805 In Complex With
5'-amp
Length = 330
Score = 32.0 bits (71), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 33/64 (51%), Gaps = 7/64 (10%)
Query: 366 IACTTLIEGLRRLRKGVEASG----LMEKMLKEGILPDSVTFNCLLEDLCDVGRTVDADR 421
I+ T LI G RRL V+A L+E++ + G+ PD++ F DL D G +
Sbjct: 31 ISDTHLIGGDRRLYGAVDADDRLGELLEQLNQSGLRPDAIVFTG---DLADKGEPAAYRK 87
Query: 422 LRLL 425
LR L
Sbjct: 88 LRGL 91
>pdb|4B2I|A Chain A, Humanised Monomeric Rada In Complex With Indazole
pdb|4B2L|A Chain A, Humanised Monomeric Rada In Complex With L-methylester
Tryptophan
pdb|4B32|A Chain A, Humanised Monomeric Rada In Complex With Napht-1-ol
pdb|4B33|A Chain A, Humanised Monomeric Rada In Complex With Napht-2-ol
pdb|4B34|A Chain A, Humanised Monomeric Rada In Complex With 2-amino
Benzothiazole
pdb|4B35|A Chain A, Humanised Monomeric Rada In Complex With 4-methylester
Indole
pdb|4B3C|A Chain A, Humanised Monomeric Rada In Complex With 5-hydroxy Indole
pdb|4B3D|A Chain A, Humanised Monomeric Rada In Complex With 5-methyl Indole
pdb|4B3D|C Chain C, Humanised Monomeric Rada In Complex With 5-methyl Indole
pdb|4B3B|A Chain A, Humanised Monomeric Rada In Complex With Fhta Tetrapeptide
Length = 231
Score = 31.6 bits (70), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 37/75 (49%), Gaps = 11/75 (14%)
Query: 393 KEGILPDSVTFNCLLEDLCDVGRTVDADRLRLLASTKGLDPDGMTYHILVSGYTRENRR- 451
+EG L SV + D T +R+R +A +GLDPD + HI + N +
Sbjct: 54 EEGGLNGSVMW-------IDTENTFRPERIREIAQNRGLDPDEVLKHIAYARAFNSNHQM 106
Query: 452 ---KEGENLVNEMLD 463
++ E+++ E+L+
Sbjct: 107 LLVQQAEDMIKELLN 121
>pdb|2HY1|A Chain A, Crystal Structure Of Rv0805
Length = 280
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 33/64 (51%), Gaps = 7/64 (10%)
Query: 366 IACTTLIEGLRRLRKGVEASG----LMEKMLKEGILPDSVTFNCLLEDLCDVGRTVDADR 421
I+ T LI G RRL V+A L+E++ + G+ PD++ F DL D G +
Sbjct: 21 ISDTHLIGGDRRLYGAVDADDRLGELLEQLNQSGLRPDAIVFTG---DLADKGEPAAYRK 77
Query: 422 LRLL 425
LR L
Sbjct: 78 LRGL 81
>pdb|2HYO|A Chain A, Crystal Structure Of Rv0805 N97a Mutant
Length = 280
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 33/64 (51%), Gaps = 7/64 (10%)
Query: 366 IACTTLIEGLRRLRKGVEASG----LMEKMLKEGILPDSVTFNCLLEDLCDVGRTVDADR 421
I+ T LI G RRL V+A L+E++ + G+ PD++ F DL D G +
Sbjct: 21 ISDTHLIGGDRRLYGAVDADDRLGELLEQLNQSGLRPDAIVFTG---DLADKGEPAAYRK 77
Query: 422 LRLL 425
LR L
Sbjct: 78 LRGL 81
>pdb|1YO6|A Chain A, Crystal Structure Of The Putative Carbonyl Reductase
Sniffer Of Caenorhabditis Elegans
pdb|1YO6|B Chain B, Crystal Structure Of The Putative Carbonyl Reductase
Sniffer Of Caenorhabditis Elegans
pdb|1YO6|C Chain C, Crystal Structure Of The Putative Carbonyl Reductase
Sniffer Of Caenorhabditis Elegans
pdb|1YO6|D Chain D, Crystal Structure Of The Putative Carbonyl Reductase
Sniffer Of Caenorhabditis Elegans
pdb|1YO6|E Chain E, Crystal Structure Of The Putative Carbonyl Reductase
Sniffer Of Caenorhabditis Elegans
pdb|1YO6|F Chain F, Crystal Structure Of The Putative Carbonyl Reductase
Sniffer Of Caenorhabditis Elegans
Length = 250
Score = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 42/89 (47%), Gaps = 9/89 (10%)
Query: 344 GNAGIALEVVDELWKKGNLPSVIACTTLIEGLRRLRKGVEASGLMEKMLKEGILPDSVTF 403
N GI L +V +L K N+ +IA R + K E + + + +LP +VT
Sbjct: 11 ANRGIGLGLVQQLVKDKNIRHIIATA------RDVEKATELKSIKDSRVH--VLPLTVTC 62
Query: 404 NCLLED-LCDVGRTVDADRLRLLASTKGL 431
+ L+ + VG V +D L LL + G+
Sbjct: 63 DKSLDTFVSKVGEIVGSDGLSLLINNAGV 91
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
0.325 0.141 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,209,905
Number of Sequences: 62578
Number of extensions: 538276
Number of successful extensions: 1816
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1813
Number of HSP's gapped (non-prelim): 8
length of query: 491
length of database: 14,973,337
effective HSP length: 103
effective length of query: 388
effective length of database: 8,527,803
effective search space: 3308787564
effective search space used: 3308787564
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (25.0 bits)