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= 040742
(581 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3F9V|A Chain A, Crystal Structure Of A Near Full-Length Archaeal Mcm:
Functional Insights For An Aaa+ Hexameric Helicase
Length = 595
Score = 274 bits (701), Expect = 8e-74, Method: Compositional matrix adjust.
Identities = 188/595 (31%), Positives = 297/595 (49%), Gaps = 93/595 (15%)
Query: 3 RMTLSCMTAAVHKNKLE-------DGMKINIRPYNYPESMIALKNLKAAYIDKLVSVRGT 55
++ L + A++ + L+ D K+++R P +I L+ +++ I KL+++ G
Sbjct: 62 KIILPILEGALYDHILQLDPTYQRDIEKVHVRIVGIPR-VIELRKIRSTDIGKLITIDGI 120
Query: 56 VVKAGTVRPLVVRMDFEC--SKCKSEILRIFPEGKFSP-----PLVCTLHGCKSKTFTPI 108
+VK V+ + + ++ C E +PE + P P +C G K F I
Sbjct: 121 LVKVTPVKERIYKATYKHIHPDCMQEFE--WPEDEEMPEVLEMPTICPKCG-KPGQFRLI 177
Query: 109 RASARKIDFQKIRLQELLKSQDHEEGRVPRTVECELSEDLVDACIPGDVVTVTGIIRVIN 168
+ ID+QK +QE + ++ G++PR +E L +DLVD+ PGD V VTGI+ +
Sbjct: 178 PEKTKLIDWQKAVIQE--RPEEVPSGQLPRQLEIILEDDLVDSARPGDRVKVTGILDIKQ 235
Query: 169 NYMDIXXXXXXXXXQGFYYLFLEAVSVKNSKSQSDTEDLQGSNCNARASEQANLFSFSPR 228
+ + + ++++ S++ S+ D S
Sbjct: 236 D------SPVKRGSRAVFDIYMKVSSIEVSQKVLDE------------------VIISEE 271
Query: 229 DLEFIVKFSEESGSDIFRQIVQSICPSIYGHELVKAGITLALFGGVRKHSMYQNKVPVRG 288
D + I +++ I +I+ SI PSIYGH +K + LALFGGV K +RG
Sbjct: 272 DEKKIKDLAKDPW--IRDRIISSIAPSIYGHWELKEALALALFGGVPK---VLEDTRIRG 326
Query: 289 DIHVIVVGDPGLGKSQLLQAAAAVSPRGIYVCGNATTKAGLTVAVVKDSVTNDYAFEAGA 348
DIH++++GDPG KSQ+LQ + V+PR +Y G +T AGLT AVV++ T +Y EAGA
Sbjct: 327 DIHILIIGDPGTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAVVREKGTGEYYLEAGA 386
Query: 349 MVLADSGLCCIDEFDKMSAEHQ-ALLEAMEQQCVSVAKAGLVASLSARTSVLAAANPVGG 407
+VLAD G+ IDE DKM E + A+ EAMEQQ VS+AKAG+VA L+AR +V+AA NP G
Sbjct: 387 LVLADGGIAVIDEIDKMRDEDRVAIHEAMEQQTVSIAKAGIVAKLNARAAVIAAGNPKFG 446
Query: 408 HYNRAKTVNENLKMSAALLSRFDLVFILLDKPDELLDKRVSEHIMSLHSGYQEHSSAAKK 467
Y + V++N+ + +LSRFDL+FIL D+P E D+ ++ +I+ +HSG +
Sbjct: 447 RYISERPVSDNINLPPTILSRFDLIFILKDQPGE-QDRELANYILDVHSGKSTKNI---- 501
Query: 468 PRTAYHNTEXXXXXXXXXXXXXXXRLDPKKDGDFHPLPAPLLRKYIAYARTFVFPRMTKP 527
+ LRKYIAYAR +V P++T
Sbjct: 502 ------------------------------------IDIDTLRKYIAYARKYVTPKITSE 525
Query: 528 AAEILQKFYLKLRDHNTSADSTP--ITARQXXXXXXXXXXXXXXXXXXXITAEDA 580
A ++ F++++R ++ +P IT RQ +T EDA
Sbjct: 526 AKNLITDFFVEMRKKSSETPDSPILITPRQLEALIRISEAYAKMALKAEVTREDA 580
>pdb|1LTL|A Chain A, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
pdb|1LTL|B Chain B, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
pdb|1LTL|C Chain C, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
pdb|1LTL|D Chain D, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
pdb|1LTL|E Chain E, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
pdb|1LTL|F Chain F, The Dodecamer Structure Of Mcm From Archaeal M.
Thermoautotrophicum
Length = 279
Score = 80.5 bits (197), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 50/170 (29%), Positives = 87/170 (51%), Gaps = 6/170 (3%)
Query: 1 KPRMTLSCMTAAVHK-NKLEDGMKINIRPYNYPESMIALKNLKAAYIDKLVSVRGTVVKA 59
KP + A+ ++L + +NIR ++ ++I L+ L++ +I K V+V G V K
Sbjct: 65 KPDDVIRAAQQAIRNIDRLRKNVDLNIR-FSGISNVIPLRELRSKFIGKFVAVDGIVRKT 123
Query: 60 GTVRPLVVRMDFECSKCKSEILRIFPEGKFSPPLVCTLHGCKSKTFTPIRASARKIDFQK 119
+RP +V+ FEC C + P +C+ C ++F ++ + +D Q
Sbjct: 124 DEIRPRIVKAVFECRGCMRHHAVTQSTNMITEPSLCS--ECGGRSFRLLQDESEFLDTQT 181
Query: 120 IRLQELLKSQDHEEGRVPRTVECELSEDLVDACIPGDVVTVTGIIRVINN 169
++LQE L ++ G PR + L +DLVD PGD+V VTG +R + +
Sbjct: 182 LKLQEPL--ENLSGGEQPRQITVVLEDDLVDTLTPGDIVRVTGTLRTVRD 229
>pdb|3F8T|A Chain A, Crystal Structure Analysis Of A Full-Length Mcm Homolog
From Methanopyrus Kandleri
Length = 506
Score = 73.9 bits (180), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 65/210 (30%), Positives = 98/210 (46%), Gaps = 23/210 (10%)
Query: 227 PRDLEFIVKFSEESGSDIFRQIVQSICPSIYGHELVKAGITLALFGGVRKHSMYQNKVPV 286
P +LE +F E + D ++I P + G E V + L LF V K+S
Sbjct: 190 PAELE---EFRELADKDPLTTFARAIAP-LPGAEEVGKMLALQLFSCVGKNSER------ 239
Query: 287 RGDIHVIVVGDPGLGKSQLLQAAAAVSPRGIYVCGNATTKAGLTVAVVKDSVTNDYAFEA 346
+HV++ G P + L ++PRG+YV T LT + +D +A A
Sbjct: 240 ---LHVLLAGYPVVCSEILHHVLDHLAPRGVYVDLRRTELTDLTAVLKED---RGWALRA 293
Query: 347 GAMVLADSGLCCIDEFDKMSAEHQ-ALLEAMEQQCVSVAKAGLVASLSARTSVLAAANPV 405
GA VLAD G+ +D + H+ AL+EAM++ V+V +L+AR +VLAA NP
Sbjct: 294 GAAVLADGGILAVDHLEGAPEPHRWALMEAMDKGTVTVDG----IALNARCAVLAAINP- 348
Query: 406 GGHYNRAKTVNENLKMSAALLSRFDLVFIL 435
G + + + LS FDL+ L
Sbjct: 349 -GEQWPSDPPIARIDLDQDFLSHFDLIAFL 377
>pdb|2VL6|A Chain A, Structural Analysis Of The Sulfolobus Solfataricus Mcm
Protein N-Terminal Domain
pdb|2VL6|B Chain B, Structural Analysis Of The Sulfolobus Solfataricus Mcm
Protein N-Terminal Domain
pdb|2VL6|C Chain C, Structural Analysis Of The Sulfolobus Solfataricus Mcm
Protein N-Terminal Domain
Length = 268
Score = 62.0 bits (149), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 50/178 (28%), Positives = 90/178 (50%), Gaps = 20/178 (11%)
Query: 3 RMTLSCMTAAVHKNKLE-------DGMKINIRPYNYPESMIALKNLKAAYIDKLVSVRGT 55
++ L + A++ + L+ D K+++R P +I L+ +++ I KL+++ G
Sbjct: 68 KIILPILEGALYDHILQLDPTYQRDIEKVHVRIVGIP-RVIELRKIRSTDIGKLITIDGI 126
Query: 56 VVKAGTVRPLVVRMDFEC--SKCKSEILRIFPEGKFSP-----PLVCTLHGCKSKTFTPI 108
+VK V+ + + ++ C E +PE + P P +C G K F I
Sbjct: 127 LVKVTPVKERIYKATYKHIHPDCMQEFE--WPEDEEMPEVLEMPTICPKCG-KPGQFRLI 183
Query: 109 RASARKIDFQKIRLQELLKSQDHEEGRVPRTVECELSEDLVDACIPGDVVTVTGIIRV 166
+ ID+QK +QE + ++ G++PR +E L +DLVD+ PGD V VTGI+ +
Sbjct: 184 PEKTKLIDWQKAVIQE--RPEEVPSGQLPRQLEIILEDDLVDSARPGDRVKVTGILDI 239
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 34.3 bits (77), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 32/99 (32%), Positives = 44/99 (44%), Gaps = 23/99 (23%)
Query: 217 SEQANLFSFSPRDLEFIVKFSEESGSDIFRQIVQSIC--PSIYGHELVKAGITLALFGGV 274
S ANL D VKF + +G D+ +Q +Q I PS+ LF G+
Sbjct: 95 SNLANLIMNEIVDNGTAVKFDDIAGQDLAKQALQEIVILPSLRPE----------LFTGL 144
Query: 275 RKHSMYQNKVPVRGDIHVIVVGDPGLGKSQLLQAAAAVS 313
R P RG +++ G PG GK+ L +A AA S
Sbjct: 145 R--------APARG---LLLFGPPGNGKTMLAKAVAAES 172
>pdb|3K1J|A Chain A, Crystal Structure Of Lon Protease From Thermococcus
Onnurineus Na1
pdb|3K1J|B Chain B, Crystal Structure Of Lon Protease From Thermococcus
Onnurineus Na1
Length = 604
Score = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 18/24 (75%)
Query: 291 HVIVVGDPGLGKSQLLQAAAAVSP 314
HV+++G+PG GKS L QA A + P
Sbjct: 62 HVLLIGEPGTGKSMLGQAMAELLP 85
>pdb|3RPL|A Chain A, D-Fructose 1,6-Bisphosphatase Class 2SEDOHEPTULOSE
1,7-Bisphosphatase Of Synechocystis Sp. Pcc 6803 In
Complex With Fructose-1,6- Bisphosphate
pdb|3RPL|C Chain C, D-Fructose 1,6-Bisphosphatase Class 2SEDOHEPTULOSE
1,7-Bisphosphatase Of Synechocystis Sp. Pcc 6803 In
Complex With Fructose-1,6- Bisphosphate
pdb|3RPL|D Chain D, D-Fructose 1,6-Bisphosphatase Class 2SEDOHEPTULOSE
1,7-Bisphosphatase Of Synechocystis Sp. Pcc 6803 In
Complex With Fructose-1,6- Bisphosphate
Length = 379
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 31/57 (54%), Gaps = 2/57 (3%)
Query: 385 KAGLVASLSARTSVLAAANPVGGHYNRAKTVNENLKMSAALLSRF--DLVFILLDKP 439
K GL A+ LAA GH + K+ ENLK+ + L+R +LV +++D+P
Sbjct: 155 KGGLFAAPDFYMKKLAAPPAAKGHVDIDKSATENLKILSDCLNRSIEELVVVVMDRP 211
>pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
Length = 334
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 39/90 (43%), Gaps = 14/90 (15%)
Query: 258 GHELVKAGITLALFGGVRKHSMYQNKVPVRGDI--HVIVVGDPGLGKSQLLQAAAAVSPR 315
G E VK ++LAL +RG++ HV++ G PGLGK+ L A+
Sbjct: 29 GQENVKKKLSLAL-----------EAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQT 77
Query: 316 GIYVC-GNATTKAGLTVAVVKDSVTNDYAF 344
I+V G K G A++ D F
Sbjct: 78 NIHVTSGPVLVKQGDMAAILTSLERGDVLF 107
>pdb|3RPL|B Chain B, D-Fructose 1,6-Bisphosphatase Class 2SEDOHEPTULOSE
1,7-Bisphosphatase Of Synechocystis Sp. Pcc 6803 In
Complex With Fructose-1,6- Bisphosphate
Length = 379
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 31/57 (54%), Gaps = 2/57 (3%)
Query: 385 KAGLVASLSARTSVLAAANPVGGHYNRAKTVNENLKMSAALLSRF--DLVFILLDKP 439
K GL A+ LAA GH + K+ ENLK+ + L+R +LV +++D+P
Sbjct: 155 KGGLFAAPDFYMKKLAAPPAAKGHVDIDKSATENLKILSDCLNRSIEELVVVVMDRP 211
>pdb|3ROJ|A Chain A, D-Fructose 1,6-Bisphosphatase Class 2SEDOHEPTULOSE
1,7-Bisphosphatase Of Synechocystis Sp. Pcc 6803
pdb|3ROJ|B Chain B, D-Fructose 1,6-Bisphosphatase Class 2SEDOHEPTULOSE
1,7-Bisphosphatase Of Synechocystis Sp. Pcc 6803
pdb|3ROJ|C Chain C, D-Fructose 1,6-Bisphosphatase Class 2SEDOHEPTULOSE
1,7-Bisphosphatase Of Synechocystis Sp. Pcc 6803
pdb|3ROJ|D Chain D, D-Fructose 1,6-Bisphosphatase Class 2SEDOHEPTULOSE
1,7-Bisphosphatase Of Synechocystis Sp. Pcc 6803
Length = 379
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 31/57 (54%), Gaps = 2/57 (3%)
Query: 385 KAGLVASLSARTSVLAAANPVGGHYNRAKTVNENLKMSAALLSRF--DLVFILLDKP 439
K GL A+ LAA GH + K+ ENLK+ + L+R +LV +++D+P
Sbjct: 155 KGGLFAAPDFYMKKLAAPPAAKGHVDIDKSATENLKILSDCLNRSIEELVVVVMDRP 211
>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
Length = 334
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 39/90 (43%), Gaps = 14/90 (15%)
Query: 258 GHELVKAGITLALFGGVRKHSMYQNKVPVRGDI--HVIVVGDPGLGKSQLLQAAAAVSPR 315
G E VK ++LAL +RG++ HV++ G PGLGK+ L A+
Sbjct: 29 GQENVKKKLSLAL-----------EAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQT 77
Query: 316 GIYVC-GNATTKAGLTVAVVKDSVTNDYAF 344
I+V G K G A++ D F
Sbjct: 78 NIHVTSGPVLVKQGDMAAILTSLERGDVLF 107
>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
Migration Motor
Length = 334
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 39/90 (43%), Gaps = 14/90 (15%)
Query: 258 GHELVKAGITLALFGGVRKHSMYQNKVPVRGDI--HVIVVGDPGLGKSQLLQAAAAVSPR 315
G E VK ++LAL +RG++ HV++ G PGLGK+ L A+
Sbjct: 29 GQENVKKKLSLAL-----------EAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQT 77
Query: 316 GIYVC-GNATTKAGLTVAVVKDSVTNDYAF 344
I+V G K G A++ D F
Sbjct: 78 NIHVTSGPVLVKQGDMAAILTSLERGDVLF 107
>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
Length = 334
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 39/90 (43%), Gaps = 14/90 (15%)
Query: 258 GHELVKAGITLALFGGVRKHSMYQNKVPVRGDI--HVIVVGDPGLGKSQLLQAAAAVSPR 315
G E VK ++LAL +RG++ HV++ G PGLGK+ L A+
Sbjct: 29 GQENVKKKLSLAL-----------EAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQT 77
Query: 316 GIYVC-GNATTKAGLTVAVVKDSVTNDYAF 344
I+V G K G A++ D F
Sbjct: 78 NIHVTSGPVLVKQGDMAAILTSLERGDVLF 107
>pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant
Length = 334
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 39/90 (43%), Gaps = 14/90 (15%)
Query: 258 GHELVKAGITLALFGGVRKHSMYQNKVPVRGDI--HVIVVGDPGLGKSQLLQAAAAVSPR 315
G E VK ++LAL +RG++ HV++ G PGLGK+ L A+
Sbjct: 29 GQENVKKKLSLAL-----------EAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQT 77
Query: 316 GIYVC-GNATTKAGLTVAVVKDSVTNDYAF 344
I+V G K G A++ D F
Sbjct: 78 NIHVTSGPVLVKQGDMAAILTSLERGDVLF 107
>pdb|1IN6|A Chain A, Thermotoga Maritima Ruvb K64r Mutant
Length = 334
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 39/90 (43%), Gaps = 14/90 (15%)
Query: 258 GHELVKAGITLALFGGVRKHSMYQNKVPVRGDI--HVIVVGDPGLGKSQLLQAAAAVSPR 315
G E VK ++LAL +RG++ HV++ G PGLG++ L A+
Sbjct: 29 GQENVKKKLSLAL-----------EAAKMRGEVLDHVLLAGPPGLGRTTLAHIIASELQT 77
Query: 316 GIYVC-GNATTKAGLTVAVVKDSVTNDYAF 344
I+V G K G A++ D F
Sbjct: 78 NIHVTSGPVLVKQGDMAAILTSLERGDVLF 107
>pdb|2JZX|A Chain A, Pcbp2 Kh1-Kh2 Domains
Length = 160
Score = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 36/79 (45%), Gaps = 10/79 (12%)
Query: 12 AVHKNKLEDGMKINIRPYNYPESMIALKNLK-------AAYIDKL---VSVRGTVVKAGT 61
+V K + E G +INI N PE +I L A IDKL +S T A +
Sbjct: 26 SVKKMREESGARINISEGNCPERIITLAGPTNAIFKAFAMIIDKLEEDISSSMTNSTAAS 85
Query: 62 VRPLVVRMDFECSKCKSEI 80
P+ +R+ S+C S I
Sbjct: 86 RPPVTLRLVVPASQCGSLI 104
>pdb|1NY6|A Chain A, Crystal Structure Of Sigm54 Activator (aaa+ Atpase) In The
Active State
pdb|1NY6|B Chain B, Crystal Structure Of Sigm54 Activator (aaa+ Atpase) In The
Active State
pdb|1NY6|C Chain C, Crystal Structure Of Sigm54 Activator (aaa+ Atpase) In The
Active State
pdb|1NY6|D Chain D, Crystal Structure Of Sigm54 Activator (aaa+ Atpase) In The
Active State
pdb|1NY6|E Chain E, Crystal Structure Of Sigm54 Activator (aaa+ Atpase) In The
Active State
pdb|1NY6|F Chain F, Crystal Structure Of Sigm54 Activator (aaa+ Atpase) In The
Active State
pdb|1NY6|G Chain G, Crystal Structure Of Sigm54 Activator (aaa+ Atpase) In The
Active State
pdb|1NY6|H Chain H, Crystal Structure Of Sigm54 Activator (aaa+ Atpase) In The
Active State
pdb|1NY6|I Chain I, Crystal Structure Of Sigm54 Activator (aaa+ Atpase) In The
Active State
pdb|1NY6|J Chain J, Crystal Structure Of Sigm54 Activator (aaa+ Atpase) In The
Active State
pdb|1NY6|K Chain K, Crystal Structure Of Sigm54 Activator (aaa+ Atpase) In The
Active State
pdb|1NY6|L Chain L, Crystal Structure Of Sigm54 Activator (aaa+ Atpase) In The
Active State
pdb|1NY6|M Chain M, Crystal Structure Of Sigm54 Activator (aaa+ Atpase) In The
Active State
pdb|1NY6|N Chain N, Crystal Structure Of Sigm54 Activator (aaa+ Atpase) In The
Active State
Length = 267
Score = 30.0 bits (66), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 32/121 (26%), Positives = 52/121 (42%), Gaps = 12/121 (9%)
Query: 292 VIVVGDPGLGKSQLLQAAAAVSPRGI--YVCGNATT------KAGLTVAVVKDSVTNDYA 343
V++ G+ G+GK + + +S R +V N + +A L K + T +
Sbjct: 43 VLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAEL-FGYEKGAFTGAVS 101
Query: 344 FEAGAMVLADSGLCCIDEFDKMSAEHQA-LLEAMEQQCVSVAKAGLVASLSARTSVLAAA 402
+ G LAD G +DE ++S E QA LL +E + G + +LAA
Sbjct: 102 SKEGFFELADGGTLFLDEIGELSLEAQAKLLRVIESG--KFYRLGGRKEIEVNVRILAAT 159
Query: 403 N 403
N
Sbjct: 160 N 160
>pdb|1NY5|A Chain A, Crystal Structure Of Sigm54 Activator (Aaa+ Atpase) In The
Inactive State
pdb|1NY5|B Chain B, Crystal Structure Of Sigm54 Activator (Aaa+ Atpase) In The
Inactive State
Length = 387
Score = 30.0 bits (66), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 32/121 (26%), Positives = 52/121 (42%), Gaps = 12/121 (9%)
Query: 292 VIVVGDPGLGKSQLLQAAAAVSPRGI--YVCGNATT------KAGLTVAVVKDSVTNDYA 343
V++ G+ G+GK + + +S R +V N + +A L K + T +
Sbjct: 163 VLITGESGVGKEVVARLIHKLSDRSKEPFVALNVASIPRDIFEAEL-FGYEKGAFTGAVS 221
Query: 344 FEAGAMVLADSGLCCIDEFDKMSAEHQA-LLEAMEQQCVSVAKAGLVASLSARTSVLAAA 402
+ G LAD G +DE ++S E QA LL +E + G + +LAA
Sbjct: 222 SKEGFFELADGGTLFLDEIGELSLEAQAKLLRVIESG--KFYRLGGRKEIEVNVRILAAT 279
Query: 403 N 403
N
Sbjct: 280 N 280
>pdb|1OJL|A Chain A, Crystal Structure Of A Sigma54-activator Suggests The
Mechanism For The Conformational Switch Necessary For
Sigma54 Binding
pdb|1OJL|B Chain B, Crystal Structure Of A Sigma54-activator Suggests The
Mechanism For The Conformational Switch Necessary For
Sigma54 Binding
pdb|1OJL|C Chain C, Crystal Structure Of A Sigma54-activator Suggests The
Mechanism For The Conformational Switch Necessary For
Sigma54 Binding
pdb|1OJL|D Chain D, Crystal Structure Of A Sigma54-activator Suggests The
Mechanism For The Conformational Switch Necessary For
Sigma54 Binding
pdb|1OJL|E Chain E, Crystal Structure Of A Sigma54-activator Suggests The
Mechanism For The Conformational Switch Necessary For
Sigma54 Binding
pdb|1OJL|F Chain F, Crystal Structure Of A Sigma54-activator Suggests The
Mechanism For The Conformational Switch Necessary For
Sigma54 Binding
Length = 304
Score = 28.5 bits (62), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 33/123 (26%), Positives = 54/123 (43%), Gaps = 10/123 (8%)
Query: 289 DIHVIVVGDPGLGK---SQLLQAAAAVSPRGIYVCGNATTKAGLTVAVV----KDSVTND 341
D V++ GD G GK ++ L A +A S R + A L + + K + T
Sbjct: 25 DATVLIHGDSGTGKELVARALHACSARSDRPLVTLNCAALNESLLESELFGHEKGAFTGA 84
Query: 342 YAFEAGAMVLADSGLCCIDEFDKMSAEHQA-LLEAMEQQCVSVAKAGLVASLSARTSVLA 400
G V AD G +DE +S Q LL A++++ V + G ++S ++A
Sbjct: 85 DKRREGRFVEADGGTLFLDEIGDISPLMQVRLLRAIQER--EVQRVGSNQTISVDVRLIA 142
Query: 401 AAN 403
A +
Sbjct: 143 ATH 145
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
0.319 0.134 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,601,865
Number of Sequences: 62578
Number of extensions: 538834
Number of successful extensions: 1545
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 1533
Number of HSP's gapped (non-prelim): 21
length of query: 581
length of database: 14,973,337
effective HSP length: 104
effective length of query: 477
effective length of database: 8,465,225
effective search space: 4037912325
effective search space used: 4037912325
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: 54 (25.4 bits)