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= 021147
(317 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4E0Z|A Chain A, Protelomerase Tela R205a Covalently Complexed With
Substrate Dna
Length = 462
Score = 32.0 bits (71), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 29/124 (23%), Positives = 52/124 (41%), Gaps = 18/124 (14%)
Query: 181 RCKAHKIGCEPSVIRKVNFVIFVVDGLAVLKSMEGDSDVEKQYNQIVATTFNCPYL---- 236
R + + G +P+V+ ++ I ++G+ + M+ D E A T Y+
Sbjct: 138 RAEFNTAGRKPTVLLRIADFIAAMNGMDAKQDMQALWDAEIAIMNGRAQTTIISYITKYR 197
Query: 237 -----SFRDDKPVVVVTHGDLLSLTDRARIR-----TYLGELLGIPPAKQIFDIPE---- 282
+F DD P++ + GD + AR++ G L+ +Q+ I E
Sbjct: 198 NAIREAFGDDHPMLKIATGDAAMYDEAARVKMEKIANKHGALITFENYRQVLKICEDCLK 257
Query: 283 SSDP 286
SSDP
Sbjct: 258 SSDP 261
>pdb|4E10|A Chain A, Protelomerase Tela Y201a Covalently Complexed With
Substrate Dna
Length = 462
Score = 31.6 bits (70), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 31/125 (24%), Positives = 53/125 (42%), Gaps = 20/125 (16%)
Query: 181 RCKAHKIGCEPSVIRKVNFVIFVVDGLAVLKSMEGDSDVEKQYNQIVATTFNCPYL---- 236
R + + G +P+V+ ++ I ++G+ + M+ D E A T Y+
Sbjct: 138 RAEFNTAGRKPTVLLRIADFIAAMNGMDAKQDMQALWDAEIAIMNGRAQTTIISYITKYR 197
Query: 237 -----SFRDDKPVVVVTHGDLLSLTDRAR------IRTYLGELLGIPPAKQIFDIPE--- 282
+F DD P++ + GD ++ D AR I G L+ +Q+ I E
Sbjct: 198 NAIREAFGDDHPMLKIATGD-AAMADEARRVKMEKIANKHGALITFENYRQVLKICEDCL 256
Query: 283 -SSDP 286
SSDP
Sbjct: 257 KSSDP 261
>pdb|1XZP|A Chain A, Structure Of The Gtp-Binding Protein Trme From Thermotoga
Maritima
pdb|1XZQ|A Chain A, Structure Of The Gtp-binding Protein Trme From Thermotoga
Maritima Complexed With 5-formyl-thf
Length = 482
Score = 31.6 bits (70), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 53/236 (22%), Positives = 97/236 (41%), Gaps = 44/236 (18%)
Query: 36 GSRDSWDSLVDQRRRDAVFREV---LQSYDQLRTRIGSLTDAKNKILSYTPGAWIENVGG 92
G RD DSL +R V E+ L D++ T G + +I + G
Sbjct: 180 GLRDFVDSL--RRELIEVLAEIRVELDYPDEIETNTGEVVTRLERIKEKLTEELKKADAG 237
Query: 93 MTLSDYDVPKTTSLLLIGPKGSGKSSLVNRISKVFENDKFASERAQVTYNSSVGDGTYFL 152
+ L+ + ++++G GKS+L+NR+ +RA VT G +
Sbjct: 238 ILLN-----RGLRMVIVGKPNVGKSTLLNRL--------LNEDRAIVT--DIPGTTRDVI 282
Query: 153 QEYTIPRGVRHGELVIRRSDSSSLRNRMRCKAHKIGCEPSV--IRKVNFVIFVVDGLAVL 210
E + RG+ + R D++ +R+ ++G E ++ I K + V+FV+D
Sbjct: 283 SEEIVIRGI-----LFRIVDTAGVRSETNDLVERLGIERTLQEIEKADIVLFVLD----- 332
Query: 211 KSMEGDSDVEKQYNQIVATTFNCPYLSFRDDKPVVVVTHGDLLSLTDRARIRTYLG 266
S ++++ +I+ N YL VV+ D++ + I+ LG
Sbjct: 333 ----ASSPLDEEDRKILERIKNKRYL--------VVINKVDVVEKINEEEIKNKLG 376
>pdb|1GAJ|A Chain A, Crystal Structure Of A Nucleotide-Free Atp-Binding
Cassette From An Abc Transporter
Length = 257
Score = 31.6 bits (70), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 19/25 (76%)
Query: 107 LLIGPKGSGKSSLVNRISKVFENDK 131
L+IGP GSGKS+L+N I+ + D+
Sbjct: 37 LIIGPNGSGKSTLINVITGFLKADE 61
>pdb|1G6H|A Chain A, Crystal Structure Of The Adp Conformation Of Mj1267, An
Atp- Binding Cassette Of An Abc Transporter
Length = 257
Score = 31.6 bits (70), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 19/25 (76%)
Query: 107 LLIGPKGSGKSSLVNRISKVFENDK 131
L+IGP GSGKS+L+N I+ + D+
Sbjct: 37 LIIGPNGSGKSTLINVITGFLKADE 61
>pdb|1G9X|A Chain A, Characterization Of The Twinning Structure Of Mj1267, An
Atp-Binding Cassette Of An Abc Transporter
pdb|1G9X|B Chain B, Characterization Of The Twinning Structure Of Mj1267, An
Atp-Binding Cassette Of An Abc Transporter
pdb|1G9X|C Chain C, Characterization Of The Twinning Structure Of Mj1267, An
Atp-Binding Cassette Of An Abc Transporter
Length = 257
Score = 31.6 bits (70), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 19/25 (76%)
Query: 107 LLIGPKGSGKSSLVNRISKVFENDK 131
L+IGP GSGKS+L+N I+ + D+
Sbjct: 37 LIIGPNGSGKSTLINVITGFLKADE 61
>pdb|3B5X|A Chain A, Crystal Structure Of Msba From Vibrio Cholerae
pdb|3B5X|B Chain B, Crystal Structure Of Msba From Vibrio Cholerae
Length = 582
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 10/33 (30%), Positives = 22/33 (66%)
Query: 98 YDVPKTTSLLLIGPKGSGKSSLVNRISKVFEND 130
+ +P+ ++ L+G GSGKS++ N ++ ++ D
Sbjct: 364 FSIPQGKTVALVGRSGSGKSTIANLFTRFYDVD 396
>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp
Length = 195
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/41 (46%), Positives = 23/41 (56%), Gaps = 4/41 (9%)
Query: 97 DYDVPKTTSLLLIGPKGSGKSSLVNRISKVFENDKFASERA 137
D DV T +L+IG G GKSSL+ R F +D F E A
Sbjct: 9 DEDVLTTLKILIIGESGVGKSSLLLR----FTDDTFDPELA 45
>pdb|3QF4|B Chain B, Crystal Structure Of A Heterodimeric Abc Transporter In
Its Inward- Facing Conformation
Length = 598
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 19/24 (79%)
Query: 108 LIGPKGSGKSSLVNRISKVFENDK 131
L+GP GSGK+++VN + + ++ D+
Sbjct: 386 LVGPTGSGKTTIVNLLMRFYDVDR 409
>pdb|1G3I|A Chain A, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|B Chain B, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|C Chain C, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|D Chain D, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|E Chain E, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|F Chain F, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|S Chain S, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|T Chain T, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|U Chain U, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|V Chain V, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|W Chain W, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|X Chain X, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G41|A Chain A, Crystal Structure Of Hslu Haemophilus Influenzae
pdb|1KYI|A Chain A, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|B Chain B, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|C Chain C, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|D Chain D, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|E Chain E, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|F Chain F, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|S Chain S, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|T Chain T, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|U Chain U, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|V Chain V, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|W Chain W, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|X Chain X, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
Length = 444
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 32/72 (44%), Gaps = 5/72 (6%)
Query: 55 REVLQSYDQLRTRIGSLTDAKNKILSYTPGAWIENVGGMTLSDYDVPKTTSLLLIGPKGS 114
RE++ DQ I DAK + W L PK ++L+IGP G
Sbjct: 7 REIVSELDQ---HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPK--NILMIGPTGV 61
Query: 115 GKSSLVNRISKV 126
GK+ + R++K+
Sbjct: 62 GKTEIARRLAKL 73
>pdb|3C7K|A Chain A, Molecular Architecture Of Galphao And The Structural Basis
For Rgs16-Mediated Deactivation
pdb|3C7K|C Chain C, Molecular Architecture Of Galphao And The Structural Basis
For Rgs16-Mediated Deactivation
Length = 333
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 32/130 (24%), Positives = 61/130 (46%), Gaps = 20/130 (15%)
Query: 100 VPKTTSLLLIGPKGSGKSSLVNRISKVFENDKFASERAQ----VTYNSSVGDGTYFLQEY 155
K LLL+G SGKS++V ++ K+ D F+ E + V Y++++ ++
Sbjct: 9 AAKDVKLLLLGAGESGKSTIVKQM-KIIHEDGFSGEDVKQYKPVVYSNTIQSLAAIVRAM 67
Query: 156 TIPRGVRHGELVIRRSDSSSLRNRMRCKAHKIGCEPSVIRKVNFVIFVVDGLAVLKSMEG 215
GV +G+ R++DS +M C V R + F + L+ + + G
Sbjct: 68 D-TLGVEYGDKE-RKTDS-----KMVCDV--------VSRMEDTEPFSAELLSAMMRLWG 112
Query: 216 DSDVEKQYNQ 225
DS +++ +N+
Sbjct: 113 DSGIQECFNR 122
>pdb|2R6F|A Chain A, Crystal Structure Of Bacillus Stearothermophilus Uvra
pdb|2R6F|B Chain B, Crystal Structure Of Bacillus Stearothermophilus Uvra
Length = 972
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 4/44 (9%)
Query: 84 GAWIENVGG----MTLSDYDVPKTTSLLLIGPKGSGKSSLVNRI 123
G W+E VG + +P T + + G GSGKS+LVN +
Sbjct: 627 GRWLEVVGAREHNLKNVSVKIPLGTFVAVTGVSGSGKSTLVNEV 670
>pdb|1OFH|A Chain A, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
(h. Influenzae)
pdb|1OFH|B Chain B, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
(h. Influenzae)
pdb|1OFH|C Chain C, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
(h. Influenzae)
pdb|1OFI|A Chain A, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
(H. Influenzae)
pdb|1OFI|B Chain B, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
(H. Influenzae)
pdb|1OFI|C Chain C, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
(H. Influenzae)
Length = 310
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 32/72 (44%), Gaps = 5/72 (6%)
Query: 55 REVLQSYDQLRTRIGSLTDAKNKILSYTPGAWIENVGGMTLSDYDVPKTTSLLLIGPKGS 114
RE++ DQ I DAK + W L PK ++L+IGP G
Sbjct: 7 REIVSELDQ---HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPK--NILMIGPTGV 61
Query: 115 GKSSLVNRISKV 126
GK+ + R++K+
Sbjct: 62 GKTEIARRLAKL 73
>pdb|3UWX|A Chain A, Crystal Structure Of Uvra-Uvrb Complex
Length = 972
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 4/44 (9%)
Query: 84 GAWIENVGG----MTLSDYDVPKTTSLLLIGPKGSGKSSLVNRI 123
G W+E VG + +P T + + G GSGKS+LVN +
Sbjct: 627 GRWLEVVGAREHNLKNVSVKIPLGTFVAVTGVSGSGKSTLVNEV 670
>pdb|3DM5|A Chain A, Structures Of Srp54 And Srp19, The Two Proteins Assembling
The Ribonucleic Core Of The Signal Recognition Particle
From The Archaeon Pyrococcus Furiosus.
pdb|3DM5|B Chain B, Structures Of Srp54 And Srp19, The Two Proteins Assembling
The Ribonucleic Core Of The Signal Recognition Particle
From The Archaeon Pyrococcus Furiosus
Length = 443
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 21/28 (75%)
Query: 102 KTTSLLLIGPKGSGKSSLVNRISKVFEN 129
K T LL++G +GSGK++ V ++++ F+
Sbjct: 99 KPTILLMVGIQGSGKTTTVAKLARYFQK 126
>pdb|3UX8|A Chain A, Crystal Structure Of Uvra
Length = 670
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 4/44 (9%)
Query: 84 GAWIENVGG----MTLSDYDVPKTTSLLLIGPKGSGKSSLVNRI 123
G W+E VG + +P T + + G GSGKS+LVN +
Sbjct: 325 GRWLEVVGAREHNLKNVSVKIPLGTFVAVTGVSGSGKSTLVNEV 368
>pdb|2WET|A Chain A, Crystal Structure Of Tryptophan 5-Halogenase (Pyrh)
Complex With Fad (Tryptophan)
pdb|2WET|B Chain B, Crystal Structure Of Tryptophan 5-Halogenase (Pyrh)
Complex With Fad (Tryptophan)
pdb|2WET|C Chain C, Crystal Structure Of Tryptophan 5-Halogenase (Pyrh)
Complex With Fad (Tryptophan)
pdb|2WET|D Chain D, Crystal Structure Of Tryptophan 5-Halogenase (Pyrh)
Complex With Fad (Tryptophan)
pdb|2WEU|A Chain A, Crystal Structure Of Tryptophan 5-Halogenase (Pyrh)
Complex With Substrate Tryptophan
pdb|2WEU|B Chain B, Crystal Structure Of Tryptophan 5-Halogenase (Pyrh)
Complex With Substrate Tryptophan
pdb|2WEU|C Chain C, Crystal Structure Of Tryptophan 5-Halogenase (Pyrh)
Complex With Substrate Tryptophan
pdb|2WEU|D Chain D, Crystal Structure Of Tryptophan 5-Halogenase (Pyrh)
Complex With Substrate Tryptophan
Length = 511
Score = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 2/56 (3%)
Query: 110 GPKGSGKSSLVNRISKVFENDKFASERAQV--TYNSSVGDGTYFLQEYTIPRGVRH 163
P+ S +++ + A +RAQ Y+ + +L EY I RGVRH
Sbjct: 135 APRMLDGSLFASQVDESLGRSTLAEQRAQFPYAYHFDADEVARYLSEYAIARGVRH 190
>pdb|2WES|A Chain A, Crystal Structures Of Mutant E46q Of Tryptophan 5-
Halogenase (pyrh)
pdb|2WES|B Chain B, Crystal Structures Of Mutant E46q Of Tryptophan 5-
Halogenase (pyrh)
pdb|2WES|C Chain C, Crystal Structures Of Mutant E46q Of Tryptophan 5-
Halogenase (pyrh)
pdb|2WES|D Chain D, Crystal Structures Of Mutant E46q Of Tryptophan 5-
Halogenase (pyrh)
Length = 511
Score = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 2/56 (3%)
Query: 110 GPKGSGKSSLVNRISKVFENDKFASERAQV--TYNSSVGDGTYFLQEYTIPRGVRH 163
P+ S +++ + A +RAQ Y+ + +L EY I RGVRH
Sbjct: 135 APRMLDGSLFASQVDESLGRSTLAEQRAQFPYAYHFDADEVARYLSEYAIARGVRH 190
>pdb|3NDP|A Chain A, Crystal Structure Of Human Ak4(L171p)
pdb|3NDP|B Chain B, Crystal Structure Of Human Ak4(L171p)
Length = 231
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 39/81 (48%), Gaps = 7/81 (8%)
Query: 102 KTTSLLLIGPKGSGKSSLVNRISKVFENDKFASE---RAQVTYNSSVGDGTYFLQEYTIP 158
K +++GP GSGK ++ RI++ F +S R + ++ VG+ + + I
Sbjct: 4 KLLRAVILGPPGSGKGTVCQRIAQNFGLQHLSSGHFLRENIKASTEVGE----MAKQYIE 59
Query: 159 RGVRHGELVIRRSDSSSLRNR 179
+ + + VI R S L NR
Sbjct: 60 KSLLVPDHVITRLMMSELENR 80
>pdb|2AR7|A Chain A, Crystal Structure Of Human Adenylate Kinase 4, Ak4
pdb|2AR7|B Chain B, Crystal Structure Of Human Adenylate Kinase 4, Ak4
pdb|2BBW|A Chain A, Crystal Structure Of Human Adenylate Kinase 4 (Ak4) In
Complex With Diguanosine Pentaphosphate
pdb|2BBW|B Chain B, Crystal Structure Of Human Adenylate Kinase 4 (Ak4) In
Complex With Diguanosine Pentaphosphate
Length = 246
Score = 28.5 bits (62), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 39/81 (48%), Gaps = 7/81 (8%)
Query: 102 KTTSLLLIGPKGSGKSSLVNRISKVFENDKFASE---RAQVTYNSSVGDGTYFLQEYTIP 158
K +++GP GSGK ++ RI++ F +S R + ++ VG+ + + I
Sbjct: 26 KLLRAVILGPPGSGKGTVCQRIAQNFGLQHLSSGHFLRENIKASTEVGE----MAKQYIE 81
Query: 159 RGVRHGELVIRRSDSSSLRNR 179
+ + + VI R S L NR
Sbjct: 82 KSLLVPDHVITRLMMSELENR 102
>pdb|1IM2|A Chain A, Hslu, Haemophilus Influenzae, Selenomethionine Variant
Length = 444
Score = 28.5 bits (62), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 31/72 (43%), Gaps = 5/72 (6%)
Query: 55 REVLQSYDQLRTRIGSLTDAKNKILSYTPGAWIENVGGMTLSDYDVPKTTSLLLIGPKGS 114
RE++ DQ I DAK + W L PK ++L IGP G
Sbjct: 7 REIVSELDQ---HIIGQADAKRAVAIALRNRWRRXQLQEPLRHEVTPK--NILXIGPTGV 61
Query: 115 GKSSLVNRISKV 126
GK+ + R++K+
Sbjct: 62 GKTEIARRLAKL 73
>pdb|4F4J|A Chain A, Conversion Of The Enzyme Guanylate Kinase Into A Mitotic
Spindle Orienting Protein By A Single Mutation That
Inhibits Gmp- Induced Closing
pdb|4F4J|B Chain B, Conversion Of The Enzyme Guanylate Kinase Into A Mitotic
Spindle Orienting Protein By A Single Mutation That
Inhibits Gmp- Induced Closing
Length = 202
Score = 28.5 bits (62), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 22/37 (59%), Gaps = 10/37 (27%)
Query: 97 DYDVPKTTSL----------LLIGPKGSGKSSLVNRI 123
DYD+P T +L ++ GP G+GKS+L+ ++
Sbjct: 1 DYDIPTTENLYFQGSMSRPIVISGPSGTGKSTLLKKL 37
>pdb|4F4C|A Chain A, The Crystal Structure Of The Multi-Drug Transporter
Length = 1321
Score = 28.1 bits (61), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 29/55 (52%), Gaps = 3/55 (5%)
Query: 75 KNKILSYTPGAWIENVGGMTLSDYDVPKTTSLLLIGPKGSGKSSLVNRISKVFEN 129
KN +Y IE + G++ S V +L L+GP G GKS++V + + ++
Sbjct: 1080 KNVRFAYPERPEIEILKGLSFS---VEPGQTLALVGPSGCGKSTVVALLERFYDT 1131
>pdb|4FZN|A Chain A, Crystal Structure Of Syringacin M Mutant D232a From
Pseudomonas Syringae Pv. Tomato Dc3000
Length = 283
Score = 28.1 bits (61), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 34/74 (45%), Gaps = 8/74 (10%)
Query: 29 LLSGDDEGSRDSWD--------SLVDQRRRDAVFREVLQSYDQLRTRIGSLTDAKNKILS 80
L + D+ RDS+ + +R+A R++ +Y+++ T IG I+
Sbjct: 59 LATFQDQARRDSFGIQSKVALKTFAAADQREAEGRDLRTAYNEIATDIGRSQQINENIIK 118
Query: 81 YTPGAWIENVGGMT 94
Y PG + + G MT
Sbjct: 119 YPPGNHVLSGGLMT 132
>pdb|4G37|A Chain A, Structure Of Cross-Linked Firefly Luciferase In Second
Catalytic Conformation
pdb|4G37|B Chain B, Structure Of Cross-Linked Firefly Luciferase In Second
Catalytic Conformation
Length = 555
Score = 28.1 bits (61), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 98 YDVPKTTSLLLIGPKGSGKSSLVNRISKVFE 128
Y + +TTS +LI PKG K V ++ FE
Sbjct: 345 YGLTETTSAILITPKGDDKPGAVGKVVPFFE 375
>pdb|4FZM|A Chain A, Crystal Structure Of The Bacteriocin Syringacin M From
Pseudomonas Syringae Pv. Tomato Dc3000
Length = 284
Score = 28.1 bits (61), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 34/74 (45%), Gaps = 8/74 (10%)
Query: 29 LLSGDDEGSRDSWD--------SLVDQRRRDAVFREVLQSYDQLRTRIGSLTDAKNKILS 80
L + D+ RDS+ + +R+A R++ +Y+++ T IG I+
Sbjct: 60 LATFQDQARRDSFGIQSKVALKTFAAADQREAEGRDLRTAYNEIATDIGRSQQINENIIK 119
Query: 81 YTPGAWIENVGGMT 94
Y PG + + G MT
Sbjct: 120 YPPGNHVLSGGLMT 133
>pdb|1UM8|A Chain A, Crystal Structure Of Helicobacter Pylori Clpx
Length = 376
Score = 27.7 bits (60), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 25/44 (56%)
Query: 104 TSLLLIGPKGSGKSSLVNRISKVFENDKFASERAQVTYNSSVGD 147
+++LLIGP GSGK+ + ++K + S+ +T VG+
Sbjct: 73 SNILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSLTEAGYVGE 116
>pdb|3HWS|A Chain A, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|B Chain B, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|C Chain C, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|D Chain D, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|E Chain E, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|F Chain F, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
Length = 363
Score = 27.7 bits (60), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 26/44 (59%)
Query: 104 TSLLLIGPKGSGKSSLVNRISKVFENDKFASERAQVTYNSSVGD 147
+++LLIGP GSGK+ L ++++ + ++ +T VG+
Sbjct: 52 SNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGE 95
>pdb|3HTE|A Chain A, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|B Chain B, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|C Chain C, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|D Chain D, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|E Chain E, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|F Chain F, Crystal Structure Of Nucleotide-Free Hexameric Clpx
Length = 363
Score = 27.7 bits (60), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 26/44 (59%)
Query: 104 TSLLLIGPKGSGKSSLVNRISKVFENDKFASERAQVTYNSSVGD 147
+++LLIGP GSGK+ L ++++ + ++ +T VG+
Sbjct: 52 SNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGE 95
>pdb|4FZL|A Chain A, High Resolution Structure Of Truncated Bacteriocin
Syringacin M From Pseudomonas Syringae Pv. Tomato
Dc3000
pdb|4FZL|B Chain B, High Resolution Structure Of Truncated Bacteriocin
Syringacin M From Pseudomonas Syringae Pv. Tomato
Dc3000
Length = 247
Score = 27.7 bits (60), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 34/74 (45%), Gaps = 8/74 (10%)
Query: 29 LLSGDDEGSRDSWD--------SLVDQRRRDAVFREVLQSYDQLRTRIGSLTDAKNKILS 80
L + D+ RDS+ + +R+A R++ +Y+++ T IG I+
Sbjct: 23 LATFQDQARRDSFGIQSKVALKTFAAADQREAEGRDLRTAYNEIATDIGRSQQINENIIK 82
Query: 81 YTPGAWIENVGGMT 94
Y PG + + G MT
Sbjct: 83 YPPGNHVLSGGLMT 96
>pdb|3D3Q|A Chain A, Crystal Structure Of Trna
Delta(2)-Isopentenylpyrophosphate Transferase (Se0981)
From Staphylococcus Epidermidis. Northeast Structural
Genomics Consortium Target Ser100
pdb|3D3Q|B Chain B, Crystal Structure Of Trna
Delta(2)-Isopentenylpyrophosphate Transferase (Se0981)
From Staphylococcus Epidermidis. Northeast Structural
Genomics Consortium Target Ser100
Length = 340
Score = 27.7 bits (60), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 19/81 (23%), Positives = 36/81 (44%), Gaps = 3/81 (3%)
Query: 106 LLLIGPKGSGKSSLVNRISKVFENDKFASERAQVTYNSSVGDGTYFLQEYTIPRGVRHGE 165
++++GP SGK+ L ++K F + + + QV +G +E G+ H
Sbjct: 10 IVIVGPTASGKTELSIEVAKKFNGEIISGDSXQVYQGXDIGTAKVTTEE---XEGIPHYX 66
Query: 166 LVIRRSDSSSLRNRMRCKAHK 186
+ I D+S + +A K
Sbjct: 67 IDILPPDASFSAYEFKKRAEK 87
>pdb|3B5W|A Chain A, Crystal Structure Of Eschericia Coli Msba
pdb|3B5W|B Chain B, Crystal Structure Of Eschericia Coli Msba
pdb|3B5W|C Chain C, Crystal Structure Of Eschericia Coli Msba
pdb|3B5W|D Chain D, Crystal Structure Of Eschericia Coli Msba
pdb|3B5W|E Chain E, Crystal Structure Of Eschericia Coli Msba
pdb|3B5W|F Chain F, Crystal Structure Of Eschericia Coli Msba
pdb|3B5W|G Chain G, Crystal Structure Of Eschericia Coli Msba
pdb|3B5W|H Chain H, Crystal Structure Of Eschericia Coli Msba
Length = 582
Score = 27.7 bits (60), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 10/35 (28%), Positives = 23/35 (65%)
Query: 97 DYDVPKTTSLLLIGPKGSGKSSLVNRISKVFENDK 131
+ +P ++ L+G GSGKS++ + I++ ++ D+
Sbjct: 363 NLKIPAGKTVALVGRSGSGKSTIASLITRFYDIDE 397
>pdb|3B5Y|A Chain A, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp
pdb|3B5Y|B Chain B, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp
pdb|3B5Y|C Chain C, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp
pdb|3B5Y|D Chain D, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp
pdb|3B5Z|A Chain A, Crystal Structure Of Msba From Salmonella Typhimurium With
Adp Vanadate
pdb|3B5Z|B Chain B, Crystal Structure Of Msba From Salmonella Typhimurium With
Adp Vanadate
pdb|3B5Z|C Chain C, Crystal Structure Of Msba From Salmonella Typhimurium With
Adp Vanadate
pdb|3B5Z|D Chain D, Crystal Structure Of Msba From Salmonella Typhimurium With
Adp Vanadate
pdb|3B60|A Chain A, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp, Higher Resolution Form
pdb|3B60|B Chain B, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp, Higher Resolution Form
pdb|3B60|C Chain C, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp, Higher Resolution Form
pdb|3B60|D Chain D, Crystal Structure Of Msba From Salmonella Typhimurium With
Amppnp, Higher Resolution Form
Length = 582
Score = 27.7 bits (60), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 10/35 (28%), Positives = 23/35 (65%)
Query: 97 DYDVPKTTSLLLIGPKGSGKSSLVNRISKVFENDK 131
+ +P ++ L+G GSGKS++ + I++ ++ D+
Sbjct: 363 NLKIPAGKTVALVGRSGSGKSTIASLITRFYDIDE 397
>pdb|1E69|A Chain A, Smc Head Domain From Thermotoga Maritima
pdb|1E69|B Chain B, Smc Head Domain From Thermotoga Maritima
pdb|1E69|C Chain C, Smc Head Domain From Thermotoga Maritima
pdb|1E69|D Chain D, Smc Head Domain From Thermotoga Maritima
pdb|1E69|E Chain E, Smc Head Domain From Thermotoga Maritima
pdb|1E69|F Chain F, Smc Head Domain From Thermotoga Maritima
Length = 322
Score = 27.7 bits (60), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 28/61 (45%), Gaps = 5/61 (8%)
Query: 108 LIGPKGSGKSSLVNRISKVFENDKFASERAQVTYNSSVGDGTYFLQEYTIPRGVRHGELV 167
++GP GSGKS++++ I VF RA + D + E P G + ELV
Sbjct: 29 IVGPNGSGKSNIIDAIKWVFGEQSKKELRASEKF-----DMIFAGSENLPPAGSAYVELV 83
Query: 168 I 168
Sbjct: 84 F 84
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
0.318 0.136 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,524,013
Number of Sequences: 62578
Number of extensions: 388191
Number of successful extensions: 1500
Number of sequences better than 100.0: 48
Number of HSP's better than 100.0 without gapping: 24
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 1471
Number of HSP's gapped (non-prelim): 52
length of query: 317
length of database: 14,973,337
effective HSP length: 99
effective length of query: 218
effective length of database: 8,778,115
effective search space: 1913629070
effective search space used: 1913629070
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)