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= psy10980
(105 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2EPG|A Chain A, Crystal Structure Of Ttha1785
pdb|2EPG|B Chain B, Crystal Structure Of Ttha1785
Length = 487
Score = 47.8 bits (112), Expect = 2e-06, Method: Composition-based stats.
Identities = 22/46 (47%), Positives = 30/46 (65%)
Query: 5 RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
R A+ V EE PE+YK+V+ VV+ GI KK +LRP+ V+KG
Sbjct: 442 RAATRATVDEEXPEAYKDVSLVVEAVEGAGIGKKVARLRPLIVVKG 487
>pdb|1UC2|A Chain A, Hypothetical Extein Protein Of Ph1602 From Pyrococcus
Horikoshii
pdb|1UC2|B Chain B, Hypothetical Extein Protein Of Ph1602 From Pyrococcus
Horikoshii
pdb|4DWQ|A Chain A, Rtcb-GmpMN2+ COMPLEX
pdb|4DWQ|B Chain B, Rtcb-GmpMN2+ COMPLEX
Length = 481
Score = 41.6 bits (96), Expect = 1e-04, Method: Composition-based stats.
Identities = 17/31 (54%), Positives = 21/31 (67%)
Query: 69 SKEGQDYLKSMAAAANFAWVNRSSMTFLCRQ 99
S+EGQ Y +M AAANFAW NR +T R+
Sbjct: 275 SEEGQRYFSAMKAAANFAWANRQMITHWVRE 305
Score = 35.4 bits (80), Expect = 0.008, Method: Composition-based stats.
Identities = 22/46 (47%), Positives = 30/46 (65%)
Query: 5 RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
R AS ++V EEAP +YKNV +VV GI+K ++RP+ V KG
Sbjct: 436 RAASMRVVAEEAPGAYKNVDNVVKVVSEAGIAKLVARMRPIGVAKG 481
>pdb|4DWR|B Chain B, Rna Ligase RtcbMN2+ COMPLEX
pdb|4DWR|A Chain A, Rna Ligase RtcbMN2+ COMPLEX
pdb|4DWR|C Chain C, Rna Ligase RtcbMN2+ COMPLEX
Length = 487
Score = 41.6 bits (96), Expect = 1e-04, Method: Composition-based stats.
Identities = 17/31 (54%), Positives = 21/31 (67%)
Query: 69 SKEGQDYLKSMAAAANFAWVNRSSMTFLCRQ 99
S+EGQ Y +M AAANFAW NR +T R+
Sbjct: 275 SEEGQRYFSAMKAAANFAWANRQMITHWVRE 305
Score = 35.4 bits (80), Expect = 0.008, Method: Composition-based stats.
Identities = 22/46 (47%), Positives = 30/46 (65%)
Query: 5 RVASPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKG 50
R AS ++V EEAP +YKNV +VV GI+K ++RP+ V KG
Sbjct: 436 RAASMRVVAEEAPGAYKNVDNVVKVVSEAGIAKLVARMRPIGVAKG 481
>pdb|3NAH|A Chain A, Crystal Structures And Functional Analysis Of Murine
Norovirus Rna- Dependent Rna Polymerase
pdb|3NAH|B Chain B, Crystal Structures And Functional Analysis Of Murine
Norovirus Rna- Dependent Rna Polymerase
pdb|3NAH|C Chain C, Crystal Structures And Functional Analysis Of Murine
Norovirus Rna- Dependent Rna Polymerase
pdb|3NAI|A Chain A, Crystal Structures And Functional Analysis Of Murine
Norovirus Rna- Dependent Rna Polymerase
pdb|3NAI|B Chain B, Crystal Structures And Functional Analysis Of Murine
Norovirus Rna- Dependent Rna Polymerase
pdb|3NAI|C Chain C, Crystal Structures And Functional Analysis Of Murine
Norovirus Rna- Dependent Rna Polymerase
pdb|3QID|A Chain A, Crystal Structures And Functional Analysis Of Murine
Norovirus Rna- Dependent Rna Polymerase
pdb|3QID|B Chain B, Crystal Structures And Functional Analysis Of Murine
Norovirus Rna- Dependent Rna Polymerase
pdb|3QID|C Chain C, Crystal Structures And Functional Analysis Of Murine
Norovirus Rna- Dependent Rna Polymerase
pdb|3SFG|A Chain A, Crystal Structure Of Murine Norovirus Rna Dependent Rna
Polymerase In Complex With 2thiouridine(2tu)
pdb|3SFG|B Chain B, Crystal Structure Of Murine Norovirus Rna Dependent Rna
Polymerase In Complex With 2thiouridine(2tu)
pdb|3SFG|C Chain C, Crystal Structure Of Murine Norovirus Rna Dependent Rna
Polymerase In Complex With 2thiouridine(2tu)
pdb|3SFU|A Chain A, Crystal Structure Of Murine Norovirus Rna Dependent Rna
Polymerase In Complex With Ribavirin
pdb|3SFU|B Chain B, Crystal Structure Of Murine Norovirus Rna Dependent Rna
Polymerase In Complex With Ribavirin
pdb|3SFU|C Chain C, Crystal Structure Of Murine Norovirus Rna Dependent Rna
Polymerase In Complex With Ribavirin
Length = 517
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 40/95 (42%), Gaps = 7/95 (7%)
Query: 8 SPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKGQIKSWYLCGKAESFL-R 66
P +VM+E+ S+ +VV T + + K T LR ++ + K E L R
Sbjct: 328 DPDIVMQESEFSFYGDDEVVSTNLELDMVKYTMALRRYGLLPTR------ADKEEGPLER 381
Query: 67 INSKEGQDYLKSMAAAANFAWVNRSSMTFLCRQIL 101
+ +G +L+ F W R + RQ+L
Sbjct: 382 RQTLQGISFLRRAIVGDQFGWYGRLDRASIDRQLL 416
>pdb|3UQS|A Chain A, Crystal Structures Of Murine Norovirus Rna-Dependent Rna
Polymerase
pdb|3UQS|B Chain B, Crystal Structures Of Murine Norovirus Rna-Dependent Rna
Polymerase
pdb|3UQS|C Chain C, Crystal Structures Of Murine Norovirus Rna-Dependent Rna
Polymerase
pdb|3UR0|A Chain A, Crystal Structures Of Murine Norovirus Rna-Dependent Rna
Polymerase In Complex With Suramin
pdb|3UR0|B Chain B, Crystal Structures Of Murine Norovirus Rna-Dependent Rna
Polymerase In Complex With Suramin
pdb|3UR0|C Chain C, Crystal Structures Of Murine Norovirus Rna-Dependent Rna
Polymerase In Complex With Suramin
Length = 515
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 40/95 (42%), Gaps = 7/95 (7%)
Query: 8 SPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKGQIKSWYLCGKAESFL-R 66
P +VM+E+ S+ +VV T + + K T LR ++ + K E L R
Sbjct: 328 DPDIVMQESEFSFYGDDEVVSTNLELDMVKYTMALRRYGLLPTR------ADKEEGPLER 381
Query: 67 INSKEGQDYLKSMAAAANFAWVNRSSMTFLCRQIL 101
+ +G +L+ F W R + RQ+L
Sbjct: 382 RQTLQGISFLRRAIVGDQFGWYGRLDRASIDRQLL 416
>pdb|3UPF|A Chain A, Crystal Structure Of Murine Norovirus Rna-Dependent Rna
Polymerase Bound To Nf023
pdb|3UPF|B Chain B, Crystal Structure Of Murine Norovirus Rna-Dependent Rna
Polymerase Bound To Nf023
pdb|3UPF|C Chain C, Crystal Structure Of Murine Norovirus Rna-Dependent Rna
Polymerase Bound To Nf023
Length = 525
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 40/95 (42%), Gaps = 7/95 (7%)
Query: 8 SPKLVMEEAPESYKNVTDVVDTCHAVGISKKTFKLRPVAVIKGQIKSWYLCGKAESFL-R 66
P +VM+E+ S+ +VV T + + K T LR ++ + K E L R
Sbjct: 338 DPDIVMQESEFSFYGDDEVVSTNLELDMVKYTMALRRYGLLPTR------ADKEEGPLER 391
Query: 67 INSKEGQDYLKSMAAAANFAWVNRSSMTFLCRQIL 101
+ +G +L+ F W R + RQ+L
Sbjct: 392 RQTLQGISFLRRAIVGDQFGWYGRLDRASIDRQLL 426
>pdb|2X4M|A Chain A, Yersinia Pestis Plasminogen Activator Pla
pdb|2X4M|B Chain B, Yersinia Pestis Plasminogen Activator Pla
pdb|2X4M|C Chain C, Yersinia Pestis Plasminogen Activator Pla
pdb|2X4M|D Chain D, Yersinia Pestis Plasminogen Activator Pla
Length = 298
Score = 28.5 bits (62), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 5/57 (8%)
Query: 35 ISKKTFKLRPVAVIKGQIKSWYLCGKAESFLRINSKEGQDYLKSMAAAANFAWVNRS 91
IS+ +K++ VA++KG I SW SFL +N++ ++AW+N +
Sbjct: 40 ISQLDWKIKNVAILKGDI-SW----DPYSFLTLNARGWTSLASGSGNMDDYAWMNEN 91
>pdb|4DCB|A Chain A, Y. Pestis Plasminogen Activator Pla In Complex With
Human Plasminogen Activation Loop Peptide Alp11
Length = 297
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 29/57 (50%), Gaps = 5/57 (8%)
Query: 35 ISKKTFKLRPVAVIKGQIKSWYLCGKAESFLRINSKEGQDYLKSMAAAANFAWVNRS 91
IS+ +K++ VA++KG I SW SFL +N++ N+ W+N +
Sbjct: 36 ISQLDWKIKNVAILKGDI-SW----DPYSFLTLNARGWTSLASGSGNMDNYDWMNEN 87
>pdb|2W0U|A Chain A, Crystal Structure Of Human Glycolate Oxidase In Complex
With The Inhibitor 5-[(4-Chlorophenyl)sulfanyl]-
1,2,3-Thiadiazole-4-Carboxylate.
pdb|2W0U|B Chain B, Crystal Structure Of Human Glycolate Oxidase In Complex
With The Inhibitor 5-[(4-Chlorophenyl)sulfanyl]-
1,2,3-Thiadiazole-4-Carboxylate.
pdb|2W0U|C Chain C, Crystal Structure Of Human Glycolate Oxidase In Complex
With The Inhibitor 5-[(4-Chlorophenyl)sulfanyl]-
1,2,3-Thiadiazole-4-Carboxylate.
pdb|2W0U|D Chain D, Crystal Structure Of Human Glycolate Oxidase In Complex
With The Inhibitor 5-[(4-Chlorophenyl)sulfanyl]-
1,2,3-Thiadiazole-4-Carboxylate
Length = 370
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 59 GKAESFLRINSKEGQDYLKSMAAAANFAWVNR 90
GK E FL ++G D LK++A A +V R
Sbjct: 284 GKVEVFLDGGVRKGTDVLKALALGAKAVFVGR 315
>pdb|2RDT|A Chain A, Crystal Structure Of Human Glycolate Oxidase (Go) In
Complex With Cdst
pdb|2RDU|A Chain A, Crystal Structure Of Human Glycolate Oxidase In Complex
With Glyoxylate
pdb|2RDW|A Chain A, Crystal Structure Of Human Glycolate Oxidase In Complex
With Sulfate
Length = 387
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 59 GKAESFLRINSKEGQDYLKSMAAAANFAWVNR 90
GK E FL ++G D LK++A A +V R
Sbjct: 301 GKVEVFLDGGVRKGTDVLKALALGAKAVFVGR 332
>pdb|2NZL|A Chain A, Crystal Structure Of Human Hydroxyacid Oxidase 1
Length = 392
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 59 GKAESFLRINSKEGQDYLKSMAAAANFAWVNR 90
GK E FL ++G D LK++A A +V R
Sbjct: 306 GKVEVFLDGGVRKGTDVLKALALGAKAVFVGR 337
>pdb|2X56|A Chain A, Yersinia Pestis Plasminogen Activator Pla (Native)
Length = 292
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 29/57 (50%), Gaps = 5/57 (8%)
Query: 35 ISKKTFKLRPVAVIKGQIKSWYLCGKAESFLRINSKEGQDYLKSMAAAANFAWVNRS 91
IS+ +K++ VA++KG I SW SFL +N++ ++ W+N +
Sbjct: 40 ISQLDWKIKNVAILKGDI-SW----DPYSFLTLNARGWTSLASGSGNMDDYDWMNEN 91
>pdb|2X55|A Chain A, Yersinia Pestis Plasminogen Activator Pla (Native)
Length = 293
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 29/57 (50%), Gaps = 5/57 (8%)
Query: 35 ISKKTFKLRPVAVIKGQIKSWYLCGKAESFLRINSKEGQDYLKSMAAAANFAWVNRS 91
IS+ +K++ VA++KG I SW SFL +N++ ++ W+N +
Sbjct: 40 ISQLDWKIKNVAILKGDI-SW----DPYSFLTLNARGWTSLASGSGNMDDYDWMNEN 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
0.319 0.129 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,797,636
Number of Sequences: 62578
Number of extensions: 89796
Number of successful extensions: 180
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 170
Number of HSP's gapped (non-prelim): 18
length of query: 105
length of database: 14,973,337
effective HSP length: 70
effective length of query: 35
effective length of database: 10,592,877
effective search space: 370750695
effective search space used: 370750695
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: 45 (21.9 bits)