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= 017797
(365 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1IQP|A Chain A, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|B Chain B, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|C Chain C, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|D Chain D, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|E Chain E, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|F Chain F, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
Length = 327
Score = 32.7 bits (73), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 34/63 (53%), Gaps = 6/63 (9%)
Query: 108 VSGHIDMVYDLLHYGKS-----ILFVGRPGVGKTTVMREIAR-VLSDEFQKRVVIVDTSN 161
+ G +V L HY K+ +LF G PGVGKTT +AR + + ++ + ++ S+
Sbjct: 27 IVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASD 86
Query: 162 EIG 164
E G
Sbjct: 87 ERG 89
>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
Length = 2486
Score = 32.7 bits (73), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 111 HIDMVYDLLHYGKSILFVGRPGVGKTTVMREIAR 144
H + YDLL+ + I+ G PG GKT +M R
Sbjct: 1037 HEKIFYDLLNSKRGIILCGPPGSGKTMIMNNALR 1070
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 32.7 bits (73), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 111 HIDMVYDLLHYGKSILFVGRPGVGKTTVMREIAR 144
H + YDLL+ + I+ G PG GKT +M R
Sbjct: 1256 HEKIFYDLLNSKRGIILCGPPGSGKTMIMNNALR 1289
>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 = 32.3 bits (72), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 21/35 (60%)
Query: 125 ILFVGRPGVGKTTVMREIARVLSDEFQKRVVIVDT 159
++FVG G GKTT+ E R L D ++ V +DT
Sbjct: 17 VVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVNLDT 51
>pdb|1FNN|A Chain A, Crystal Structure Of Cdc6p From Pyrobaculum Aerophilum
pdb|1FNN|B Chain B, Crystal Structure Of Cdc6p From Pyrobaculum Aerophilum
Length = 389
Score = 32.3 bits (72), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 120 HYGKSILFVGRPGVGKTTVMREIARVLSDEFQKRVVIVD 158
HY ++ L +GRPG GKT +R++ + D+ R V ++
Sbjct: 43 HYPRATL-LGRPGTGKTVTLRKLWELYKDKTTARFVYIN 80
>pdb|1SHK|A Chain A, The Three-dimensional Structure Of Shikimate Kinase From
Erwinia Chrysanthemi
pdb|2SHK|A Chain A, The Three-Dimensional Structure Of Shikimate Kinase From
Erwinia Chrysanthemi Complexed With Adp
pdb|1SHK|B Chain B, The Three-dimensional Structure Of Shikimate Kinase From
Erwinia Chrysanthemi
pdb|2SHK|B Chain B, The Three-Dimensional Structure Of Shikimate Kinase From
Erwinia Chrysanthemi Complexed With Adp
Length = 173
Score = 32.0 bits (71), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 16/28 (57%), Positives = 18/28 (64%)
Query: 123 KSILFVGRPGVGKTTVMREIARVLSDEF 150
+ I VG G GKTTV RE+AR L EF
Sbjct: 3 EPIFMVGARGCGKTTVGRELARALGYEF 30
>pdb|4EIW|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|B Chain B, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|C Chain C, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|D Chain D, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|E Chain E, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|F Chain F, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
Length = 508
Score = 31.6 bits (70), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 38/87 (43%), Gaps = 19/87 (21%)
Query: 123 KSILFVGRPGVGKTTVMREIARVLSDEFQKRVVIVDTSNEIGGDGDIPHSAIGTARRMQV 182
K +L VG PGVGKT + R +A + RV + S G D +G AR
Sbjct: 74 KGVLLVGPPGVGKTHLARAVA------GEARVPFITAS---GSDFVEMFVGVGAAR---- 120
Query: 183 PEPSLQHKVMIEAVENHMPEVIIVDEI 209
+ + E + H P ++ +DEI
Sbjct: 121 ------VRDLFETAKRHAPCIVFIDEI 141
>pdb|2DHR|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|B Chain B, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|C Chain C, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|D Chain D, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|E Chain E, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|F Chain F, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
Length = 499
Score = 31.6 bits (70), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 38/87 (43%), Gaps = 19/87 (21%)
Query: 123 KSILFVGRPGVGKTTVMREIARVLSDEFQKRVVIVDTSNEIGGDGDIPHSAIGTARRMQV 182
K +L VG PGVGKT + R +A + RV + S G D +G AR
Sbjct: 65 KGVLLVGPPGVGKTHLARAVA------GEARVPFITAS---GSDFVEMFVGVGAAR---- 111
Query: 183 PEPSLQHKVMIEAVENHMPEVIIVDEI 209
+ + E + H P ++ +DEI
Sbjct: 112 ------VRDLFETAKRHAPCIVFIDEI 132
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 38/87 (43%), Gaps = 19/87 (21%)
Query: 123 KSILFVGRPGVGKTTVMREIARVLSDEFQKRVVIVDTSNEIGGDGDIPHSAIGTARRMQV 182
K +L VG PGVGKT + R +A + RV + S G D +G AR
Sbjct: 74 KGVLLVGPPGVGKTHLARAVA------GEARVPFITAS---GSDFVEMFVGVGAAR---- 120
Query: 183 PEPSLQHKVMIEAVENHMPEVIIVDEI 209
+ + E + H P ++ +DEI
Sbjct: 121 ------VRDLFETAKRHAPCIVFIDEI 141
>pdb|1IXZ|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
pdb|1IY0|A Chain A, Crystal Structure Of The Ftsh Atpase Domain With Amp-Pnp
From Thermus Thermophilus
pdb|1IY1|A Chain A, Crystal Structure Of The Ftsh Atpase Domain With Adp From
Thermus Thermophilus
Length = 254
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 38/87 (43%), Gaps = 19/87 (21%)
Query: 123 KSILFVGRPGVGKTTVMREIARVLSDEFQKRVVIVDTSNEIGGDGDIPHSAIGTARRMQV 182
K +L VG PGVGKT + R +A + RV + S G D +G AR
Sbjct: 50 KGVLLVGPPGVGKTHLARAVAG------EARVPFITAS---GSDFVEMFVGVGAAR---- 96
Query: 183 PEPSLQHKVMIEAVENHMPEVIIVDEI 209
+ + E + H P ++ +DEI
Sbjct: 97 ------VRDLFETAKRHAPCIVFIDEI 117
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 32/88 (36%), Gaps = 19/88 (21%)
Query: 122 GKSILFVGRPGVGKTTVMREIARVLSDEFQKRVVIVDTSNEIGGDGDIPHSAIGTARRMQ 181
K +L G PG GKT + R +A S F TS +G + + AR MQ
Sbjct: 54 AKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQ 113
Query: 182 VPEPSLQHKVMIEAVENHMPEVIIVDEI 209
P +I +DE+
Sbjct: 114 -------------------PSIIFIDEV 122
>pdb|2P5T|B Chain B, Molecular And Structural Characterization Of The Pezat
Chromosomal Toxin-Antitoxin System Of The Human Pathogen
Streptococcus Pneumoniae
pdb|2P5T|D Chain D, Molecular And Structural Characterization Of The Pezat
Chromosomal Toxin-Antitoxin System Of The Human Pathogen
Streptococcus Pneumoniae
pdb|2P5T|F Chain F, Molecular And Structural Characterization Of The Pezat
Chromosomal Toxin-Antitoxin System Of The Human Pathogen
Streptococcus Pneumoniae
pdb|2P5T|H Chain H, Molecular And Structural Characterization Of The Pezat
Chromosomal Toxin-Antitoxin System Of The Human Pathogen
Streptococcus Pneumoniae
Length = 253
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 21/35 (60%), Gaps = 4/35 (11%)
Query: 124 SILFVGRPGVGKTTVMREIARVLSDEFQKRVVIVD 158
+IL G+ G GKTT I R+ EFQ +VI+D
Sbjct: 34 AILLGGQSGAGKTT----IHRIKQKEFQGNIVIID 64
>pdb|2WWW|A Chain A, Crystal Structure Of Methylmalonic Acidemia Type A Protein
pdb|2WWW|B Chain B, Crystal Structure Of Methylmalonic Acidemia Type A Protein
pdb|2WWW|C Chain C, Crystal Structure Of Methylmalonic Acidemia Type A Protein
pdb|2WWW|D Chain D, Crystal Structure Of Methylmalonic Acidemia Type A Protein
Length = 349
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 44/174 (25%), Positives = 75/174 (43%), Gaps = 31/174 (17%)
Query: 120 HYGKSILF----VGRPGVGKTTVMREIARVLSDEFQK-RVVIVDTSNEIGGDGDIPHSAI 174
+ GK + F G PG GK+T + ++L++ K V+ VD S+ G S +
Sbjct: 68 NKGKPLAFRVGLSGPPGAGKSTFIEYFGKMLTERGHKLSVLAVDPSSCTSGG-----SLL 122
Query: 175 GTARRMQV----------PEPSLQ-----HKVMIEAV---ENHMPEVIIVDEIGTEAEAH 216
G RM P P+ + EA+ E ++I+++ +G
Sbjct: 123 GDKTRMTELSRDMNAYIRPSPTRGTLGGVTRTTNEAILLCEGAGYDIILIETVGVGQSEF 182
Query: 217 ACRSIAERGVMLIGTAHGEWLENIIKNPI-LSDLIGGVDTVTLGDEEARARRCQ 269
A + + V+L+ A G+ L+ I + I ++DL+ T + GD ARR Q
Sbjct: 183 AVADMVDMFVLLLPPAGGDELQGIKRGIIEMADLVA--VTKSDGDLIVPARRIQ 234
>pdb|1SXJ|D Chain D, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 353
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 43/86 (50%), Gaps = 7/86 (8%)
Query: 125 ILFVGRPGVGKTTVMREIARVL--SDEFQKRVVIVDTSNEIGGDGDIPHSAIGTARRMQV 182
+LF G PG GKT+ + + + L D + R++ ++ S+E G I + R+ V
Sbjct: 61 MLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERG--ISIVREKVKNFARLTV 118
Query: 183 PEPSLQHKVMIEAVENHMPEVIIVDE 208
+PS K +E ++II+DE
Sbjct: 119 SKPS---KHDLENYPCPPYKIIILDE 141
>pdb|3ADB|A Chain A, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 1)
pdb|3ADB|B Chain B, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 1)
pdb|3ADC|A Chain A, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 2)
pdb|3ADC|B Chain B, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 2)
pdb|3ADD|A Chain A, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 3)
pdb|3ADD|B Chain B, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Selenocysteine Trna And Amppnp (Crystal Type 3)
Length = 259
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 125 ILFVGRPGVGKTTVMREIARVLS 147
I+ G PGVGK+T + +A++LS
Sbjct: 14 IILTGLPGVGKSTFSKNLAKILS 36
>pdb|2GA8|A Chain A, Crystal Structure Of Yfh7 From Saccharomyces Cerevisiae: A
Putative P-Loop Containing Kinase With A Circular
Permutation.
pdb|2GAA|A Chain A, Crystal Structure Of Yfh7 From Saccharomyces Cerevisiae: A
Putative P-Loop Containing Kinase With A Circular
Permutation
Length = 359
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 9/32 (28%), Positives = 22/32 (68%)
Query: 120 HYGKSILFVGRPGVGKTTVMREIARVLSDEFQ 151
+Y ++ VG PG GK+T+ E+ +++++++
Sbjct: 22 NYRVCVILVGSPGSGKSTIAEELXQIINEKYH 53
>pdb|1RKB|A Chain A, The Structure Of Adrenal Gland Protein Ad-004
Length = 173
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 124 SILFVGRPGVGKTTVMREIA 143
+IL G PGVGKTT+ +E+A
Sbjct: 6 NILLTGTPGVGKTTLGKELA 25
>pdb|3A4L|A Chain A, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4L|B Chain B, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4M|A Chain A, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4M|B Chain B, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4N|A Chain A, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3A4N|B Chain B, Crystal Structure Of Archaeal O-Phosphoseryl-Trna(Sec)
Kinase
pdb|3AM1|A Chain A, Crystal Structure Of O-Phosphoseryl-Trna Kinase Complexed
With Anticodon-StemLOOP TRUNCATED TRNA(SEC)
Length = 260
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 125 ILFVGRPGVGKTTVMREIARVLS 147
I+ G PGVGK+T + +A++LS
Sbjct: 7 IILTGLPGVGKSTFSKNLAKILS 29
>pdb|3IIJ|A Chain A, The Structure Of Hcinap-Adp Complex At 1.76 Angstroms
Resolution.
pdb|3IIK|A Chain A, The Structure Of Hcinap-So4 Complex At 1.95 Angstroms
Resolution
pdb|3IIL|A Chain A, The Structure Of Hcinap-Mgadp-Pi Complex At 2.0 Angstroms
Resolution
pdb|3IIM|A Chain A, The Structure Of Hcinap-Dadp Complex At 2.0 Angstroms
Resolution
Length = 180
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 16/20 (80%)
Query: 124 SILFVGRPGVGKTTVMREIA 143
+IL G PGVGKTT+ +E+A
Sbjct: 13 NILLTGTPGVGKTTLGKELA 32
>pdb|1Q12|A Chain A, Crystal Structure Of The Atp-bound E. Coli Malk
pdb|1Q12|B Chain B, Crystal Structure Of The Atp-bound E. Coli Malk
pdb|1Q12|C Chain C, Crystal Structure Of The Atp-bound E. Coli Malk
pdb|1Q12|D Chain D, Crystal Structure Of The Atp-bound E. Coli Malk
pdb|1Q1E|A Chain A, The Atpase Component Of E. Coli Maltose Transporter (Malk)
In The Nucleotide-Free Form
pdb|1Q1E|B Chain B, The Atpase Component Of E. Coli Maltose Transporter (Malk)
In The Nucleotide-Free Form
pdb|2AWN|A Chain A, Crystal Structure Of The Adp-Mg-Bound E. Coli Malk
(Crystallized With Atp-Mg)
pdb|2AWN|B Chain B, Crystal Structure Of The Adp-Mg-Bound E. Coli Malk
(Crystallized With Atp-Mg)
pdb|2AWN|C Chain C, Crystal Structure Of The Adp-Mg-Bound E. Coli Malk
(Crystallized With Atp-Mg)
pdb|2AWN|D Chain D, Crystal Structure Of The Adp-Mg-Bound E. Coli Malk
(Crystallized With Atp-Mg)
pdb|2AWO|A Chain A, Crystal Structure Of The Adp-mg-bound E. Coli Malk
(crystallized With Adp-mg)
pdb|2AWO|B Chain B, Crystal Structure Of The Adp-mg-bound E. Coli Malk
(crystallized With Adp-mg)
pdb|2AWO|C Chain C, Crystal Structure Of The Adp-mg-bound E. Coli Malk
(crystallized With Adp-mg)
pdb|2AWO|D Chain D, Crystal Structure Of The Adp-mg-bound E. Coli Malk
(crystallized With Adp-mg)
pdb|3FH6|A Chain A, Crystal Structure Of The Resting State Maltose Transporter
From E. Coli
pdb|3FH6|B Chain B, Crystal Structure Of The Resting State Maltose Transporter
From E. Coli
pdb|3FH6|C Chain C, Crystal Structure Of The Resting State Maltose Transporter
From E. Coli
pdb|3FH6|D Chain D, Crystal Structure Of The Resting State Maltose Transporter
From E. Coli
pdb|3PUY|A Chain A, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Amp-Pnp After Crystal
Soaking Of The Pretranslocation State
pdb|3PUY|B Chain B, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Amp-Pnp After Crystal
Soaking Of The Pretranslocation State
pdb|3PUZ|A Chain A, Crystal Structure Of A Pre-Translocation State Mbp-Maltose
Transporter Complex Bound To Amp-Pnp
pdb|3PUZ|B Chain B, Crystal Structure Of A Pre-Translocation State Mbp-Maltose
Transporter Complex Bound To Amp-Pnp
pdb|3PV0|A Chain A, Crystal Structure Of A Pre-Translocation State Mbp-Maltose
Transporter Complex Without Nucleotide
pdb|3PV0|B Chain B, Crystal Structure Of A Pre-Translocation State Mbp-Maltose
Transporter Complex Without Nucleotide
pdb|3PUV|A Chain A, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Vo4
pdb|3PUV|B Chain B, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Vo4
pdb|3PUW|A Chain A, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Alf4
pdb|3PUW|B Chain B, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Alf4
pdb|3PUX|A Chain A, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Bef3
pdb|3PUX|B Chain B, Crystal Structure Of An Outward-Facing Mbp-Maltose
Transporter Complex Bound To Adp-Bef3
pdb|3RLF|A Chain A, Crystal Structure Of The Maltose-Binding ProteinMALTOSE
TRANSPORTER Complex In An Outward-Facing Conformation
Bound To Mgamppnp
pdb|3RLF|B Chain B, Crystal Structure Of The Maltose-Binding ProteinMALTOSE
TRANSPORTER Complex In An Outward-Facing Conformation
Bound To Mgamppnp
Length = 381
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 19/25 (76%)
Query: 119 LHYGKSILFVGRPGVGKTTVMREIA 143
+H G+ ++FVG G GK+T++R IA
Sbjct: 26 IHEGEFVVFVGPSGCGKSTLLRMIA 50
>pdb|1Q1B|A Chain A, Crystal Structure Of E. Coli Malk In The Nucleotide-Free
Form
pdb|1Q1B|B Chain B, Crystal Structure Of E. Coli Malk In The Nucleotide-Free
Form
pdb|1Q1B|C Chain C, Crystal Structure Of E. Coli Malk In The Nucleotide-Free
Form
pdb|1Q1B|D Chain D, Crystal Structure Of E. Coli Malk In The Nucleotide-Free
Form
Length = 381
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 19/25 (76%)
Query: 119 LHYGKSILFVGRPGVGKTTVMREIA 143
+H G+ ++FVG G GK+T++R IA
Sbjct: 26 IHEGEFVVFVGPSGCGKSTLLRMIA 50
>pdb|2R6G|A Chain A, The Crystal Structure Of The E. Coli Maltose Transporter
pdb|2R6G|B Chain B, The Crystal Structure Of The E. Coli Maltose Transporter
Length = 381
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 19/25 (76%)
Query: 119 LHYGKSILFVGRPGVGKTTVMREIA 143
+H G+ ++FVG G GK+T++R IA
Sbjct: 26 IHEGEFVVFVGPSGCGKSTLLRMIA 50
>pdb|1E6C|A Chain A, K15m Mutant Of Shikimate Kinase From Erwinia Chrysanthemi
pdb|1E6C|B Chain B, K15m Mutant Of Shikimate Kinase From Erwinia Chrysanthemi
Length = 173
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 15/28 (53%), Positives = 17/28 (60%)
Query: 123 KSILFVGRPGVGKTTVMREIARVLSDEF 150
+ I VG G G TTV RE+AR L EF
Sbjct: 3 EPIFMVGARGCGMTTVGRELARALGYEF 30
>pdb|2IOP|A Chain A, Crystal Structure Of Full-Length Htpg, The Escherichia
Coli Hsp90, Bound To Adp
pdb|2IOP|B Chain B, Crystal Structure Of Full-Length Htpg, The Escherichia
Coli Hsp90, Bound To Adp
pdb|2IOP|C Chain C, Crystal Structure Of Full-Length Htpg, The Escherichia
Coli Hsp90, Bound To Adp
pdb|2IOP|D Chain D, Crystal Structure Of Full-Length Htpg, The Escherichia
Coli Hsp90, Bound To Adp
pdb|2IOQ|A Chain A, Crystal Structure Of Full-Length Htpg, The Escherichia
Coli Hsp90
pdb|2IOQ|B Chain B, Crystal Structure Of Full-Length Htpg, The Escherichia
Coli Hsp90
Length = 624
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 36/82 (43%), Gaps = 2/82 (2%)
Query: 25 RGQLLEVILDLGRLPE--ARYLGEFGGKYLRSTEVSVEELEYAQSAVGEFGGDNRAGIEG 82
R + +EV+L R+ E YL EF GK +S E LE V E + +
Sbjct: 451 RKKGIEVLLLSDRIDEWMMNYLTEFDGKPFQSVSKVDESLEKLADEVDESAKEAEKALTP 510
Query: 83 TLHRISAIRSRKGAIVGLTCRV 104
+ R+ A+ + V LT R+
Sbjct: 511 FIDRVKALLGERVKDVRLTHRL 532
>pdb|1G6O|A Chain A, Crystal Structure Of The Helicobacter Pylori Atpase,
Hp0525, In Complex With Adp
pdb|1G6O|B Chain B, Crystal Structure Of The Helicobacter Pylori Atpase,
Hp0525, In Complex With Adp
pdb|1NLY|A Chain A, Crystal Structure Of The Traffic Atpase Of The
Helicobacter Pylori Type Iv Secretion System In Complex
With Atpgammas
pdb|1NLY|B Chain B, Crystal Structure Of The Traffic Atpase Of The
Helicobacter Pylori Type Iv Secretion System In Complex
With Atpgammas
pdb|1NLZ|A Chain A, Crystal Structure Of Unliganded Traffic Atpase Of The Type
Iv Secretion System Of Helicobacter Pylori
pdb|1NLZ|B Chain B, Crystal Structure Of Unliganded Traffic Atpase Of The Type
Iv Secretion System Of Helicobacter Pylori
pdb|1NLZ|C Chain C, Crystal Structure Of Unliganded Traffic Atpase Of The Type
Iv Secretion System Of Helicobacter Pylori
pdb|1NLZ|D Chain D, Crystal Structure Of Unliganded Traffic Atpase Of The Type
Iv Secretion System Of Helicobacter Pylori
pdb|1NLZ|E Chain E, Crystal Structure Of Unliganded Traffic Atpase Of The Type
Iv Secretion System Of Helicobacter Pylori
pdb|1NLZ|F Chain F, Crystal Structure Of Unliganded Traffic Atpase Of The Type
Iv Secretion System Of Helicobacter Pylori
pdb|1OPX|A Chain A, Crystal Structure Of The Traffic Atpase (Hp0525) Of The
Helicobacter Pylori Type Iv Secretion System Bound By
Sulfate
pdb|1OPX|B Chain B, Crystal Structure Of The Traffic Atpase (Hp0525) Of The
Helicobacter Pylori Type Iv Secretion System Bound By
Sulfate
Length = 330
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 112 IDMVYDLLHYGKSILFVGRPGVGKTTVMREIARVLSDEFQKRVVIVDTSNEI 163
I + D + GK+++ G G GKTT ++ I + E +R++ ++ + EI
Sbjct: 161 ISAIKDGIAIGKNVIVCGGTGSGKTTYIKSIXEFIPKE--ERIISIEDTEEI 210
>pdb|2PT7|A Chain A, Crystal Structure Of Cag Virb11 (Hp0525) And An Inhibitory
Protein (Hp1451)
pdb|2PT7|B Chain B, Crystal Structure Of Cag Virb11 (Hp0525) And An Inhibitory
Protein (Hp1451)
pdb|2PT7|C Chain C, Crystal Structure Of Cag Virb11 (Hp0525) And An Inhibitory
Protein (Hp1451)
pdb|2PT7|D Chain D, Crystal Structure Of Cag Virb11 (Hp0525) And An Inhibitory
Protein (Hp1451)
pdb|2PT7|E Chain E, Crystal Structure Of Cag Virb11 (Hp0525) And An Inhibitory
Protein (Hp1451)
pdb|2PT7|F Chain F, Crystal Structure Of Cag Virb11 (Hp0525) And An Inhibitory
Protein (Hp1451)
Length = 330
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 29/52 (55%), Gaps = 2/52 (3%)
Query: 112 IDMVYDLLHYGKSILFVGRPGVGKTTVMREIARVLSDEFQKRVVIVDTSNEI 163
I + D + GK+++ G G GKTT ++ I + E +R++ ++ + EI
Sbjct: 161 ISAIKDGIAIGKNVIVCGGTGSGKTTYIKSIMEFIPKE--ERIISIEDTEEI 210
>pdb|4DCS|A Chain A, Crystal Structure Of B. Subtilis Enga In Complex With
Sulfate Ion And Gdp
pdb|4DCT|A Chain A, Crystal Structure Of B. Subtilis Enga In Complex With
Half-Occupacy Gdp
pdb|4DCU|A Chain A, Crystal Structure Of B. Subtilis Enga In Complex With Gdp
pdb|4DCV|A Chain A, Crystal Structure Of B. Subtilis Enga In Complex With
Gmppcp
Length = 456
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 17/25 (68%), Gaps = 1/25 (4%)
Query: 120 HYGKSIL-FVGRPGVGKTTVMREIA 143
H GK ++ VGRP VGK+T+ IA
Sbjct: 20 HMGKPVVAIVGRPNVGKSTIFNRIA 44
>pdb|1Y4S|A Chain A, Conformation Rearrangement Of Heat Shock Protein 90 Upon
Adp Binding
pdb|1Y4S|B Chain B, Conformation Rearrangement Of Heat Shock Protein 90 Upon
Adp Binding
pdb|1Y4U|A Chain A, Conformation Rearrangement Of Heat Shock Protein 90 Upon
Adp Binding
pdb|1Y4U|B Chain B, Conformation Rearrangement Of Heat Shock Protein 90 Upon
Adp Binding
Length = 559
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 36/82 (43%), Gaps = 2/82 (2%)
Query: 25 RGQLLEVILDLGRLPE--ARYLGEFGGKYLRSTEVSVEELEYAQSAVGEFGGDNRAGIEG 82
R + +EV+L R+ E YL EF GK +S E LE V E + +
Sbjct: 451 RKKGIEVLLLSDRIDEWMMNYLTEFDGKPFQSVSKVDESLEKLADEVDESAKEAEKALTP 510
Query: 83 TLHRISAIRSRKGAIVGLTCRV 104
+ R+ A+ + V LT R+
Sbjct: 511 FIDRVKALLGERVKDVRLTHRL 532
>pdb|3UK6|A Chain A, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|B Chain B, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|C Chain C, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|D Chain D, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|E Chain E, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|F Chain F, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|G Chain G, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|H Chain H, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|I Chain I, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|J Chain J, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|K Chain K, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|L Chain L, Crystal Structure Of The Tip48 (Tip49b) Hexamer
Length = 368
Score = 28.9 bits (63), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 31/56 (55%), Gaps = 2/56 (3%)
Query: 91 RSRKGAIVGLTCRVGRAVSGHIDMVYDLLHYGKSILFVGRPGVGKTTVMREIARVL 146
++ +G + L R RA ++M+ + G+++L G+PG GKT + +A+ L
Sbjct: 41 QASQGMVGQLAAR--RAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQAL 94
>pdb|2VL7|A Chain A, Structure Of S. Tokodaii Xpd4
Length = 540
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 23/38 (60%), Gaps = 4/38 (10%)
Query: 119 LHYGKSILFVGRPGVGKTTVMREIARVLSDEFQKRVVI 156
L +GK++L +PG+GKT VL + +K+V+I
Sbjct: 23 LKHGKTLLLNAKPGLGKTV----FVEVLGMQLKKKVLI 56
>pdb|1Z1S|A Chain A, Crystal Structure Of Putative Isomerase Pa3332 From
Pseudomonas Aeruginosa
Length = 163
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 3/50 (6%)
Query: 52 LRSTEVSVEELEYAQSAVGEFGGDNRAGIEG---TLHRISAIRSRKGAIV 98
+R T+V E A+GEF GD A + G IS +R+R G I+
Sbjct: 86 VRFTDVQFYETADPDLAIGEFHGDGVATVSGGKLAQDYISVLRTRDGQIL 135
>pdb|1SXJ|C Chain C, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 340
Score = 28.5 bits (62), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 48/103 (46%), Gaps = 18/103 (17%)
Query: 125 ILFVGRPGVGKTTVMREIAR-VLSDEFQKRVVIVDTSNEIGGDGDIPHSAIGTARRMQVP 183
+LF G PG GKT+ + +AR + + V+ ++ S++ G D R Q+
Sbjct: 49 LLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGID----------VVRNQIK 98
Query: 184 EPSLQHKVMIEAVENHMPEVIIVDEIG--TEAEAHACRSIAER 224
+ + ++ + ++II+DE T A +A R + ER
Sbjct: 99 DFASTRQIFSKGF-----KLIILDEADAMTNAAQNALRRVIER 136
>pdb|3M6A|A Chain A, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|B Chain B, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|C Chain C, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|D Chain D, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|E Chain E, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|F Chain F, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
Length = 543
Score = 28.5 bits (62), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 122 GKSILFVGRPGVGKTTVMREIARVLSDEF 150
G + G PGVGKT++ + IA+ L +F
Sbjct: 108 GPILCLAGPPGVGKTSLAKSIAKSLGRKF 136
>pdb|2R62|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh
pdb|2R62|B Chain B, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh
pdb|2R65|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|B Chain B, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|C Chain C, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|D Chain D, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|E Chain E, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
Length = 268
Score = 28.1 bits (61), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 22/98 (22%), Positives = 40/98 (40%), Gaps = 23/98 (23%)
Query: 123 KSILFVGRPGVGKTTVMREIARVLSDEFQKRVVIVDTSNEIGGDGDIPHSAIGTAR--RM 180
K +L VG PG GKT + + +A G+ +P ++G + M
Sbjct: 45 KGVLLVGPPGTGKTLLAKAVA---------------------GEAHVPFFSMGGSSFIEM 83
Query: 181 QVPEPSLQHKVMIEAVENHMPEVIIVDEIGTEAEAHAC 218
V + + + + E + P +I +DEI ++ A
Sbjct: 84 FVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAA 121
>pdb|1KAG|A Chain A, Crystal Structure Of The Escherichia Coli Shikimate Kinase
I (Arok)
pdb|1KAG|B Chain B, Crystal Structure Of The Escherichia Coli Shikimate Kinase
I (Arok)
Length = 173
Score = 28.1 bits (61), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 20/28 (71%)
Query: 123 KSILFVGRPGVGKTTVMREIARVLSDEF 150
++I VG G GK+T+ R++A+ L+ EF
Sbjct: 5 RNIFLVGPMGAGKSTIGRQLAQQLNMEF 32
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 28.1 bits (61), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 37/87 (42%), Gaps = 19/87 (21%)
Query: 123 KSILFVGRPGVGKTTVMREIARVLSDEFQKRVVIVDTSNEIGGDGDIPHSAIGTARRMQV 182
K ++ G PG GKT + + +A S F R+V + + GDG
Sbjct: 217 KGVILYGAPGTGKTLLAKAVANQTSATFL-RIVGSELIQKYLGDG--------------- 260
Query: 183 PEPSLQHKVMIEAVENHMPEVIIVDEI 209
P L ++ A EN P ++ +DEI
Sbjct: 261 --PRLCRQIFKVAGEN-APSIVFIDEI 284
>pdb|3KJE|A Chain A, Empty State Of Cooc1
pdb|3KJG|A Chain A, Adp-Bound State Of Cooc1
pdb|3KJG|B Chain B, Adp-Bound State Of Cooc1
pdb|3KJH|A Chain A, Zn-Bound State Of Cooc1
pdb|3KJI|A Chain A, Zn And Adp Bound State Of Cooc1
pdb|3KJI|B Chain B, Zn And Adp Bound State Of Cooc1
Length = 254
Score = 27.7 bits (60), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 28/56 (50%), Gaps = 10/56 (17%)
Query: 129 GRPGVGKTTVMREIARVLSDEFQKRVVIVDTSNEIGGDGDIPHSAIGTARRMQVPE 184
G+ GVGKTTV + ++++ ++ K + DGD P S +G + + E
Sbjct: 7 GKGGVGKTTVAAGLIKIMASDYDKIYAV---------DGD-PDSCLGQTLGLSIEE 52
>pdb|3EC2|A Chain A, Crystal Structure Of The Dnac Helicase Loader
Length = 180
Score = 27.7 bits (60), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 11/15 (73%), Positives = 12/15 (80%)
Query: 122 GKSILFVGRPGVGKT 136
GK + FVG PGVGKT
Sbjct: 38 GKGLTFVGSPGVGKT 52
>pdb|3ECC|A Chain A, Crystal Structure Of The Dnac Helicase Loader In Complex
With Adp-Bef3
Length = 185
Score = 27.7 bits (60), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 11/15 (73%), Positives = 12/15 (80%)
Query: 122 GKSILFVGRPGVGKT 136
GK + FVG PGVGKT
Sbjct: 38 GKGLTFVGSPGVGKT 52
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
0.321 0.138 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,621,617
Number of Sequences: 62578
Number of extensions: 433396
Number of successful extensions: 1498
Number of sequences better than 100.0: 62
Number of HSP's better than 100.0 without gapping: 28
Number of HSP's successfully gapped in prelim test: 34
Number of HSP's that attempted gapping in prelim test: 1462
Number of HSP's gapped (non-prelim): 66
length of query: 365
length of database: 14,973,337
effective HSP length: 100
effective length of query: 265
effective length of database: 8,715,537
effective search space: 2309617305
effective search space used: 2309617305
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: 52 (24.6 bits)