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= 015066
(414 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2K4K|A Chain A, Solution Structure Of Gsp13 From Bacillus Subtilis
Length = 130
Score = 65.1 bits (157), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 32/89 (35%), Positives = 52/89 (58%), Gaps = 1/89 (1%)
Query: 260 AQLGIGSVVIGTVQSLKPYGAFIDIGG-INGLLHVSQISHDRVADIATVLQPGDTLKVMI 318
A+ +GSV G V L+ YGAF+ + GL+H+S+++H V DI L GD ++V +
Sbjct: 3 AKFEVGSVYTGKVTGLQAYGAFVALDEETQGLVHISEVTHGFVKDINEHLSVGDEVQVKV 62
Query: 319 LSHDRERGRVSLSTKKLEPTPGDMIRNPK 347
L+ D E+G++SLS + + P P+
Sbjct: 63 LAVDEEKGKISLSIRATQAAPEKKESKPR 91
>pdb|2OCE|A Chain A, Crystal Structure Of Tex Family Protein Pa5201 From
Pseudomonas Aeruginosa
Length = 780
Score = 55.8 bits (133), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 33/88 (37%), Positives = 52/88 (59%), Gaps = 2/88 (2%)
Query: 257 DSQAQLGIGSVVIGTVQSLKPYGAFIDIG-GINGLLHVSQISHDRVADIATVLQPGDTLK 315
+S L G V+ G V ++ +GAF+DIG +GL+H+S +S V D V++ GD +K
Sbjct: 648 ESLKDLKPGMVLEGVVTNVTNFGAFVDIGVHQDGLVHISALSEKFVKDPYEVVKAGDIVK 707
Query: 316 VMILSHDRERGRVSLSTKKLEPTPGDMI 343
V ++ D R RV LS ++ TPG+ +
Sbjct: 708 VKVMEVDIPRNRVGLSM-RMSDTPGEKV 734
>pdb|3BZC|A Chain A, Crystal Structure Of The Tex Protein From Pseudomonas
Aeruginosa, Crystal Form I
pdb|3BZK|A Chain A, Crystal Structure Of The Tex Protein From Pseudomonas
Aeruginosa, Crystal Form 2
Length = 785
Score = 55.8 bits (133), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 33/88 (37%), Positives = 52/88 (59%), Gaps = 2/88 (2%)
Query: 257 DSQAQLGIGSVVIGTVQSLKPYGAFIDIG-GINGLLHVSQISHDRVADIATVLQPGDTLK 315
+S L G V+ G V ++ +GAF+DIG +GL+H+S +S V D V++ GD +K
Sbjct: 647 ESLKDLKPGMVLEGVVTNVTNFGAFVDIGVHQDGLVHISALSEKFVKDPYEVVKAGDIVK 706
Query: 316 VMILSHDRERGRVSLSTKKLEPTPGDMI 343
V ++ D R RV LS ++ TPG+ +
Sbjct: 707 VKVMEVDIPRNRVGLSM-RMSDTPGEKV 733
>pdb|4AIM|A Chain A, Crystal Structure Of C. Crescentus Pnpase Bound To Rnase E
Recognition Peptide
Length = 726
Score = 55.8 bits (133), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 34/91 (37%), Positives = 55/91 (60%), Gaps = 2/91 (2%)
Query: 264 IGSVVIGTVQSLKPYGAFIDI-GGINGLLHVSQISHDRVADIATVLQPGDTLKVMILSHD 322
IG + G V + +GAF++ G +GL+HVSQIS++RVA + VL+ G +KV +L D
Sbjct: 637 IGKIYDGKVVKVVDFGAFVNFFGAKDGLVHVSQISNERVAKPSDVLKEGQMVKVKLLGFD 696
Query: 323 RERGRVSLSTKKLEPTPGDMIRNPKLVFEKA 353
+RG+ LS K ++ G+ + + E+A
Sbjct: 697 -DRGKTKLSMKVVDQETGEDLSKKEAAAEEA 726
>pdb|4AID|A Chain A, Crystal Structure Of C. Crescentus Pnpase Bound To Rnase E
Recognition Peptide
pdb|4AID|B Chain B, Crystal Structure Of C. Crescentus Pnpase Bound To Rnase E
Recognition Peptide
pdb|4AID|C Chain C, Crystal Structure Of C. Crescentus Pnpase Bound To Rnase E
Recognition Peptide
Length = 726
Score = 55.1 bits (131), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 33/91 (36%), Positives = 55/91 (60%), Gaps = 2/91 (2%)
Query: 264 IGSVVIGTVQSLKPYGAFIDI-GGINGLLHVSQISHDRVADIATVLQPGDTLKVMILSHD 322
+G + G V + +GAF++ G +GL+HVSQIS++RVA + VL+ G +KV +L D
Sbjct: 637 VGKIYDGKVVKVVDFGAFVNFFGAKDGLVHVSQISNERVAKPSDVLKEGQMVKVKLLGFD 696
Query: 323 RERGRVSLSTKKLEPTPGDMIRNPKLVFEKA 353
+RG+ LS K ++ G+ + + E+A
Sbjct: 697 -DRGKTKLSMKVVDQETGEDLSKKEAAAEEA 726
>pdb|4AM3|A Chain A, Crystal Structure Of C. Crescentus Pnpase Bound To Rna
pdb|4AM3|B Chain B, Crystal Structure Of C. Crescentus Pnpase Bound To Rna
pdb|4AM3|C Chain C, Crystal Structure Of C. Crescentus Pnpase Bound To Rna
Length = 717
Score = 55.1 bits (131), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 33/91 (36%), Positives = 55/91 (60%), Gaps = 2/91 (2%)
Query: 264 IGSVVIGTVQSLKPYGAFIDI-GGINGLLHVSQISHDRVADIATVLQPGDTLKVMILSHD 322
+G + G V + +GAF++ G +GL+HVSQIS++RVA + VL+ G +KV +L D
Sbjct: 628 VGKIYDGKVVKVVDFGAFVNFFGAKDGLVHVSQISNERVAKPSDVLKEGQMVKVKLLGFD 687
Query: 323 RERGRVSLSTKKLEPTPGDMIRNPKLVFEKA 353
+RG+ LS K ++ G+ + + E+A
Sbjct: 688 -DRGKTKLSMKVVDQETGEDLSKKEAAAEEA 717
>pdb|3CDI|A Chain A, Crystal Structure Of E. Coli Pnpase
Length = 723
Score = 55.1 bits (131), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 35/104 (33%), Positives = 58/104 (55%), Gaps = 5/104 (4%)
Query: 232 DLPLKFVEVDEEQSRLVLSNRKAMADSQAQLGIGSVVIGTVQSLKPYGAFIDIGG-INGL 290
D +K D E+++ + + + + A++ +G V G V + +GAF+ IGG GL
Sbjct: 598 DGTVKIAATDGEKAKHAI---RRIEEITAEIEVGRVYTGKVTRIVDFGAFVAIGGGKEGL 654
Query: 291 LHVSQISHDRVADIATVLQPGDTLKVMILSHDRERGRVSLSTKK 334
+H+SQI+ RV + LQ G + V +L DR+ GR+ LS K+
Sbjct: 655 VHISQIADKRVEKVTDYLQMGQEVPVKVLEVDRQ-GRIRLSIKE 697
Score = 29.3 bits (64), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 5/52 (9%)
Query: 212 GFVPFSQISSKSTAEEL----LGKDLPLKFVEVDEEQSRLVLSNRKAMADSQ 259
G V SQI+ K + +G+++P+K +EVD Q R+ LS ++A SQ
Sbjct: 653 GLVHISQIADKRVEKVTDYLQMGQEVPVKVLEVD-RQGRIRLSIKEATEQSQ 703
>pdb|1SRO|A Chain A, S1 Rna Binding Domain, Nmr, 20 Structures
Length = 76
Score = 53.9 bits (128), Expect = 2e-07, Method: Composition-based stats.
Identities = 31/76 (40%), Positives = 46/76 (60%), Gaps = 2/76 (2%)
Query: 260 AQLGIGSVVIGTVQSLKPYGAFIDIGG-INGLLHVSQISHDRVADIATVLQPGDTLKVMI 318
A++ +G V G V + +GAF+ IGG GL+H+SQI+ RV + LQ G + V +
Sbjct: 1 AEIEVGRVYTGKVTRIVDFGAFVAIGGGKEGLVHISQIADKRVEKVTDYLQMGQEVPVKV 60
Query: 319 LSHDRERGRVSLSTKK 334
L DR+ GR+ LS K+
Sbjct: 61 LEVDRQ-GRIRLSIKE 75
>pdb|1Q8K|A Chain A, Solution Structure Of Alpha Subunit Of Human Eif2
Length = 308
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 46/77 (59%), Gaps = 3/77 (3%)
Query: 264 IGSVVIGTVQSLKPYGAFIDI---GGINGLLHVSQISHDRVADIATVLQPGDTLKVMILS 320
+ VV+ V+S++ GA++ + I G++H+S++S R+ I +++ G V ++
Sbjct: 13 VEDVVMVNVRSIQEMGAYVSLLEYNNIEGMIHLSELSRRRIRSINKLIRIGRNECVKVIR 72
Query: 321 HDRERGRVSLSTKKLEP 337
D+E+G + LS +++ P
Sbjct: 73 VDKEKGYIDLSKRRVSP 89
>pdb|2AHO|B Chain B, Structure Of The Archaeal Initiation Factor Eif2 Alpha-
Gamma Heterodimer From Sulfolobus Solfataricus Complexed
With Gdpnp
pdb|3CW2|C Chain C, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3CW2|D Chain D, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3CW2|G Chain G, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3CW2|H Chain H, Crystal Structure Of The Intact Archaeal Translation
Initiation Factor 2 From Sulfolobus Solfataricus .
pdb|3V11|B Chain B, Structure Of The Ternary Initiation Complex
Aif2:gdpnp:methionylated Initiator Trna
Length = 266
Score = 45.1 bits (105), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 265 GSVVIGTVQSLKPYGAFIDI---GGINGLLHVSQISHDRVADIATVLQPGDTLKVMILSH 321
G ++I TV+ + YG+++ + GG+ L S++S V +I VL+ + V ++
Sbjct: 12 GEILIATVKQVFDYGSYVSLDEYGGLQAFLPWSEVSSKWVKNIRDVLKENRKVIVKVIRV 71
Query: 322 DRERGRVSLSTKKL 335
DR +G V +S KK+
Sbjct: 72 DRRKGTVDVSLKKV 85
>pdb|2EQS|A Chain A, Solution Structure Of The S1 Rna Binding Domain Of Human
Atp-Dependent Rna Helicase Dhx8
Length = 103
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 50/88 (56%), Gaps = 8/88 (9%)
Query: 264 IGSVVIGTVQSLKPYGAFIDIGGIN----GLLHVSQISHD-RVADIATVLQPGDTLKVMI 318
IG + G V S+ +G F+ + G+ GL+H+S++ + RVA++A V+ G +KV +
Sbjct: 12 IGDIYNGKVTSIMQFGCFVQLEGLRKRWEGLVHISELRREGRVANVADVVSKGQRVKVKV 71
Query: 319 LSHDRERGRVSLSTKKLEPTPGDMIRNP 346
LS + SLS K ++ G+ + NP
Sbjct: 72 LSFTGT--KTSLSMKDVDQETGEDL-NP 96
>pdb|3AEV|A Chain A, Crystal Structure Of AEIF2ALPHA-Adim2p-Rrna Complex From
Pyrococcus Horikoshii Ot3
Length = 275
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 40/74 (54%), Gaps = 3/74 (4%)
Query: 265 GSVVIGTVQSLKPYGAFIDIG---GINGLLHVSQISHDRVADIATVLQPGDTLKVMILSH 321
G V+ TV+ + YGAF+++ G +H+S+++ V +I L+ G + ++
Sbjct: 12 GEFVVATVKRIHNYGAFLELDEYPGKEAFMHISEVASTWVRNIRDYLKEGQKVVAKVIRV 71
Query: 322 DRERGRVSLSTKKL 335
D +G + LS +++
Sbjct: 72 DPRKGHIDLSLRRV 85
>pdb|2KHJ|A Chain A, Nmr Structure Of The Domain 6 Of The E. Coli Ribosomal
Protein S1
Length = 109
Score = 43.1 bits (100), Expect = 3e-04, Method: Composition-based stats.
Identities = 24/70 (34%), Positives = 38/70 (54%), Gaps = 1/70 (1%)
Query: 265 GSVVIGTVQSLKPYGAFIDIG-GINGLLHVSQISHDRVADIATVLQPGDTLKVMILSHDR 323
G++V G V ++ GA +++ G+ G L S+ S DRV D VL GD ++ DR
Sbjct: 32 GAIVTGKVTAVDAKGATVELADGVEGYLRASEASRDRVEDATLVLSVGDEVEAKFTGVDR 91
Query: 324 ERGRVSLSTK 333
+ +SLS +
Sbjct: 92 KNRAISLSVR 101
>pdb|1YZ6|A Chain A, Crystal Structure Of Intact Alpha Subunit Of Aif2 From
Pyrococcus Abyssi
Length = 274
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 40/74 (54%), Gaps = 3/74 (4%)
Query: 265 GSVVIGTVQSLKPYGAFIDIG---GINGLLHVSQISHDRVADIATVLQPGDTLKVMILSH 321
G V+ TV+ + YGAF+++ G +H+S+++ V +I L+ G + ++
Sbjct: 11 GEFVVATVKRIHNYGAFLELDEYPGKEAFMHISEVASTWVRNIRDYLKEGQKVVAKVIRV 70
Query: 322 DRERGRVSLSTKKL 335
D +G + LS +++
Sbjct: 71 DPRKGHIDLSLRRV 84
>pdb|2KHI|A Chain A, Nmr Structure Of The Domain 4 Of The E. Coli Ribosomal
Protein S1
Length = 115
Score = 39.7 bits (91), Expect = 0.004, Method: Composition-based stats.
Identities = 28/77 (36%), Positives = 47/77 (61%), Gaps = 2/77 (2%)
Query: 265 GSVVIGTVQSLKPYGAFIDIG-GINGLLHVSQIS-HDRVADIATVLQPGDTLKVMILSHD 322
G+ + G V +L YG F++I G+ GL+HVS++ ++ + V+ GD ++VM+L D
Sbjct: 31 GTKLTGRVTNLTDYGCFVEIEEGVEGLVHVSEMDWTNKNIHPSKVVNVGDVVEVMVLDID 90
Query: 323 RERGRVSLSTKKLEPTP 339
ER R+SL K+ + P
Sbjct: 91 EERRRISLGLKQCKANP 107
>pdb|1E3H|A Chain A, Semet Derivative Of Streptomyces Antibioticus PnpaseGPSI
Enzyme
Length = 757
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 41/72 (56%), Gaps = 6/72 (8%)
Query: 264 IGSVVIGTVQSLKPYGAFIDI-GGINGLLHVSQI----SHDRVADIATVLQPGDTLKVMI 318
+G ++G+V +GAF+ + G +GLLH+SQI RV ++ VL G ++V I
Sbjct: 667 VGERILGSVVKTTTFGAFVSLLPGKDGLLHISQIRKLAGGKRVENVEDVLGVGQKVQVEI 726
Query: 319 LSHDRERGRVSL 330
D RG++SL
Sbjct: 727 AEID-SRGKLSL 737
>pdb|1E3P|A Chain A, Tungstate Derivative Of Streptomyces Antibioticus Pnpase
Gpsi Enzyme
Length = 757
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 41/72 (56%), Gaps = 6/72 (8%)
Query: 264 IGSVVIGTVQSLKPYGAFIDI-GGINGLLHVSQI----SHDRVADIATVLQPGDTLKVMI 318
+G ++G+V +GAF+ + G +GLLH+SQI RV ++ VL G ++V I
Sbjct: 667 VGERILGSVVKTTTFGAFVSLLPGKDGLLHISQIRKLAGGKRVENVEDVLGVGQKVQVEI 726
Query: 319 LSHDRERGRVSL 330
D RG++SL
Sbjct: 727 AEID-SRGKLSL 737
>pdb|1GO3|E Chain E, Structure Of An Archeal Homolog Of The Eukaryotic Rna
Polymerase Ii Rpb4RPB7 COMPLEX
pdb|1GO3|M Chain M, Structure Of An Archeal Homolog Of The Eukaryotic Rna
Polymerase Ii Rpb4RPB7 COMPLEX
Length = 187
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 45/81 (55%), Gaps = 16/81 (19%)
Query: 270 GTVQSLKPYGAFIDIGGINGLLHVSQISHDRVA-----------DIATVLQPGDTLKVMI 318
G V + +G+F+ +G ++GL+HVSQI D V+ + VL+ GD ++ I
Sbjct: 87 GEVVDVVEFGSFVRLGPLDGLIHVSQIMDDYVSYDPKREAIIGKETGKVLEIGDYVRARI 146
Query: 319 ----LSHDRERG-RVSLSTKK 334
L +R+RG +++L+ ++
Sbjct: 147 VAISLKAERKRGSKIALTMRQ 167
>pdb|2PMZ|E Chain E, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|2PMZ|T Chain T, Archaeal Rna Polymerase From Sulfolobus Solfataricus
pdb|3HKZ|E Chain E, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
pdb|3HKZ|Q Chain Q, The X-Ray Crystal Structure Of Rna Polymerase From Archaea
Length = 180
Score = 36.6 bits (83), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 30/87 (34%), Positives = 46/87 (52%), Gaps = 8/87 (9%)
Query: 278 YGAFIDIGGINGLLHVSQISHDRVA-DIATVLQPGDTLKVMILSHDRERGRV----SLST 332
YG F+++G ++GL+H+SQI+ D + D + G+ K +I D+ R RV S T
Sbjct: 95 YGIFVNLGPMDGLVHISQITDDTLKYDNVRGIIFGEKSKKVIQKGDKVRARVISVASTVT 154
Query: 333 KKLEPTPGDMIRNPKLVFEKAEEMAQT 359
+L P +R P L K E + QT
Sbjct: 155 GRL-PRIALTMRQPYL--GKLEWITQT 178
>pdb|2Y0S|E Chain E, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase In
P21 Space Group
pdb|2Y0S|T Chain T, Crystal Structure Of Sulfolobus Shibatae Rna Polymerase In
P21 Space Group
pdb|4AYB|E Chain E, Rnap At 3.2ang
pdb|4B1O|E Chain E, Archaeal Rnap-Dna Binary Complex At 4.32ang
pdb|4B1P|T Chain T, Archaeal Rnap-Dna Binary Complex At 4.32ang
Length = 180
Score = 36.2 bits (82), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 32/52 (61%), Gaps = 1/52 (1%)
Query: 278 YGAFIDIGGINGLLHVSQISHDRVA-DIATVLQPGDTLKVMILSHDRERGRV 328
YG F+++G ++GL+H+SQI+ D + D + G+ K +I D+ R RV
Sbjct: 95 YGVFVNLGPMDGLVHISQITDDTLKYDNVRGIIFGEKSKKVIQKGDKVRARV 146
>pdb|2WAQ|E Chain E, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2WB1|E Chain E, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
pdb|2WB1|T Chain T, The Complete Structure Of The Archaeal 13-Subunit Dna-
Directed Rna Polymerase
Length = 180
Score = 35.4 bits (80), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 32/52 (61%), Gaps = 1/52 (1%)
Query: 278 YGAFIDIGGINGLLHVSQISHDRVA-DIATVLQPGDTLKVMILSHDRERGRV 328
YG F+++G ++GL+H+SQI+ D + D + G+ K +I D+ R RV
Sbjct: 95 YGIFVNLGPMDGLVHISQITDDTLKYDNVRGIIFGEKSKKVIQKGDKVRARV 146
>pdb|2CQO|A Chain A, Solution Structure Of The S1 Rna Binding Domain Of Human
Hypothetical Protein Flj11067
Length = 119
Score = 35.0 bits (79), Expect = 0.079, Method: Composition-based stats.
Identities = 24/72 (33%), Positives = 39/72 (54%), Gaps = 4/72 (5%)
Query: 266 SVVIGTVQSLKPYGAFIDIGGI--NGLLHVSQISHDRVADIATVLQPGDTLKVMILSHD- 322
++ G V + YGAFI I G GL+H + +S RV + ++ GD + V ++ +
Sbjct: 24 TIFQGEVAMVTDYGAFIKIPGCRKQGLVHRTHMSSCRVDKPSEIVDVGDKVWVKLIGREM 83
Query: 323 -RERGRVSLSTK 333
+R +VSLS K
Sbjct: 84 KNDRIKVSLSMK 95
>pdb|2BH8|A Chain A, Combinatorial Protein 1b11
pdb|2BH8|B Chain B, Combinatorial Protein 1b11
Length = 101
Score = 33.1 bits (74), Expect = 0.26, Method: Composition-based stats.
Identities = 16/34 (47%), Positives = 24/34 (70%), Gaps = 1/34 (2%)
Query: 265 GSVVIGTVQSLKPYGAFIDI-GGINGLLHVSQIS 297
G V G ++S+ +G FI + GGI+GL+H+S IS
Sbjct: 62 GDRVEGKIKSITDFGIFIGLDGGIDGLVHLSDIS 95
>pdb|1V6C|A Chain A, Crystal Structure Of Psychrophilic Subtilisin-like
Protease Apa1 From Antarctic Psychrotroph
Pseudoalteromonas Sp. As-11
pdb|1V6C|B Chain B, Crystal Structure Of Psychrophilic Subtilisin-like
Protease Apa1 From Antarctic Psychrotroph
Pseudoalteromonas Sp. As-11
pdb|1WVM|A Chain A, Crystal Structure Of Psychrophilic Subtilisin-Like Serine
Protease Apa1 From Antarctic Psychrotroph
Pseudoaleromonas Sp. As-11, Complexed With Inhibitor
Chymostatin
pdb|1WVM|B Chain B, Crystal Structure Of Psychrophilic Subtilisin-Like Serine
Protease Apa1 From Antarctic Psychrotroph
Pseudoaleromonas Sp. As-11, Complexed With Inhibitor
Chymostatin
pdb|1Y9Z|A Chain A, Crystal Structure Of Psychrophilic Subtilisin-like Serine
Protease From Antarctic Psychrotroph Pseudoalteromonas
Sp. As-11 At 0.14 Nm Resolution
pdb|1Y9Z|B Chain B, Crystal Structure Of Psychrophilic Subtilisin-like Serine
Protease From Antarctic Psychrotroph Pseudoalteromonas
Sp. As-11 At 0.14 Nm Resolution
Length = 441
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 26/105 (24%), Positives = 42/105 (40%), Gaps = 10/105 (9%)
Query: 41 KTIVSAVAISNAETREREELNQLFEEAYERCRT-APMEGVSFTLEEFHSALEKYDFNSEL 99
+T V A +S+++ R + + Y+R V+ T + N+
Sbjct: 8 QTFVGATVLSDSQAGNRTIC--IIDSGYDRSHNDLNANNVTGTNNSGTGNWYQPGNNNAH 65
Query: 100 GTKVKGTVFCTDNRGALVDITAKSSAYLPTQEACIHKIKHVEEAG 144
GT V GT+ N +V + +P Q A IH +K EAG
Sbjct: 66 GTHVAGTIAAIANNEGVVGV-------MPNQNANIHIVKVFNEAG 103
>pdb|2Z0S|A Chain A, Crystal Structure Of Putative Exosome Complex Rna-Binding
Protein
Length = 235
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 34/66 (51%), Gaps = 5/66 (7%)
Query: 265 GSVVIGTVQSLKPYGAFIDIGG-INGLLHVSQI----SHDRVADIATVLQPGDTLKVMIL 319
G VVIG +QS+ F+DI +L V + V D+ ++L+ GD +K ++
Sbjct: 67 GDVVIGLIQSVGIMNWFVDINSPYVAVLSVQDFLGRPFNPAVDDMQSLLKVGDYIKAKVV 126
Query: 320 SHDRER 325
+ D+ R
Sbjct: 127 AFDKTR 132
>pdb|2WAF|A Chain A, Penicillin-Binding Protein 2b (Pbp-2b) From Streptococcus
Pneumoniae (Strain R6)
Length = 682
Score = 29.6 bits (65), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 24/51 (47%)
Query: 279 GAFIDIGGINGLLHVSQISHDRVADIATVLQPGDTLKVMILSHDRERGRVS 329
GA + + GI L +++ D + + V PG +K +S E G +S
Sbjct: 353 GAVLSMSGIKHDLKTGELTPDSLGTVTNVFVPGSVVKAATISSGWENGVLS 403
>pdb|1PDL|A Chain A, Fitting Of Gp5 In The Cryoem Reconstruction Of The
Bacteriophage T4 Baseplate
pdb|1PDL|B Chain B, Fitting Of Gp5 In The Cryoem Reconstruction Of The
Bacteriophage T4 Baseplate
pdb|1PDL|C Chain C, Fitting Of Gp5 In The Cryoem Reconstruction Of The
Bacteriophage T4 Baseplate
Length = 575
Score = 29.6 bits (65), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 258 SQAQLGIGSVVIGTVQSLKPYGAFIDIGGINGLL 291
S A GIG V G V+ + YG F+D NG++
Sbjct: 63 SAAMSGIGGSVTGPVEGTRVYGHFLDKWKTNGIV 96
>pdb|1K28|A Chain A, The Structure Of The Bacteriophage T4 Cell-Puncturing
Device
Length = 584
Score = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 258 SQAQLGIGSVVIGTVQSLKPYGAFIDIGGINGLL 291
S A GIG V G V+ + YG F+D NG++
Sbjct: 63 SAAMSGIGGSVTGPVEGTRVYGHFLDKWKTNGIV 96
>pdb|2Z6B|A Chain A, Crystal Structure Analysis Of (Gp27-Gp5)3 Conjugated With
Fe(Iii) Protoporphyrin
Length = 584
Score = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 258 SQAQLGIGSVVIGTVQSLKPYGAFIDIGGINGLL 291
S A GIG V G V+ + YG F+D NG++
Sbjct: 63 SAAMSGIGGSVTGPVEGTRVYGHFLDKWKTNGIV 96
>pdb|1WTH|A Chain A, Crystal Structure Of Gp5-S351l Mutant And Gp27 Complex
Length = 584
Score = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 258 SQAQLGIGSVVIGTVQSLKPYGAFIDIGGINGLL 291
S A GIG V G V+ + YG F+D NG++
Sbjct: 63 SAAMSGIGGSVTGPVEGTRVYGHFLDKWKTNGIV 96
>pdb|2BA1|A Chain A, Archaeal Exosome Core
pdb|2BA1|B Chain B, Archaeal Exosome Core
pdb|2BA1|C Chain C, Archaeal Exosome Core
pdb|3M7N|A Chain A, Archaeoglobus Fulgidus Exosome With Rna Bound To The
Active Site
pdb|3M7N|B Chain B, Archaeoglobus Fulgidus Exosome With Rna Bound To The
Active Site
pdb|3M7N|C Chain C, Archaeoglobus Fulgidus Exosome With Rna Bound To The
Active Site
pdb|3M85|A Chain A, Archaeoglobus Fulgidus Exosome Y70a With Rna Bound To The
Active Site
pdb|3M85|B Chain B, Archaeoglobus Fulgidus Exosome Y70a With Rna Bound To The
Active Site
pdb|3M85|C Chain C, Archaeoglobus Fulgidus Exosome Y70a With Rna Bound To The
Active Site
Length = 179
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 51/107 (47%), Gaps = 21/107 (19%)
Query: 245 SRLVLSNRKAMADSQA---QLGIGSVVIGTVQSLKPYGAFIDIG------------GING 289
+L++ +R A +S + ++ G VV+G V L+ A I++ GI G
Sbjct: 35 GKLIIKDRVAKVESISPIPEIVKGDVVLGRVVDLRNSIALIEVSSKKGENRGPSNRGI-G 93
Query: 290 LLHVSQISHDRVADIATVLQPGDTLKVMILSHDRERGRVSLSTKKLE 336
+LHVS + V +I+ + D LK ++ + + LSTK+ E
Sbjct: 94 ILHVSNVDEGYVKEISEAVGYLDILKARVIGDN-----LRLSTKEEE 135
>pdb|2WAE|A Chain A, Penicillin-Binding Protein 2b (Pbp-2b) From Streptococcus
Pneumoniae (Strain 5204)
Length = 680
Score = 28.5 bits (62), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 24/51 (47%)
Query: 279 GAFIDIGGINGLLHVSQISHDRVADIATVLQPGDTLKVMILSHDRERGRVS 329
GA + + G+ L +++ D + + V PG +K +S E G +S
Sbjct: 353 GAVLSMSGLKHDLKTGELTPDSLGTVTNVFVPGSVVKAATISSGWENGVLS 403
>pdb|2WAD|A Chain A, Penicillin-Binding Protein 2b (Pbp-2b) From Streptococcus
Pneumoniae (Strain 5204)
pdb|2WAD|B Chain B, Penicillin-Binding Protein 2b (Pbp-2b) From Streptococcus
Pneumoniae (Strain 5204)
pdb|2WAD|C Chain C, Penicillin-Binding Protein 2b (Pbp-2b) From Streptococcus
Pneumoniae (Strain 5204)
Length = 680
Score = 28.5 bits (62), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 13/51 (25%), Positives = 24/51 (47%)
Query: 279 GAFIDIGGINGLLHVSQISHDRVADIATVLQPGDTLKVMILSHDRERGRVS 329
GA + + G+ L +++ D + + V PG +K +S E G +S
Sbjct: 353 GAVLSMSGLKHDLKTGELTPDSLGTVTNVFVPGSVVKAATISSGWENGVLS 403
>pdb|1JWI|A Chain A, Crystal Structure Of Bitiscetin, A Von Willeband Factor-
Dependent Platelet Aggregation Inducer.
pdb|1UEX|A Chain A, Crystal Structure Of Von Willebrand Factor A1 Domain
Complexed With Snake Venom Bitiscetin
Length = 131
Score = 28.1 bits (61), Expect = 8.4, Method: Composition-based stats.
Identities = 20/60 (33%), Positives = 28/60 (46%), Gaps = 2/60 (3%)
Query: 93 YDFNSELGTKVKGTVFCTDNRGALVDITAKSSAYLPTQEACIHKIKHVEEAGIVPGLKEE 152
Y ++GT FC +N G L I +K A T+ A K V +A I GL++E
Sbjct: 16 YKVFKKVGTWEDAEKFCVENSGHLASIDSKEEADFVTKLASQTLTKFVYDAWI--GLRDE 73
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
0.316 0.133 0.367
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,415,879
Number of Sequences: 62578
Number of extensions: 383036
Number of successful extensions: 1118
Number of sequences better than 100.0: 38
Number of HSP's better than 100.0 without gapping: 24
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1082
Number of HSP's gapped (non-prelim): 42
length of query: 414
length of database: 14,973,337
effective HSP length: 101
effective length of query: 313
effective length of database: 8,652,959
effective search space: 2708376167
effective search space used: 2708376167
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)