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= 048832
(211 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2FBT|A Chain A, Wrn Exonuclease
pdb|2FBV|A Chain A, Wrn Exonuclease, Mn Complex
pdb|2FBX|A Chain A, Wrn Exonuclease, Mg Complex
pdb|2FBY|A Chain A, Wrn Exonuclease, Eu Complex
pdb|2FC0|A Chain A, Wrn Exonuclease, Mn Dgmp Complex
Length = 205
Score = 77.4 bits (189), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 52/156 (33%), Positives = 80/156 (51%), Gaps = 4/156 (2%)
Query: 57 IVGLDVEWRPSFSRQQ-NPVATLQLCVGR-RCLIFQIIHARRIPQSLANFLSDEDYTFVG 114
+VG D+EW P ++R + VA +QLCV +C +F + PQ L L ++ G
Sbjct: 47 VVGFDMEWPPLYNRGKLGKVALIQLCVSESKCYLFHVSSMSVFPQGLKMLLENKAVKKAG 106
Query: 115 VGIDGDVKKLENNYGLQVFRTVDLRPLAAEDLEIEGLRFAGLKALSWEVLEKEVNKPRNI 174
VGI+GD KL ++ +++ V+L +A + L+ L +L +L K++ K ++I
Sbjct: 107 VGIEGDQWKLLRDFDIKLKNFVELTDVANKKLKCT--ETWSLNSLVKHLLGKQLLKDKSI 164
Query: 175 TLSAWDTRVLTPAQVLYACLDAFIAFEIGRVLNAND 210
S W LT Q LYA DA+ F I R L D
Sbjct: 165 RCSNWSKFPLTEDQKLYAATDAYAGFIIYRNLEILD 200
>pdb|2E6L|A Chain A, Structure Of Mouse Wrn Exonuclease Domain
pdb|2E6M|A Chain A, Structure Of Mouse Werner Exonuclease Domain
Length = 208
Score = 74.7 bits (182), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 54/164 (32%), Positives = 80/164 (48%), Gaps = 4/164 (2%)
Query: 46 ERIHRRRLHCLIVGLDVEWRPSFS-RQQNPVATLQLCVGR-RCLIFQIIHARRIPQSLAN 103
E I R +VG D+EW P + +++ VA +QLCV +C +F I PQ L
Sbjct: 31 EDISMRLSDGDVVGFDMEWPPIYKPGKRSRVAVIQLCVSESKCYLFHISSMSVFPQGLKM 90
Query: 104 FLSDEDYTFVGVGIDGDVKKLENNYGLQVFRTVDLRPLAAEDLEIEGLRFAGLKALSWEV 163
L ++ GVGI+GD KL ++ +++ V+L +A E L+ L L V
Sbjct: 91 LLENKSIKKAGVGIEGDQWKLLRDFDVKLESFVELTDVANEKLKCA--ETWSLNGLVKHV 148
Query: 164 LEKEVNKPRNITLSAWDTRVLTPAQVLYACLDAFIAFEIGRVLN 207
L K++ K ++I S W LT Q LYA DA+ I + L
Sbjct: 149 LGKQLLKDKSIRCSNWSNFPLTEDQKLYAATDAYAGLIIYQKLG 192
>pdb|1VK0|A Chain A, X-Ray Structure Of Gene Product From Arabidopsis Thaliana
At5g06450
pdb|1VK0|B Chain B, X-Ray Structure Of Gene Product From Arabidopsis Thaliana
At5g06450
pdb|1VK0|C Chain C, X-Ray Structure Of Gene Product From Arabidopsis Thaliana
At5g06450
pdb|1VK0|D Chain D, X-Ray Structure Of Gene Product From Arabidopsis Thaliana
At5g06450
pdb|1VK0|E Chain E, X-Ray Structure Of Gene Product From Arabidopsis Thaliana
At5g06450
pdb|1VK0|F Chain F, X-Ray Structure Of Gene Product From Arabidopsis Thaliana
At5g06450
pdb|2Q3S|A Chain A, Ensemble Refinement Of The Protein Crystal Structure Of
Gene Product From Arabidopsis Thaliana At5g06450
pdb|2Q3S|B Chain B, Ensemble Refinement Of The Protein Crystal Structure Of
Gene Product From Arabidopsis Thaliana At5g06450
pdb|2Q3S|C Chain C, Ensemble Refinement Of The Protein Crystal Structure Of
Gene Product From Arabidopsis Thaliana At5g06450
pdb|2Q3S|D Chain D, Ensemble Refinement Of The Protein Crystal Structure Of
Gene Product From Arabidopsis Thaliana At5g06450
pdb|2Q3S|E Chain E, Ensemble Refinement Of The Protein Crystal Structure Of
Gene Product From Arabidopsis Thaliana At5g06450
pdb|2Q3S|F Chain F, Ensemble Refinement Of The Protein Crystal Structure Of
Gene Product From Arabidopsis Thaliana At5g06450
Length = 206
Score = 37.0 bits (84), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 34/129 (26%), Positives = 54/129 (41%), Gaps = 20/129 (15%)
Query: 60 LDVEWRPSFSRQQNPVAT-------LQLCVGRRCLIFQIIHARRIPQ-------SLANFL 105
DV W F + T ++L CL R+P+ L F
Sbjct: 51 FDVYWDVGFPETETKTKTSGWSLSSVKLSTRNLCLFL------RLPKPFHDNLKDLYRFF 104
Query: 106 SDEDYTFVGVGIDGDVKKLENNYGLQVFRTVDLRPLAAEDLEIEGLRFAGLKALSWEVLE 165
+ + TFVGV I+ D+ L N+GL + +++ LAAE L F G + L+ VL
Sbjct: 105 ASKFVTFVGVQIEEDLDLLRENHGLVIRNAINVGKLAAEARGTLVLEFLGTRELAHRVLW 164
Query: 166 KEVNKPRNI 174
++ + +I
Sbjct: 165 SDLGQLDSI 173
>pdb|2GZX|A Chain A, Crystal Structure Of The Tatd Deoxyribonuclease Mw0446
From Staphylococcus Aureus. Northeast Structural
Genomics Consortium Target Zr237.
pdb|2GZX|B Chain B, Crystal Structure Of The Tatd Deoxyribonuclease Mw0446
From Staphylococcus Aureus. Northeast Structural
Genomics Consortium Target Zr237
Length = 265
Score = 30.8 bits (68), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 1/75 (1%)
Query: 40 DWISEIERIHRRRLHCLIVGLDVEWRPSFSRQQNPVATLQLCVGRRCLIFQIIHARRIPQ 99
+WI + + H + + GLD W S + Q V Q+ + +R + IIH R Q
Sbjct: 76 EWIESLAQ-HPKVIGIGEXGLDYHWDKSPADVQKEVFRKQIALAKRLKLPIIIHNREATQ 134
Query: 100 SLANFLSDEDYTFVG 114
+ L +E VG
Sbjct: 135 DCIDILLEEHAEEVG 149
>pdb|1ZZM|A Chain A, Crystal Structure Of Yjjv, Tatd Homolog From Escherichia
Coli K12, At 1.8 A Resolution
Length = 259
Score = 28.5 bits (62), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 35/71 (49%), Gaps = 4/71 (5%)
Query: 58 VGLDVEWR-PSFSRQQNPVATLQLCVGRRCLIFQIIHARRIPQSLANFLSDEDYTFVGV- 115
+GLD+ P F RQQ + QL + +R + I+H+RR LA L D GV
Sbjct: 98 IGLDLFGDDPQFERQQW-LLDEQLKLAKRYDLPVILHSRRTHDKLAMHLKRHDLPRTGVV 156
Query: 116 -GIDGDVKKLE 125
G G +++ E
Sbjct: 157 HGFSGSLQQAE 167
>pdb|2D0I|A Chain A, Crystal Structure Ph0520 Protein From Pyrococcus
Horikoshii Ot3
pdb|2D0I|B Chain B, Crystal Structure Ph0520 Protein From Pyrococcus
Horikoshii Ot3
pdb|2D0I|C Chain C, Crystal Structure Ph0520 Protein From Pyrococcus
Horikoshii Ot3
pdb|2D0I|D Chain D, Crystal Structure Ph0520 Protein From Pyrococcus
Horikoshii Ot3
Length = 333
Score = 28.5 bits (62), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 31/66 (46%), Gaps = 5/66 (7%)
Query: 121 VKKLENNYGLQVFRTVDLRPLAAEDLEIEGLRFAGLKALSWEVLEKEVNKPRNITLSAWD 180
VKKLE Y + + R L E E ++ LK + +V EKE + + W+
Sbjct: 223 VKKLEGKYLVNIGRGA----LVDEKAVTEAIKQGKLKGYATDVFEKEPVREHELFKYEWE 278
Query: 181 TRVLTP 186
T VLTP
Sbjct: 279 T-VLTP 283
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
0.324 0.139 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,219,734
Number of Sequences: 62578
Number of extensions: 246845
Number of successful extensions: 599
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 591
Number of HSP's gapped (non-prelim): 9
length of query: 211
length of database: 14,973,337
effective HSP length: 95
effective length of query: 116
effective length of database: 9,028,427
effective search space: 1047297532
effective search space used: 1047297532
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: 49 (23.5 bits)