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= 030549
(175 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1YR6|A Chain A, Pab0955 Crystal Structure : A Gtpase In Apo Form From
Pyrococcus Abyssi
pdb|1YR7|A Chain A, Pab0955 Crystal Structure : A Gtpase In Gtp-Gamma-S Bound
Form From Pyrococcus Abyssi
pdb|1YR8|A Chain A, Pab0955 Crystal Structure : A Gtpase In Gtp Bound Form
From Pyrococcus Abyssi
pdb|1YR9|A Chain A, Pab0955 Crystal Structure : A Gtpase In Gdp And Po4 Bound
Form From Pyrococcus Abyssi
pdb|1YRA|A Chain A, Pab0955 Crystal Structure : A Gtpase In Gdp Bound Form
From Pyrococcus Abyssi
pdb|1YRA|B Chain B, Pab0955 Crystal Structure : A Gtpase In Gdp Bound Form
From Pyrococcus Abyssi
pdb|1YRB|A Chain A, Pab0955 Crystal Structure : A Gtpase In Gdp And Mg Bound
Form From Pyrococcus Abyssi
pdb|1YRB|B Chain B, Pab0955 Crystal Structure : A Gtpase In Gdp And Mg Bound
Form From Pyrococcus Abyssi
pdb|2OXR|A Chain A, Pab0955 Crystal Structure : A Gtpase In Gdp And Mg Bound
Form From Pyrococcus Abyssi (After Gtp Hydrolysis)
Length = 262
Score = 65.5 bits (158), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 55/106 (51%), Gaps = 2/106 (1%)
Query: 8 IGPAGSGKSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEELG 67
+G AGSGK+T R+ E + + VNLD + Y ++D+RE +++E++M E G
Sbjct: 20 VGTAGSGKTTLTGEFGRYLEDNYKVAY-VNLDTGVKELPYEPSIDVREFVTVEEIMRE-G 77
Query: 68 LGPNGGLIYCMEHLEDNLDDWXXXXXXXXXXXXXXVFDCPGQIELF 113
GPNG ++ + L + +++ + D PGQ+E F
Sbjct: 78 YGPNGAIVESYDRLMEKFNEYLNKILRLEKENDYVLIDTPGQMETF 123
>pdb|4E2I|A Chain A, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|B Chain B, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|C Chain C, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|D Chain D, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|E Chain E, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|F Chain F, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|G Chain G, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|H Chain H, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|I Chain I, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|J Chain J, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|K Chain K, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
pdb|4E2I|L Chain L, The Complex Structure Of The Sv40 Helicase Large T Antigen
And P68 Subunit Of Dna Polymerase Alpha-Primase
Length = 362
Score = 31.6 bits (70), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 43/84 (51%), Gaps = 7/84 (8%)
Query: 6 LVIGPAGSGKSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEE 65
L GP SGK+T ++L C + ++ VNL NF+ VA+D + L+ EDV
Sbjct: 158 LFKGPIDSGKTTLAAALLELCGG--KALN-VNLPLDRLNFELGVAID-QFLVVFEDVKGT 213
Query: 66 LGLG---PNGGLIYCMEHLEDNLD 86
G P+G I +++L D LD
Sbjct: 214 GGESRDLPSGQGINNLDNLRDYLD 237
>pdb|1N25|A Chain A, Crystal Structure Of The Sv40 Large T Antigen Helicase
Domain
pdb|1N25|B Chain B, Crystal Structure Of The Sv40 Large T Antigen Helicase
Domain
Length = 368
Score = 31.2 bits (69), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 43/84 (51%), Gaps = 7/84 (8%)
Query: 6 LVIGPAGSGKSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEE 65
L GP SGK+T ++L C + ++ VNL NF+ VA+D + L+ EDV
Sbjct: 164 LFKGPIDSGKTTLAAALLELCGG--KALN-VNLPLDRLNFELGVAID-QFLVVFEDVKGT 219
Query: 66 LGLG---PNGGLIYCMEHLEDNLD 86
G P+G I +++L D LD
Sbjct: 220 GGESRDLPSGQGINNLDNLRDYLD 243
>pdb|2H1L|A Chain A, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|B Chain B, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|C Chain C, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|D Chain D, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|E Chain E, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|F Chain F, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|G Chain G, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|H Chain H, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|I Chain I, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|J Chain J, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|K Chain K, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
pdb|2H1L|L Chain L, The Structure Of The Oncoprotein Sv40 Large T Antigen And
P53 Tumor Suppressor Complex
Length = 370
Score = 31.2 bits (69), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 43/84 (51%), Gaps = 7/84 (8%)
Query: 6 LVIGPAGSGKSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEE 65
L GP SGK+T ++L C + ++ VNL NF+ VA+D + L+ EDV
Sbjct: 166 LFKGPIDSGKTTLAAALLELCGG--KALN-VNLPLDRLNFELGVAID-QFLVVFEDVKGT 221
Query: 66 LGLG---PNGGLIYCMEHLEDNLD 86
G P+G I +++L D LD
Sbjct: 222 GGESRDLPSGQGINNLDNLRDYLD 245
>pdb|1SVL|A Chain A, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Adp
pdb|1SVL|B Chain B, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Adp
pdb|1SVL|C Chain C, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Adp
pdb|1SVM|A Chain A, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Atp
pdb|1SVM|B Chain B, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Atp
pdb|1SVM|C Chain C, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Atp
pdb|1SVM|D Chain D, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Atp
pdb|1SVM|E Chain E, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Atp
pdb|1SVM|F Chain F, Co-Crystal Structure Of Sv40 Large T Antigen Helicase
Domain And Atp
pdb|1SVO|A Chain A, Structure Of Sv40 Large T Antigen Helicase Domain
pdb|1SVO|B Chain B, Structure Of Sv40 Large T Antigen Helicase Domain
Length = 377
Score = 31.2 bits (69), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 43/84 (51%), Gaps = 7/84 (8%)
Query: 6 LVIGPAGSGKSTYCSSLYRHCETVRRTMHIVNLDPAAENFDYPVAMDIRELISLEDVMEE 65
L GP SGK+T ++L C + ++ VNL NF+ VA+D + L+ EDV
Sbjct: 173 LFKGPIDSGKTTLAAALLELCGG--KALN-VNLPLDRLNFELGVAID-QFLVVFEDVKGT 228
Query: 66 LGLG---PNGGLIYCMEHLEDNLD 86
G P+G I +++L D LD
Sbjct: 229 GGESRDLPSGQGINNLDNLRDYLD 252
>pdb|2EWV|A Chain A, Crystal Structure Of The Pilus Retraction Motor Pilt And
Bound Adp
Length = 372
Score = 29.6 bits (65), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 6 LVIGPAGSGKSTYCSSLYRHCETVRRTMHIVNLDPAAE 43
LV GP GSGKST +S+ + ++ HI+ ++ E
Sbjct: 140 LVTGPTGSGKSTTIASMIDYINQT-KSYHIITIEDPIE 176
>pdb|2EWW|A Chain A, Crystal Structure Of The Pilus Retraction Motor Pilt And
Bound Atp
Length = 372
Score = 28.5 bits (62), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 6 LVIGPAGSGKSTYCSSLYRHCETVRRTMHIVNLDPAAE 43
LV GP GSGKST +S + ++ HI+ ++ E
Sbjct: 140 LVTGPTGSGKSTTIASXIDYINQT-KSYHIITIEDPIE 176
>pdb|2GSZ|A Chain A, Structure Of A. Aeolicus Pilt With 6 Monomers Per
Asymmetric Unit
pdb|2GSZ|B Chain B, Structure Of A. Aeolicus Pilt With 6 Monomers Per
Asymmetric Unit
pdb|2GSZ|C Chain C, Structure Of A. Aeolicus Pilt With 6 Monomers Per
Asymmetric Unit
pdb|2GSZ|D Chain D, Structure Of A. Aeolicus Pilt With 6 Monomers Per
Asymmetric Unit
pdb|2GSZ|E Chain E, Structure Of A. Aeolicus Pilt With 6 Monomers Per
Asymmetric Unit
pdb|2GSZ|F Chain F, Structure Of A. Aeolicus Pilt With 6 Monomers Per
Asymmetric Unit
Length = 363
Score = 28.5 bits (62), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 6 LVIGPAGSGKSTYCSSLYRHCETVRRTMHIVNLDPAAE 43
LV GP GSGKST +S + ++ HI+ ++ E
Sbjct: 129 LVTGPTGSGKSTTIASXIDYINQT-KSYHIITIEDPIE 165
>pdb|2EYU|A Chain A, The Crystal Structure Of The C-Terminal Domain Of
Aquifex Aeolicus Pilt
pdb|2EYU|B Chain B, The Crystal Structure Of The C-Terminal Domain Of
Aquifex Aeolicus Pilt
Length = 261
Score = 28.5 bits (62), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 6 LVIGPAGSGKSTYCSSLYRHCETVRRTMHIVNLDPAAE 43
LV GP GSGKST +S + ++ HI+ ++ E
Sbjct: 29 LVTGPTGSGKSTTIASXIDYINQT-KSYHIITIEDPIE 65
>pdb|3PCO|B Chain B, Crystal Structure Of E. Coli Phenylalanine-Trna Synthetase
Complexed With Phenylalanine And Amp
pdb|3PCO|D Chain D, Crystal Structure Of E. Coli Phenylalanine-Trna Synthetase
Complexed With Phenylalanine And Amp
Length = 795
Score = 28.5 bits (62), Expect = 2.2, Method: Composition-based stats.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 46 DYPVAMDIRELISLEDVMEELGLGPN 71
D P+ DIRE + L+D E+ + PN
Sbjct: 140 DAPIGTDIREYLKLDDNTIEISVTPN 165
>pdb|3C41|J Chain J, Abc Protein Artp In Complex With Amp-PnpMG2+
pdb|3C41|K Chain K, Abc Protein Artp In Complex With Amp-PnpMG2+
Length = 242
Score = 28.1 bits (61), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 2 GYAQLVIGPAGSGKSTYC 19
G +VIGP+GSGKST+
Sbjct: 29 GEVVVVIGPSGSGKSTFL 46
>pdb|2OLJ|A Chain A, Abc Protein Artp In Complex With AdpMG2+
pdb|2OLJ|B Chain B, Abc Protein Artp In Complex With AdpMG2+
pdb|2OLK|A Chain A, Abc Protein Artp In Complex With Adp-Beta-S
pdb|2OLK|B Chain B, Abc Protein Artp In Complex With Adp-Beta-S
pdb|2OLK|C Chain C, Abc Protein Artp In Complex With Adp-Beta-S
pdb|2OLK|D Chain D, Abc Protein Artp In Complex With Adp-Beta-S
pdb|2OUK|A Chain A, Abc Protein Artp In Complex With Sulphate
pdb|2OUK|B Chain B, Abc Protein Artp In Complex With Sulphate
pdb|2OUK|C Chain C, Abc Protein Artp In Complex With Sulphate
pdb|2OUK|D Chain D, Abc Protein Artp In Complex With Sulphate
pdb|2Q0H|A Chain A, Abc Protein Artp In Complex With AdpMG2+, ATP-Gamma-S
Hydrolyzed
pdb|2Q0H|B Chain B, Abc Protein Artp In Complex With AdpMG2+, ATP-Gamma-S
Hydrolyzed
pdb|3C4J|A Chain A, Abc Protein Artp In Complex With Atp-Gamma-S
pdb|3C4J|B Chain B, Abc Protein Artp In Complex With Atp-Gamma-S
Length = 263
Score = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 11/18 (61%), Positives = 14/18 (77%)
Query: 2 GYAQLVIGPAGSGKSTYC 19
G +VIGP+GSGKST+
Sbjct: 50 GEVVVVIGPSGSGKSTFL 67
>pdb|4AYW|A Chain A, Structure Of The Human Mitochondrial Abc Transporter,
Abcb10 (plate Form)
Length = 619
Score = 27.3 bits (59), Expect = 4.5, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 2 GYAQLVIGPAGSGKSTYCSSLYR 24
G ++GP+GSGKST S L R
Sbjct: 401 GSVTALVGPSGSGKSTVLSLLLR 423
>pdb|4AYT|A Chain A, Structure Of The Human Mitochondrial Abc Transporter,
Abcb10
pdb|4AYX|A Chain A, Structure Of The Human Mitochondrial Abc Transporter,
Abcb10 (Rod Form B)
pdb|3ZDQ|A Chain A, Structure Of The Human Mitochondrial Abc Transporter,
Abcb10 (nucleotide-free Form)
Length = 595
Score = 27.3 bits (59), Expect = 4.5, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 2 GYAQLVIGPAGSGKSTYCSSLYR 24
G ++GP+GSGKST S L R
Sbjct: 370 GSVTALVGPSGSGKSTVLSLLLR 392
>pdb|1CP2|A Chain A, Nitrogenase Iron Protein From Clostridium Pasteurianum
pdb|1CP2|B Chain B, Nitrogenase Iron Protein From Clostridium Pasteurianum
Length = 269
Score = 27.3 bits (59), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 20/38 (52%)
Query: 7 VIGPAGSGKSTYCSSLYRHCETVRRTMHIVNLDPAAEN 44
+ G G GKST +L + +T+ +V DP A++
Sbjct: 6 IYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCDPKADS 43
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
0.329 0.143 0.470
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,964,787
Number of Sequences: 62578
Number of extensions: 176180
Number of successful extensions: 716
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 705
Number of HSP's gapped (non-prelim): 20
length of query: 175
length of database: 14,973,337
effective HSP length: 92
effective length of query: 83
effective length of database: 9,216,161
effective search space: 764941363
effective search space used: 764941363
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 48 (23.1 bits)