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= 022641
(294 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 276 bits (706), Expect = 9e-75, Method: Compositional matrix adjust.
Identities = 130/218 (59%), Positives = 160/218 (73%), Gaps = 2/218 (0%)
Query: 47 SSQPWVEKYRPKQVKDVAHQEEVVRVLTNTLETANCPHMLFYGPPGTGKTTTALAIAHQL 106
+ QPWVEKYRPK + +V Q+ V VL TL++AN PHMLFYGPPGTGKT+T LA+ +L
Sbjct: 23 AQQPWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKEL 82
Query: 107 FGPELYKSRVLELNASDDRGINVVRTKIKTFAAVAVGSGQRRG--GYPCPPYKIIILDEA 164
+GP+L KSR+LELNASD+RGI++VR K+K FA + V + YPCPPYKIIILDEA
Sbjct: 83 YGPDLMKSRILELNASDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEA 142
Query: 165 DSMTEDAQNALRRTMETYSKVTRFFFICNYISRIIEPLASRCAKFRFKPLSEEVMSSRVL 224
DSMT DAQ+ALRRTMETYS VTRF ICNY++RII+PLAS+C+KFRFK L R+
Sbjct: 143 DSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDASNAIDRLR 202
Query: 225 HICNEEGLNLDAEALSTLSSISQGDLRRAITYLQGAAR 262
I +E + D L + IS GDLRR IT LQ A++
Sbjct: 203 FISEQENVKCDDGVLERILDISAGDLRRGITLLQSASK 240
>pdb|2CHQ|A Chain A, Replication Factor C Adpnp Complex
pdb|2CHQ|B Chain B, Replication Factor C Adpnp Complex
pdb|2CHQ|C Chain C, Replication Factor C Adpnp Complex
pdb|2CHV|A Chain A, Replication Factor C Adpnp Complex
pdb|2CHV|B Chain B, Replication Factor C Adpnp Complex
pdb|2CHV|C Chain C, Replication Factor C Adpnp Complex
pdb|2CHV|D Chain D, Replication Factor C Adpnp Complex
pdb|2CHV|E Chain E, Replication Factor C Adpnp Complex
pdb|2CHV|F Chain F, Replication Factor C Adpnp Complex
Length = 319
Score = 238 bits (607), Expect = 3e-63, Method: Compositional matrix adjust.
Identities = 117/217 (53%), Positives = 150/217 (69%), Gaps = 9/217 (4%)
Query: 45 LQSSQPWVEKYRPKQVKDVAHQEEVVRVLTNTLETANCPHMLFYGPPGTGKTTTALAIAH 104
+++ + WVEKYRP+ + +V Q+EV++ L +E N PH+LF GPPGTGKT TA+A+A
Sbjct: 1 MENFEIWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALAR 60
Query: 105 QLFGPELYKSRVLELNASDDRGINVVRTKIKTFAAVAVGSGQRRGGYPCPPYKIIILDEA 164
LFG E ++ +E+NASD+RGI+VVR KIK FA A G P+KII LDEA
Sbjct: 61 DLFG-ENWRDNFIEMNASDERGIDVVRHKIKEFARTAPIGG--------APFKIIFLDEA 111
Query: 165 DSMTEDAQNALRRTMETYSKVTRFFFICNYISRIIEPLASRCAKFRFKPLSEEVMSSRVL 224
D++T DAQ ALRRTME YSK RF CNY+SRIIEP+ SRCA FRFKP+ +E M R+L
Sbjct: 112 DALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLL 171
Query: 225 HICNEEGLNLDAEALSTLSSISQGDLRRAITYLQGAA 261
IC +EG+ + + L L IS GD R+AI LQGAA
Sbjct: 172 EICEKEGVKITEDGLEALIYISGGDFRKAINALQGAA 208
>pdb|2CHG|A Chain A, Replication Factor C Domains 1 And 2
pdb|2CHG|B Chain B, Replication Factor C Domains 1 And 2
pdb|2CHG|C Chain C, Replication Factor C Domains 1 And 2
pdb|2CHG|D Chain D, Replication Factor C Domains 1 And 2
Length = 226
Score = 238 bits (607), Expect = 3e-63, Method: Compositional matrix adjust.
Identities = 117/219 (53%), Positives = 151/219 (68%), Gaps = 9/219 (4%)
Query: 45 LQSSQPWVEKYRPKQVKDVAHQEEVVRVLTNTLETANCPHMLFYGPPGTGKTTTALAIAH 104
+++ + WVEKYRP+ + +V Q+EV++ L +E N PH+LF GPPGTGKT TA+A+A
Sbjct: 1 MENFEIWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALAR 60
Query: 105 QLFGPELYKSRVLELNASDDRGINVVRTKIKTFAAVAVGSGQRRGGYPCPPYKIIILDEA 164
LFG E ++ +E+NASD+RGI+VVR KIK FA A G P+KII LDEA
Sbjct: 61 DLFG-ENWRDNFIEMNASDERGIDVVRHKIKEFARTAPIGG--------APFKIIFLDEA 111
Query: 165 DSMTEDAQNALRRTMETYSKVTRFFFICNYISRIIEPLASRCAKFRFKPLSEEVMSSRVL 224
D++T DAQ ALRRTME YSK RF CNY+SRIIEP+ SRCA FRFKP+ +E M R+L
Sbjct: 112 DALTADAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLL 171
Query: 225 HICNEEGLNLDAEALSTLSSISQGDLRRAITYLQGAARL 263
IC +EG+ + + L L IS GD R+AI LQGAA +
Sbjct: 172 EICEKEGVKITEDGLEALIYISGGDFRKAINALQGAAAI 210
>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 = 232 bits (592), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 115/230 (50%), Positives = 155/230 (67%), Gaps = 10/230 (4%)
Query: 48 SQPWVEKYRPKQVKDVAHQEEVVRVLTNTLETANCPHMLFYGPPGTGKTTTALAIAHQLF 107
+PWVEKYRP+++ D+ QE +V+ L + ++T + PH+LF GPPG GKTT ALA+A +LF
Sbjct: 12 EKPWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELF 71
Query: 108 GPELYKSRVLELNASDDRGINVVRTKIKTFAAVAVGSGQRRGGYPCPPYKIIILDEADSM 167
G E ++ LELNASD+RGINV+R K+K FA G +KII LDEAD++
Sbjct: 72 G-ENWRHNFLELNASDERGINVIREKVKEFARTKPIGG--------ASFKIIFLDEADAL 122
Query: 168 TEDAQNALRRTMETYSKVTRFFFICNYISRIIEPLASRCAKFRFKPLSEEVMSSRVLHIC 227
T+DAQ ALRRTME +S RF CNY S+IIEP+ SRCA FRF+PL +E ++ R+ +I
Sbjct: 123 TQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIA 182
Query: 228 NEEGLNLDAEALSTLSSISQGDLRRAITYLQGAARLFGSSITSKDLISVS 277
EGL L E L + I++GD+RRAI LQ AA L IT +++ V+
Sbjct: 183 ENEGLELTEEGLQAILYIAEGDMRRAINILQAAAAL-DKKITDENVFMVA 231
>pdb|1SXJ|B Chain B, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 323
Score = 196 bits (499), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 102/218 (46%), Positives = 133/218 (61%), Gaps = 8/218 (3%)
Query: 41 MAPVLQSSQPWVEKYRPKQVKDVAHQEEVVRVLTNTLETANCPHMLFYGPPGTGKTTTAL 100
M+ L PWVEKYRP+ + D+ +E + L + N PHM+ G PG GKTT+
Sbjct: 1 MSKTLSLQLPWVEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVH 60
Query: 101 AIAHQLFGPELYKSRVLELNASDDRGINVVRTKIKTFAAVAVGSGQRRGGYPCPPYKIII 160
+AH+L G Y VLELNASDDRGI+VVR +IK FA Q++ P +KI+I
Sbjct: 61 CLAHELLGRS-YADGVLELNASDDRGIDVVRNQIKHFA-------QKKLHLPPGKHKIVI 112
Query: 161 LDEADSMTEDAQNALRRTMETYSKVTRFFFICNYISRIIEPLASRCAKFRFKPLSEEVMS 220
LDEADSMT AQ ALRRTME YS TRF F CN ++IIEPL S+CA R+ LS+E +
Sbjct: 113 LDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVL 172
Query: 221 SRVLHICNEEGLNLDAEALSTLSSISQGDLRRAITYLQ 258
R+L I E + + L + ++GD+R+AI LQ
Sbjct: 173 KRLLQIIKLEDVKYTNDGLEAIIFTAEGDMRQAINNLQ 210
>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 = 194 bits (494), Expect = 4e-50, Method: Compositional matrix adjust.
Identities = 97/209 (46%), Positives = 135/209 (64%), Gaps = 9/209 (4%)
Query: 50 PWVEKYRPKQVKDVAHQEEVVRVLTNTLETANCPHMLFYGPPGTGKTTTALAIAHQLFGP 109
PWVEKYRP+ + +V Q EV+ + ++ PH+LFYGPPGTGKT+T +A+A +++G
Sbjct: 14 PWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGK 73
Query: 110 ELYKSRVLELNASDDRGINVVRTKIKTFAAVAVGSGQRRGGYPCPPYKIIILDEADSMTE 169
Y + VLELNASDDRGI+VVR +IK FA+ R + +K+IILDEAD+MT
Sbjct: 74 N-YSNMVLELNASDDRGIDVVRNQIKDFAST-------RQIF-SKGFKLIILDEADAMTN 124
Query: 170 DAQNALRRTMETYSKVTRFFFICNYISRIIEPLASRCAKFRFKPLSEEVMSSRVLHICNE 229
AQNALRR +E Y+K TRF + NY ++ L S+C +FRF+PL +E + R+ ++
Sbjct: 125 AAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLVH 184
Query: 230 EGLNLDAEALSTLSSISQGDLRRAITYLQ 258
E L L A L +S GD+RR + LQ
Sbjct: 185 EKLKLSPNAEKALIELSNGDMRRVLNVLQ 213
>pdb|1SXJ|E Chain E, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 354
Score = 127 bits (318), Expect = 9e-30, Method: Compositional matrix adjust.
Identities = 82/242 (33%), Positives = 125/242 (51%), Gaps = 35/242 (14%)
Query: 51 WVEKYRPKQVKDVAHQEEVVRVLTNTLETA-----NCPHMLFYGPPGTGKTTTALAIAHQ 105
WV+KYRPK + ++H EE LTN L++ + PH+L YGP GTGK T +A+
Sbjct: 4 WVDKYRPKSLNALSHNEE----LTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLES 59
Query: 106 LFGPELYK------------SRVLELNASD----------DRGIN---VVRTKIKTFAAV 140
+FGP +Y+ +R LELN D G N V++ +K A +
Sbjct: 60 IFGPGVYRLKIDVRQFVTASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQM 119
Query: 141 AVGSGQRRGGYPCPPYKIIILDEADSMTEDAQNALRRTMETYSKVTRFFFICNYISRIIE 200
Q YK +I++EA+S+T+DAQ ALRRTME YSK R +C+ +S II
Sbjct: 120 EQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIA 179
Query: 201 PLASRCAKFRFKPLSEEVMSSRVLHICNEEGLNLDA-EALSTLSSISQGDLRRAITYLQG 259
P+ S+C R S+ +S+ + + E + L+ + L ++ S G+LR ++ L+
Sbjct: 180 PIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLES 239
Query: 260 AA 261
A
Sbjct: 240 MA 241
>pdb|3U5Z|B Chain B, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|C Chain C, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|D Chain D, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|E Chain E, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|L Chain L, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|M Chain M, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|N Chain N, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|O Chain O, Structure Of T4 Bacteriophage Clamp Loader Bound To The T4
Clamp, Primer-Template Dna, And Atp Analog
pdb|3U60|B Chain B, Structure Of T4 Bacteriophage Clamp Loader Bound To Open
Clamp, Dna And Atp Analog
pdb|3U60|C Chain C, Structure Of T4 Bacteriophage Clamp Loader Bound To Open
Clamp, Dna And Atp Analog
pdb|3U60|D Chain D, Structure Of T4 Bacteriophage Clamp Loader Bound To Open
Clamp, Dna And Atp Analog
pdb|3U60|E Chain E, Structure Of T4 Bacteriophage Clamp Loader Bound To Open
Clamp, Dna And Atp Analog
pdb|3U61|B Chain B, Structure Of T4 Bacteriophage Clamp Loader Bound To Closed
Clamp, Dna And Atp Analog And Adp
pdb|3U61|C Chain C, Structure Of T4 Bacteriophage Clamp Loader Bound To Closed
Clamp, Dna And Atp Analog And Adp
pdb|3U61|D Chain D, Structure Of T4 Bacteriophage Clamp Loader Bound To Closed
Clamp, Dna And Atp Analog And Adp
pdb|3U61|E Chain E, Structure Of T4 Bacteriophage Clamp Loader Bound To Closed
Clamp, Dna And Atp Analog And Adp
Length = 324
Score = 82.8 bits (203), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 69/231 (29%), Positives = 107/231 (46%), Gaps = 32/231 (13%)
Query: 41 MAPVLQSSQPWVEKYRPKQVKDV---AHQEEVVRVLTNTLETANCPHMLFYGP-PGTGKT 96
M V + +KYRP + + A +E + +T+ PH++ + P PGTGKT
Sbjct: 6 MITVNEKEHILEQKYRPSTIDECILPAFDKETFKSITSK---GKIPHIILHSPSPGTGKT 62
Query: 97 TTALAIAHQLFGPELYKSRVLELNASDDRGINVVRTKIKTFAAVAVGSGQRRGGYPCPPY 156
T A A+ H + ++ +N SD + I+ VR + FA+ A G++
Sbjct: 63 TVAKALCHDVNADMMF------VNGSDCK-IDFVRGPLTNFASAASFDGRQ--------- 106
Query: 157 KIIILDEAD-SMTEDAQNALRRTMETYSKVTRFFFICNYISRIIEPLASRCAKFRF-KPL 214
K+I++DE D S ++Q LR ME YS N I II+PL SRC F +P
Sbjct: 107 KVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRCRVITFGQPT 166
Query: 215 SEE------VMSSRVLHICNEEGLNL-DAEALSTLSSISQGDLRRAITYLQ 258
E+ M R+ IC EG+ + D + ++ L + D R+ I L
Sbjct: 167 DEDKIEMMKQMIRRLTEICKHEGIAIADMKVVAALVKKNFPDFRKTIGELD 217
>pdb|1NJG|A Chain A, Nucleotide-Free Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
pdb|1NJG|B Chain B, Nucleotide-Free Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
pdb|1NJF|A Chain A, Nucleotide Bound Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
pdb|1NJF|B Chain B, Nucleotide Bound Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
pdb|1NJF|C Chain C, Nucleotide Bound Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
pdb|1NJF|D Chain D, Nucleotide Bound Form Of An Isolated E. Coli Clamp Loader
Gamma Subunit
Length = 250
Score = 71.2 bits (173), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 62/227 (27%), Positives = 99/227 (43%), Gaps = 27/227 (11%)
Query: 47 SSQPWVEKYRPKQVKDVAHQEEVVRVLTNTLETANCPHM-LFYGPPGTGKTTTALAIAHQ 105
S Q K+RP+ DV QE V+ L N L H LF G G GKT+ A +A
Sbjct: 9 SYQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKG 68
Query: 106 LFGP---------------ELYKSRVLELNASDDRGINVVRTKIKTFAAVA--VGSGQRR 148
L E+ + R ++L D RTK++ + V R
Sbjct: 69 LNCETGITATPCGVCDNCREIEQGRFVDLIEID----AASRTKVEDTRDLLDNVQYAPAR 124
Query: 149 GGYPCPPYKIIILDEADSMTEDAQNALRRTMETYSKVTRFFFICNYISRIIEPLASRCAK 208
G +K+ ++DE ++ + NAL +T+E + +F ++ + SRC +
Sbjct: 125 G-----RFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQ 179
Query: 209 FRFKPLSEEVMSSRVLHICNEEGLNLDAEALSTLSSISQGDLRRAIT 255
F K L E + ++ HI NEE + + AL L+ ++G LR A++
Sbjct: 180 FHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALS 226
>pdb|3GLF|B Chain B, Crystal Structure Of The Ecoli Clamp Loader Bound To
Primer-template Dna
pdb|3GLF|C Chain C, Crystal Structure Of The Ecoli Clamp Loader Bound To
Primer-template Dna
pdb|3GLF|D Chain D, Crystal Structure Of The Ecoli Clamp Loader Bound To
Primer-template Dna
pdb|3GLF|G Chain G, Crystal Structure Of The Ecoli Clamp Loader Bound To
Primer-template Dna
pdb|3GLF|H Chain H, Crystal Structure Of The Ecoli Clamp Loader Bound To
Primer-template Dna
pdb|3GLF|I Chain I, Crystal Structure Of The Ecoli Clamp Loader Bound To
Primer-template Dna
pdb|3GLI|B Chain B, Crystal Structure Of The E. Coli Clamp Loader Bound To
Primer-template Dna And Psi Peptide
pdb|3GLI|C Chain C, Crystal Structure Of The E. Coli Clamp Loader Bound To
Primer-template Dna And Psi Peptide
pdb|3GLI|D Chain D, Crystal Structure Of The E. Coli Clamp Loader Bound To
Primer-template Dna And Psi Peptide
pdb|3GLI|G Chain G, Crystal Structure Of The E. Coli Clamp Loader Bound To
Primer-template Dna And Psi Peptide
pdb|3GLI|H Chain H, Crystal Structure Of The E. Coli Clamp Loader Bound To
Primer-template Dna And Psi Peptide
pdb|3GLI|I Chain I, Crystal Structure Of The E. Coli Clamp Loader Bound To
Primer-template Dna And Psi Peptide
Length = 395
Score = 70.9 bits (172), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 62/227 (27%), Positives = 99/227 (43%), Gaps = 27/227 (11%)
Query: 47 SSQPWVEKYRPKQVKDVAHQEEVVRVLTNTLETANCPHM-LFYGPPGTGKTTTALAIAHQ 105
S Q K+RP+ DV QE V+ L N L H LF G G GKT+ A +A
Sbjct: 24 SYQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKG 83
Query: 106 LFGP---------------ELYKSRVLELNASDDRGINVVRTKIKTFAAVA--VGSGQRR 148
L E+ + R ++L D RTK++ + V R
Sbjct: 84 LNCETGITATPCGVCDNCREIEQGRFVDLIEID----AASRTKVEDTRDLLDNVQYAPAR 139
Query: 149 GGYPCPPYKIIILDEADSMTEDAQNALRRTMETYSKVTRFFFICNYISRIIEPLASRCAK 208
G + K+ ++DE ++ + NAL +T+E + +F ++ + SRC +
Sbjct: 140 GRF-----KVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQ 194
Query: 209 FRFKPLSEEVMSSRVLHICNEEGLNLDAEALSTLSSISQGDLRRAIT 255
F K L E + ++ HI NEE + + AL L+ ++G LR A++
Sbjct: 195 FHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALS 241
>pdb|3GLH|B Chain B, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|C Chain C, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|D Chain D, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|G Chain G, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|H Chain H, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|I Chain I, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|L Chain L, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|M Chain M, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
pdb|3GLH|N Chain N, Crystal Structure Of The E. Coli Clamp Loader Bound To Psi
Peptide
Length = 376
Score = 70.5 bits (171), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 62/227 (27%), Positives = 99/227 (43%), Gaps = 27/227 (11%)
Query: 47 SSQPWVEKYRPKQVKDVAHQEEVVRVLTNTLETANCPHM-LFYGPPGTGKTTTALAIAHQ 105
S Q K+RP+ DV QE V+ L N L H LF G G GKT+ A +A
Sbjct: 5 SYQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKG 64
Query: 106 LFGP---------------ELYKSRVLELNASDDRGINVVRTKIKTFAAVA--VGSGQRR 148
L E+ + R ++L D RTK++ + V R
Sbjct: 65 LNCETGITATPCGVCDNCREIEQGRFVDLIEID----AASRTKVEDTRDLLDNVQYAPAR 120
Query: 149 GGYPCPPYKIIILDEADSMTEDAQNALRRTMETYSKVTRFFFICNYISRIIEPLASRCAK 208
G + K+ ++DE ++ + NAL +T+E + +F ++ + SRC +
Sbjct: 121 GRF-----KVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQ 175
Query: 209 FRFKPLSEEVMSSRVLHICNEEGLNLDAEALSTLSSISQGDLRRAIT 255
F K L E + ++ HI NEE + + AL L+ ++G LR A++
Sbjct: 176 FHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALS 222
>pdb|1JR3|A Chain A, Crystal Structure Of The Processivity Clamp Loader Gamma
Complex Of E. Coli Dna Polymerase Iii
pdb|1JR3|B Chain B, Crystal Structure Of The Processivity Clamp Loader Gamma
Complex Of E. Coli Dna Polymerase Iii
pdb|1JR3|C Chain C, Crystal Structure Of The Processivity Clamp Loader Gamma
Complex Of E. Coli Dna Polymerase Iii
pdb|1XXH|B Chain B, Atpgs Bound E. Coli Clamp Loader Complex
pdb|1XXH|C Chain C, Atpgs Bound E. Coli Clamp Loader Complex
pdb|1XXH|D Chain D, Atpgs Bound E. Coli Clamp Loader Complex
pdb|1XXH|G Chain G, Atpgs Bound E. Coli Clamp Loader Complex
pdb|1XXH|H Chain H, Atpgs Bound E. Coli Clamp Loader Complex
pdb|1XXH|I Chain I, Atpgs Bound E. Coli Clamp Loader Complex
Length = 373
Score = 70.5 bits (171), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 62/227 (27%), Positives = 99/227 (43%), Gaps = 27/227 (11%)
Query: 47 SSQPWVEKYRPKQVKDVAHQEEVVRVLTNTLETANCPHM-LFYGPPGTGKTTTALAIAHQ 105
S Q K+RP+ DV QE V+ L N L H LF G G GKT+ A +A
Sbjct: 2 SYQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKG 61
Query: 106 LFGP---------------ELYKSRVLELNASDDRGINVVRTKIKTFAAVA--VGSGQRR 148
L E+ + R ++L D RTK++ + V R
Sbjct: 62 LNCETGITATPCGVCDNCREIEQGRFVDLIEID----AASRTKVEDTRDLLDNVQYAPAR 117
Query: 149 GGYPCPPYKIIILDEADSMTEDAQNALRRTMETYSKVTRFFFICNYISRIIEPLASRCAK 208
G + K+ ++DE ++ + NAL +T+E + +F ++ + SRC +
Sbjct: 118 GRF-----KVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQ 172
Query: 209 FRFKPLSEEVMSSRVLHICNEEGLNLDAEALSTLSSISQGDLRRAIT 255
F K L E + ++ HI NEE + + AL L+ ++G LR A++
Sbjct: 173 FHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALS 219
>pdb|1XXI|B Chain B, Adp Bound E. Coli Clamp Loader Complex
pdb|1XXI|C Chain C, Adp Bound E. Coli Clamp Loader Complex
pdb|1XXI|D Chain D, Adp Bound E. Coli Clamp Loader Complex
pdb|1XXI|G Chain G, Adp Bound E. Coli Clamp Loader Complex
pdb|1XXI|H Chain H, Adp Bound E. Coli Clamp Loader Complex
pdb|1XXI|I Chain I, Adp Bound E. Coli Clamp Loader Complex
Length = 368
Score = 70.5 bits (171), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 62/227 (27%), Positives = 99/227 (43%), Gaps = 27/227 (11%)
Query: 47 SSQPWVEKYRPKQVKDVAHQEEVVRVLTNTLETANCPHM-LFYGPPGTGKTTTALAIAHQ 105
S Q K+RP+ DV QE V+ L N L H LF G G GKT+ A +A
Sbjct: 2 SYQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKG 61
Query: 106 LFGP---------------ELYKSRVLELNASDDRGINVVRTKIKTFAAVA--VGSGQRR 148
L E+ + R ++L D RTK++ + V R
Sbjct: 62 LNCETGITATPCGVCDNCREIEQGRFVDLIEID----AASRTKVEDTRDLLDNVQYAPAR 117
Query: 149 GGYPCPPYKIIILDEADSMTEDAQNALRRTMETYSKVTRFFFICNYISRIIEPLASRCAK 208
G + K+ ++DE ++ + NAL +T+E + +F ++ + SRC +
Sbjct: 118 GRF-----KVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQ 172
Query: 209 FRFKPLSEEVMSSRVLHICNEEGLNLDAEALSTLSSISQGDLRRAIT 255
F K L E + ++ HI NEE + + AL L+ ++G LR A++
Sbjct: 173 FHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALS 219
>pdb|3GLG|B Chain B, Crystal Structure Of A Mutant (Gammat157a) E. Coli Clamp
Loader Bound To Primer-Template Dna
pdb|3GLG|C Chain C, Crystal Structure Of A Mutant (Gammat157a) E. Coli Clamp
Loader Bound To Primer-Template Dna
pdb|3GLG|D Chain D, Crystal Structure Of A Mutant (Gammat157a) E. Coli Clamp
Loader Bound To Primer-Template Dna
pdb|3GLG|G Chain G, Crystal Structure Of A Mutant (Gammat157a) E. Coli Clamp
Loader Bound To Primer-Template Dna
pdb|3GLG|H Chain H, Crystal Structure Of A Mutant (Gammat157a) E. Coli Clamp
Loader Bound To Primer-Template Dna
pdb|3GLG|I Chain I, Crystal Structure Of A Mutant (Gammat157a) E. Coli Clamp
Loader Bound To Primer-Template Dna
Length = 395
Score = 70.1 bits (170), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 62/227 (27%), Positives = 99/227 (43%), Gaps = 27/227 (11%)
Query: 47 SSQPWVEKYRPKQVKDVAHQEEVVRVLTNTLETANCPHM-LFYGPPGTGKTTTALAIAHQ 105
S Q K+RP+ DV QE V+ L N L H LF G G GKT+ A +A
Sbjct: 24 SYQVLARKWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKG 83
Query: 106 LFGP---------------ELYKSRVLELNASDDRGINVVRTKIKTFAAVA--VGSGQRR 148
L E+ + R ++L D RTK++ + V R
Sbjct: 84 LNCETGITATPCGVCDNCREIEQGRFVDLIEID----AASRTKVEDTRDLLDNVQYAPAR 139
Query: 149 GGYPCPPYKIIILDEADSMTEDAQNALRRTMETYSKVTRFFFICNYISRIIEPLASRCAK 208
G + K+ ++DE ++ + NAL +T+E + +F ++ + SRC +
Sbjct: 140 GRF-----KVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATADPQKLPVTILSRCLQ 194
Query: 209 FRFKPLSEEVMSSRVLHICNEEGLNLDAEALSTLSSISQGDLRRAIT 255
F K L E + ++ HI NEE + + AL L+ ++G LR A++
Sbjct: 195 FHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALS 241
>pdb|1SXJ|A Chain A, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 516
Score = 66.6 bits (161), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 60/241 (24%), Positives = 94/241 (39%), Gaps = 33/241 (13%)
Query: 42 APVLQSSQPWVEKYRPKQVKDVAHQEEVVRVLTNTLETANCPH----------------- 84
P + S + W KY P ++ V + V L N L AN +
Sbjct: 20 GPHMASDKLWTVKYAPTNLQQVCGNKGSVMKLKNWL--ANWENSKKNSFKHAGKDGSGVF 77
Query: 85 --MLFYGPPGTGKTTTALAIAHQLFGPELYKSRVLELNASDDRGINV----VRTKIKTFA 138
+ YGPPG GKTT A +A +L +LE NASD R + V+ + +
Sbjct: 78 RAAMLYGPPGIGKTTAAHLVAQEL------GYDILEQNASDVRSKTLLNAGVKNALDNMS 131
Query: 139 AVAVGSGQRRGGYPCPPYKIIILDEADSMTEDAQNALRRTMETYSKV-TRFFFICNYISR 197
V + +II+DE D M+ + + + + K T ICN +
Sbjct: 132 VVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNL 191
Query: 198 -IIEPLASRCAKFRFKPLSEEVMSSRVLHICNEEGLNLDAEALSTLSSISQGDLRRAITY 256
+ P C +F+ + SR++ I E LD + L ++GD+R+ I
Sbjct: 192 PKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINL 251
Query: 257 L 257
L
Sbjct: 252 L 252
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 24/56 (42%), Positives = 31/56 (55%), Gaps = 5/56 (8%)
Query: 56 RPKQVKDVAHQEEVVRVLTNTLETANC-----PHMLFYGPPGTGKTTTALAIAHQL 106
RPK + + QE + + L LE A H+L +GPPG GKTT A IAH+L
Sbjct: 7 RPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL 62
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 44.7 bits (104), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 24/56 (42%), Positives = 31/56 (55%), Gaps = 5/56 (8%)
Query: 56 RPKQVKDVAHQEEVVRVLTNTLETANC-----PHMLFYGPPGTGKTTTALAIAHQL 106
RPK + + QE + + L LE A H+L +GPPG GKTT A IAH+L
Sbjct: 7 RPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL 62
>pdb|1HQC|A Chain A, Structure Of Ruvb From Thermus Thermophilus Hb8
pdb|1HQC|B Chain B, Structure Of Ruvb From Thermus Thermophilus Hb8
Length = 324
Score = 44.3 bits (103), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 24/56 (42%), Positives = 31/56 (55%), Gaps = 5/56 (8%)
Query: 56 RPKQVKDVAHQEEVVRVLTNTLETANC-----PHMLFYGPPGTGKTTTALAIAHQL 106
RPK + + QE + + L LE A H+L +GPPG GKTT A IAH+L
Sbjct: 7 RPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHEL 62
>pdb|3PVS|A Chain A, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|B Chain B, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|C Chain C, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|D Chain D, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
Length = 447
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 51/225 (22%), Positives = 90/225 (40%), Gaps = 27/225 (12%)
Query: 49 QPWVEKYRPKQVKDVAHQEEVV---RVLTNTLETANCPHMLFYGPPGTGKTTTALAIAHQ 105
QP + RP+ + Q+ ++ + L +E + M+ +GPPGTGKTT A IA
Sbjct: 14 QPLAARMRPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIAR- 72
Query: 106 LFGPELYKSRVLELNASDDRGINVVRTKIKTFAAVAVGSGQRRGGYPCPPYKIIILDEAD 165
Y + +E ++ G+ +R I+ A +G+R I+ +DE
Sbjct: 73 ------YANADVERISAVTSGVKEIREAIER-ARQNRNAGRR---------TILFVDEVH 116
Query: 166 SMTEDAQNALRRTMETYSKVTRFFFICNYISRIIEPLASRCAKFRFKPLSEEVMSSRVLH 225
+ Q+A +E + N + L SR + K LS E + +
Sbjct: 117 RFNKSQQDAFLPHIEDGTITFIGATTENPSFELNSALLSRARVYLLKSLSTEDIEQVLTQ 176
Query: 226 ICNE-------EGLNLDAEALSTLSSISQGDLRRAITYLQGAARL 263
+ + + L E ++ + GD RRA+ L+ A +
Sbjct: 177 AMEDKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTLEMMADM 221
>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
Length = 334
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/60 (41%), Positives = 32/60 (53%), Gaps = 5/60 (8%)
Query: 52 VEKYRPKQVKDVAHQEEVVRVLTNTLETAN-----CPHMLFYGPPGTGKTTTALAIAHQL 106
V+ RPK + + QE V + L+ LE A H+L GPPG GKTT A IA +L
Sbjct: 16 VQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL 75
>pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant
Length = 334
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/60 (41%), Positives = 32/60 (53%), Gaps = 5/60 (8%)
Query: 52 VEKYRPKQVKDVAHQEEVVRVLTNTLETAN-----CPHMLFYGPPGTGKTTTALAIAHQL 106
V+ RPK + + QE V + L+ LE A H+L GPPG GKTT A IA +L
Sbjct: 16 VQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL 75
>pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
Length = 334
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/60 (41%), Positives = 32/60 (53%), Gaps = 5/60 (8%)
Query: 52 VEKYRPKQVKDVAHQEEVVRVLTNTLETAN-----CPHMLFYGPPGTGKTTTALAIAHQL 106
V+ RPK + + QE V + L+ LE A H+L GPPG GKTT A IA +L
Sbjct: 16 VQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL 75
>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
Length = 334
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/60 (41%), Positives = 32/60 (53%), Gaps = 5/60 (8%)
Query: 52 VEKYRPKQVKDVAHQEEVVRVLTNTLETAN-----CPHMLFYGPPGTGKTTTALAIAHQL 106
V+ RPK + + QE V + L+ LE A H+L GPPG GKTT A IA +L
Sbjct: 16 VQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL 75
>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
Migration Motor
Length = 334
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/60 (41%), Positives = 32/60 (53%), Gaps = 5/60 (8%)
Query: 52 VEKYRPKQVKDVAHQEEVVRVLTNTLETAN-----CPHMLFYGPPGTGKTTTALAIAHQL 106
V+ RPK + + QE V + L+ LE A H+L GPPG GKTT A IA +L
Sbjct: 16 VQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASEL 75
>pdb|1IN6|A Chain A, Thermotoga Maritima Ruvb K64r Mutant
Length = 334
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/60 (40%), Positives = 32/60 (53%), Gaps = 5/60 (8%)
Query: 52 VEKYRPKQVKDVAHQEEVVRVLTNTLETAN-----CPHMLFYGPPGTGKTTTALAIAHQL 106
V+ RPK + + QE V + L+ LE A H+L GPPG G+TT A IA +L
Sbjct: 16 VQFLRPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGRTTLAHIIASEL 75
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 37.7 bits (86), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 31/54 (57%), Gaps = 9/54 (16%)
Query: 58 KQVKDVAHQEEVVRV------LTNTLETANCPHMLFYGPPGTGKTTTALAIAHQ 105
KQ+K++ +EV+ + L +L A ++ YGPPGTGKT A A+AH
Sbjct: 155 KQIKEI---KEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHH 205
>pdb|2C9O|A Chain A, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
pdb|2C9O|B Chain B, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
pdb|2C9O|C Chain C, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
Length = 456
Score = 36.6 bits (83), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 31/63 (49%), Gaps = 14/63 (22%)
Query: 85 MLFYGPPGTGKTTTALAIAHQL---------FGPELY-----KSRVLELNASDDRGINVV 130
+L GPPGTGKT ALAIA +L G E+Y K+ VL N G+ +
Sbjct: 66 VLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKKTEVLMENFRRAIGLRIK 125
Query: 131 RTK 133
TK
Sbjct: 126 ETK 128
>pdb|2XSZ|A Chain A, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|B Chain B, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|C Chain C, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
Length = 367
Score = 36.2 bits (82), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 23/41 (56%), Gaps = 9/41 (21%)
Query: 85 MLFYGPPGTGKTTTALAIAHQL---------FGPELYKSRV 116
+L GPPGTGKT ALAIA +L G E+Y + +
Sbjct: 80 VLLAGPPGTGKTALALAIAQELGSKVPFCPXVGSEVYSTEI 120
>pdb|2XZL|A Chain A, Upf1-Rna Complex
Length = 802
Score = 36.2 bits (82), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 32/65 (49%), Gaps = 13/65 (20%)
Query: 83 PHMLFYGPPGTGKTTTALAIAHQLFGPELYKSRVLELNASD-----------DRGINVVR 131
P L GPPGTGKT T+ I + L +++K R+L S+ D G+ VVR
Sbjct: 376 PLSLIQGPPGTGKTVTSATIVYHL--SKIHKDRILVCAPSNVAVDHLAAKLRDLGLKVVR 433
Query: 132 TKIKT 136
K+
Sbjct: 434 LTAKS 438
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 35.8 bits (81), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 18/34 (52%), Positives = 22/34 (64%), Gaps = 7/34 (20%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ-------LFGPEL 111
+LFYGPPG GKT A AIA++ + GPEL
Sbjct: 514 VLFYGPPGCGKTLLAKAIANECQANFISIKGPEL 547
Score = 34.7 bits (78), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 22/34 (64%), Gaps = 7/34 (20%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ-------LFGPEL 111
+L YGPPGTGKT A A+A++ + GPE+
Sbjct: 241 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEI 274
>pdb|3CF1|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF1|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF1|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF2|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|D Chain D, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF3|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADP
pdb|3CF3|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADP
pdb|3CF3|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADP
Length = 806
Score = 35.8 bits (81), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 18/34 (52%), Positives = 22/34 (64%), Gaps = 7/34 (20%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ-------LFGPEL 111
+LFYGPPG GKT A AIA++ + GPEL
Sbjct: 514 VLFYGPPGCGKTLLAKAIANECQANFISIKGPEL 547
Score = 34.7 bits (78), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 22/34 (64%), Gaps = 7/34 (20%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ-------LFGPEL 111
+L YGPPGTGKT A A+A++ + GPE+
Sbjct: 241 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEI 274
>pdb|3CF0|A Chain A, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|B Chain B, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|C Chain C, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|D Chain D, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|E Chain E, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|F Chain F, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|G Chain G, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|H Chain H, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|I Chain I, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|J Chain J, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|K Chain K, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|L Chain L, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|M Chain M, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|N Chain N, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
Length = 301
Score = 35.8 bits (81), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 18/34 (52%), Positives = 22/34 (64%), Gaps = 7/34 (20%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ-------LFGPEL 111
+LFYGPPG GKT A AIA++ + GPEL
Sbjct: 52 VLFYGPPGCGKTLLAKAIANECQANFISIKGPEL 85
>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 = 35.4 bits (80), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 36/144 (25%), Positives = 67/144 (46%), Gaps = 21/144 (14%)
Query: 31 EKSEDEVKRKMAP-VLQSSQPWVEKYRPKQVKDVAHQEEVVRVLTNTLETANCPHMLFYG 89
++++D++ K A +L +EK + + ++ +A Q+ LT +L P + G
Sbjct: 64 DETDDKLDLKEAGRLLDEEHHGLEKVKERILEYLAVQK-----LTKSL---KGPILCLAG 115
Query: 90 PPGTGKTTTALAIAHQLFGPELYKSRVLELNASDDRGINVVRTKIKTFAAVAVG---SGQ 146
PPG GKT+ A +IA L + + ++ R + +R +T+ G G
Sbjct: 116 PPGVGKTSLAKSIAKSL------GRKFVRISLGGVRDESEIRGHRRTYVGAMPGRIIQGM 169
Query: 147 RRGGYPCPPYKIIILDEADSMTED 170
++ G P + +LDE D M+ D
Sbjct: 170 KKAGKLNP---VFLLDEIDKMSSD 190
>pdb|1E32|A Chain A, Structure Of The N-Terminal Domain And The D1 Aaa Domain
Of Membrane Fusion Atpase P97
pdb|1S3S|A Chain A, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|B Chain B, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|C Chain C, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|D Chain D, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|E Chain E, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|F Chain F, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
Length = 458
Score = 35.0 bits (79), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 22/34 (64%), Gaps = 7/34 (20%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ-------LFGPEL 111
+L YGPPGTGKT A A+A++ + GPE+
Sbjct: 241 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEI 274
>pdb|3HU2|A Chain A, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|B Chain B, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|C Chain C, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|D Chain D, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|E Chain E, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|F Chain F, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
Length = 489
Score = 35.0 bits (79), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 22/34 (64%), Gaps = 7/34 (20%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ-------LFGPEL 111
+L YGPPGTGKT A A+A++ + GPE+
Sbjct: 241 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEI 274
>pdb|3HU3|A Chain A, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs
pdb|3HU3|B Chain B, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs
Length = 489
Score = 35.0 bits (79), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 22/34 (64%), Gaps = 7/34 (20%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ-------LFGPEL 111
+L YGPPGTGKT A A+A++ + GPE+
Sbjct: 241 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEI 274
>pdb|3HU1|A Chain A, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|B Chain B, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|C Chain C, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|D Chain D, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|E Chain E, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|F Chain F, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
Length = 489
Score = 35.0 bits (79), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 22/34 (64%), Gaps = 7/34 (20%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ-------LFGPEL 111
+L YGPPGTGKT A A+A++ + GPE+
Sbjct: 241 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEI 274
>pdb|2CE7|A Chain A, Edta Treated
pdb|2CE7|B Chain B, Edta Treated
pdb|2CE7|C Chain C, Edta Treated
pdb|2CE7|D Chain D, Edta Treated
pdb|2CE7|E Chain E, Edta Treated
pdb|2CE7|F Chain F, Edta Treated
pdb|2CEA|A Chain A, Cell Division Protein Ftsh
pdb|2CEA|B Chain B, Cell Division Protein Ftsh
pdb|2CEA|C Chain C, Cell Division Protein Ftsh
pdb|2CEA|D Chain D, Cell Division Protein Ftsh
pdb|2CEA|E Chain E, Cell Division Protein Ftsh
pdb|2CEA|F Chain F, Cell Division Protein Ftsh
Length = 476
Score = 35.0 bits (79), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 35/121 (28%), Positives = 49/121 (40%), Gaps = 30/121 (24%)
Query: 61 KDVAHQEEVVRVLTNTLETANCPH------------MLFYGPPGTGKTTTALAIAHQLFG 108
KDV EE + L +E P +L GPPGTGKT A A+A +
Sbjct: 16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANV 75
Query: 109 P--ELYKSRVLELNASDDRGINVVRTKIKTFAAVAVGSGQRRGGYPCPPYKIIILDEADS 166
P + S +EL G+ R + FA Q + PC I+ +DE D+
Sbjct: 76 PFFHISGSDFVELFV----GVGAARVR-DLFA-------QAKAHAPC----IVFIDEIDA 119
Query: 167 M 167
+
Sbjct: 120 V 120
>pdb|1QVR|A Chain A, Crystal Structure Analysis Of Clpb
pdb|1QVR|B Chain B, Crystal Structure Analysis Of Clpb
pdb|1QVR|C Chain C, Crystal Structure Analysis Of Clpb
Length = 854
Score = 34.7 bits (78), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 33/129 (25%), Positives = 51/129 (39%), Gaps = 10/129 (7%)
Query: 61 KDVAHQEEVVRVLTNTLETA-------NCP--HMLFYGPPGTGKTTTALAIAHQLFGPEL 111
K V Q+E +R + + + A N P LF GP G GKT A +A LF E
Sbjct: 558 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEE 617
Query: 112 YKSRVLELNASDDRGINVVRTKIKTFAAVAVGSGQRRGGYPCPPYKIIILDEADSMTEDA 171
R+ + ++ + + G GQ PY +I+ DE + D
Sbjct: 618 AMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEG-GQLTEAVRRRPYSVILFDEIEKAHPDV 676
Query: 172 QNALRRTME 180
N L + ++
Sbjct: 677 FNILLQILD 685
>pdb|3PXI|A Chain A, Structure Of Meca108:clpc
pdb|3PXI|B Chain B, Structure Of Meca108:clpc
pdb|3PXI|C Chain C, Structure Of Meca108:clpc
Length = 758
Score = 34.7 bits (78), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 24/96 (25%), Positives = 39/96 (40%), Gaps = 17/96 (17%)
Query: 86 LFYGPPGTGKTTTALAIAHQLFGPELYKSRVLELNASDDRGINVVRTKIKTFAAV-AVGS 144
+F GP G GKT A A+A +FG E +++R + + +
Sbjct: 525 IFLGPTGVGKTELARALAESIFGDEE----------------SMIRIDMSEYMEKHSTSG 568
Query: 145 GQRRGGYPCPPYKIIILDEADSMTEDAQNALRRTME 180
GQ PY +++LD + D N L + +E
Sbjct: 569 GQLTEKVRRKPYSVVLLDAIEKAHPDVFNILLQVLE 604
>pdb|4FCV|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCV|B Chain B, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCV|C Chain C, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCW|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCW|C Chain C, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCW|F Chain F, Crystal Structure Of The C-Terminal Domain Of Clpb
Length = 311
Score = 33.9 bits (76), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 32/129 (24%), Positives = 50/129 (38%), Gaps = 10/129 (7%)
Query: 61 KDVAHQEEVVRVLTNTLETA-------NCP--HMLFYGPPGTGKTTTALAIAHQLFGPEL 111
K V Q+E +R + + + A N P LF GP G GKT A +A LF E
Sbjct: 17 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEE 76
Query: 112 YKSRVLELNASDDRGINVVRTKIKTFAAVAVGSGQRRGGYPCPPYKIIILDEADSMTEDA 171
R+ + ++ + + G GQ PY +I+ D + D
Sbjct: 77 AXIRIDXTEYXEKHAVSRLIGAPPGYVGYEEG-GQLTEAVRRRPYSVILFDAIEKAHPDV 135
Query: 172 QNALRRTME 180
N L + ++
Sbjct: 136 FNILLQXLD 144
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 24/41 (58%), Gaps = 7/41 (17%)
Query: 85 MLFYGPPGTGKTTTALAIAH-------QLFGPELYKSRVLE 118
+L YGPPGTGKT A A+A+ ++ G EL + V E
Sbjct: 246 ILLYGPPGTGKTLCARAVANRTDATFIRVIGSELVQKYVGE 286
>pdb|1AKY|A Chain A, High-Resolution Structures Of Adenylate Kinase From Yeast
Ligated With Inhibitor Ap5a, Showing The Pathway Of
Phosphoryl Transfer
pdb|2AKY|A Chain A, High-Resolution Structures Of Adenylate Kinase From Yeast
Ligated With Inhibitor Ap5a, Showing The Pathway Of
Phosphoryl Transfer
Length = 220
Score = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 37/154 (24%), Positives = 63/154 (40%), Gaps = 27/154 (17%)
Query: 85 MLFYGPPGTGKTTTALAI-----AHQLFGPELYKSRV-----LELNA----------SDD 124
M+ GPPG GK T A + A L ++ +S++ L L A SDD
Sbjct: 7 MVLIGPPGAGKGTQAPNLQERFHAAHLATGDMLRSQIAKGTQLGLEAKKIMDQGGLVSDD 66
Query: 125 RGINVVRTKIKTFAAVAVGSGQRRGGYPCPPYKIIILDEADSMTEDAQNALRRTMETYSK 184
+N+++ ++ A +G G+ P I ++ D M ++ L + +E K
Sbjct: 67 IMVNMIKDELTNNPACK--NGFILDGF---PRTIPQAEKLDQMLKEQGTPLEKAIEL--K 119
Query: 185 VTRFFFICNYISRIIEPLASRCAKFRFKPLSEEV 218
V + R+I P + R F P E++
Sbjct: 120 VDDELLVARITGRLIHPASGRSYHKIFNPPKEDM 153
>pdb|3AKY|A Chain A, Stability, Activity And Structure Of Adenylate Kinase
Mutants
Length = 220
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 37/154 (24%), Positives = 60/154 (38%), Gaps = 27/154 (17%)
Query: 85 MLFYGPPGTGKTTTA------LAIAH----QLFGPELYKSRVLELNA----------SDD 124
M+ GPPG GK T A AH + ++ K L L A SDD
Sbjct: 7 MVLIGPPGAGKGTQAPNLQERFHAAHLATGDMLRSQIAKGTQLGLEAKKIMDQGGLVSDD 66
Query: 125 RGINVVRTKIKTFAAVAVGSGQRRGGYPCPPYKIIILDEADSMTEDAQNALRRTMETYSK 184
+N+++ ++ A +G G+ P I ++ D M ++ L + +E K
Sbjct: 67 IMVNMIKDELTNNPACK--NGFILDGF---PRTIPQAEKLDQMLKEQGTPLEKAIEL--K 119
Query: 185 VTRFFFICNYISRIIEPLASRCAKFRFKPLSEEV 218
V + R+I P + R F P E++
Sbjct: 120 VDDELLVARITGRLIHPASGRSYHKIFNPPKEDM 153
>pdb|4FCT|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|B Chain B, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|D Chain D, Crystal Structure Of The C-Terminal Domain Of Clpb
Length = 308
Score = 33.1 bits (74), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 32/129 (24%), Positives = 50/129 (38%), Gaps = 10/129 (7%)
Query: 61 KDVAHQEEVVRVLTNTLETA-------NCP--HMLFYGPPGTGKTTTALAIAHQLFGPEL 111
K V Q+E +R + + + A N P LF GP G GKT A +A LF E
Sbjct: 14 KRVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEE 73
Query: 112 YKSRVLELNASDDRGINVVRTKIKTFAAVAVGSGQRRGGYPCPPYKIIILDEADSMTEDA 171
R+ + ++ + + G GQ PY +I+ D + D
Sbjct: 74 AMIRIDMTEYMEKHAVSRLIGAPPGYVGYEEG-GQLTEAVRRRPYSVILFDAIEKAHPDV 132
Query: 172 QNALRRTME 180
N L + ++
Sbjct: 133 FNILLQILD 141
>pdb|3H4M|A Chain A, Aaa Atpase Domain Of The Proteasome- Activating
Nucleotidase
pdb|3H4M|B Chain B, Aaa Atpase Domain Of The Proteasome- Activating
Nucleotidase
pdb|3H4M|C Chain C, Aaa Atpase Domain Of The Proteasome- Activating
Nucleotidase
Length = 285
Score = 33.1 bits (74), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 21/36 (58%), Gaps = 7/36 (19%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ-------LFGPELYK 113
+L YGPPGTGKT A A+A + + G EL K
Sbjct: 54 ILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVK 89
>pdb|3KDS|E Chain E, Apo-ftsh Crystal Structure
pdb|3KDS|F Chain F, Apo-ftsh Crystal Structure
pdb|3KDS|G Chain G, Apo-ftsh Crystal Structure
Length = 465
Score = 32.7 bits (73), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 34/121 (28%), Positives = 48/121 (39%), Gaps = 30/121 (24%)
Query: 61 KDVAHQEEVVRVLTNTLETANCPH------------MLFYGPPGTGKTTTALAIAHQLFG 108
KDV EE + L +E P +L GPPGTG T A A+A +
Sbjct: 16 KDVGGAEEAIEELKEVVEFLKDPSKFNRIGARMPKGILLVGPPGTGATLLARAVAGEANV 75
Query: 109 P--ELYKSRVLELNASDDRGINVVRTKIKTFAAVAVGSGQRRGGYPCPPYKIIILDEADS 166
P + S +EL G+ R + FA Q + PC I+ +DE D+
Sbjct: 76 PFFHISGSDFVELFV----GVGAARVR-DLFA-------QAKAHAPC----IVFIDEIDA 119
Query: 167 M 167
+
Sbjct: 120 V 120
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 32.3 bits (72), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 13/19 (68%), Positives = 15/19 (78%)
Query: 85 MLFYGPPGTGKTTTALAIA 103
+L YGPPGTGKT A A+A
Sbjct: 218 VLLYGPPGTGKTLLAKAVA 236
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 32.3 bits (72), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 14/20 (70%), Positives = 14/20 (70%)
Query: 86 LFYGPPGTGKTTTALAIAHQ 105
L YGPPGTGKT A A A Q
Sbjct: 219 LMYGPPGTGKTLLARACAAQ 238
>pdb|3SYL|A Chain A, Crystal Structure Of The Aaa+ Protein Cbbx, Native
Structure
pdb|3SYL|B Chain B, Crystal Structure Of The Aaa+ Protein Cbbx, Native
Structure
Length = 309
Score = 32.3 bits (72), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 14/20 (70%), Positives = 15/20 (75%)
Query: 84 HMLFYGPPGTGKTTTALAIA 103
HM F G PGTGKTT AL +A
Sbjct: 69 HMSFTGNPGTGKTTVALKMA 88
>pdb|1DVR|A Chain A, Structure Of A Mutant Adenylate Kinase Ligated With An
Atp- Analogue Showing Domain Closure Over Atp
pdb|1DVR|B Chain B, Structure Of A Mutant Adenylate Kinase Ligated With An
Atp- Analogue Showing Domain Closure Over Atp
Length = 220
Score = 32.3 bits (72), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 37/154 (24%), Positives = 63/154 (40%), Gaps = 27/154 (17%)
Query: 85 MLFYGPPGTGKTTTALAI-----AHQLFGPELYKSRV-----LELNA----------SDD 124
M+ GPPG GK T A + A L ++ +S++ L L A SDD
Sbjct: 7 MVLIGPPGAGKGTQAPNLQERFHAAHLATGDMLRSQIAKGTQLGLEAKKIMDQGGLVSDD 66
Query: 125 RGINVVRTKIKTFAAVAVGSGQRRGGYPCPPYKIIILDEADSMTEDAQNALRRTMETYSK 184
+N+++ ++ A +G G+ P I ++ D M ++ L + +E K
Sbjct: 67 IMVNMIKDELTNNPACK--NGFILVGF---PRTIPQAEKLDQMLKEQGTPLEKAIEL--K 119
Query: 185 VTRFFFICNYISRIIEPLASRCAKFRFKPLSEEV 218
V + R+I P + R F P E++
Sbjct: 120 VDDELLVARITGRLIHPASGRSYHKIFNPPKEDM 153
>pdb|3ZUH|A Chain A, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
pdb|3ZUH|B Chain B, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
pdb|3ZUH|C Chain C, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
pdb|3ZUH|D Chain D, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
pdb|3ZUH|E Chain E, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
pdb|3ZUH|F Chain F, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
Length = 289
Score = 32.3 bits (72), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 14/20 (70%), Positives = 15/20 (75%)
Query: 84 HMLFYGPPGTGKTTTALAIA 103
HM F G PGTGKTT AL +A
Sbjct: 62 HMSFTGNPGTGKTTVALKMA 81
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 32.0 bits (71), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 15/20 (75%)
Query: 85 MLFYGPPGTGKTTTALAIAH 104
+L YGPPGTGKT A+A+
Sbjct: 209 VLLYGPPGTGKTMLVKAVAN 228
>pdb|4B3G|A Chain A, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
pdb|4B3G|B Chain B, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
Length = 646
Score = 31.2 bits (69), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 15/20 (75%)
Query: 86 LFYGPPGTGKTTTALAIAHQ 105
+ +GPPGTGKTTT + I Q
Sbjct: 209 IIHGPPGTGKTTTVVEIILQ 228
>pdb|4B3F|X Chain X, Crystal Structure Of 1ghmbp2 Helicase
Length = 646
Score = 31.2 bits (69), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 15/20 (75%)
Query: 86 LFYGPPGTGKTTTALAIAHQ 105
+ +GPPGTGKTTT + I Q
Sbjct: 209 IIHGPPGTGKTTTVVEIILQ 228
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 31.2 bits (69), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 38/90 (42%), Gaps = 28/90 (31%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ-------LFGPELYKSRVLELNASDDRGINVVRTKIKTF 137
+L GPPG GKT A A+A++ + GPEL V E +R + V + K
Sbjct: 47 VLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGE----SERAVRQVFQRAKNS 102
Query: 138 AAVAVGSGQRRGGYPCPPYKIIILDEADSM 167
A PC +I DE D++
Sbjct: 103 A-------------PC----VIFFDEVDAL 115
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 31.2 bits (69), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 40/86 (46%), Gaps = 18/86 (20%)
Query: 85 MLFYGPPGTGKTTTALAIAHQLFGPELYKSRVLELNASD--DRGINVVRTKIKTFAAVAV 142
+L YGPPGTGK+ A A+A + S +++SD + + +K A+A
Sbjct: 63 ILLYGPPGTGKSYLAKAVATE------ANSTFFSVSSSDLVSKWMGESEKLVKQLFAMA- 115
Query: 143 GSGQRRGGYPCPPYKIIILDEADSMT 168
R P II +DE D++T
Sbjct: 116 -----RENKPS----IIFIDEVDALT 132
>pdb|2QP9|X Chain X, Crystal Structure Of S.Cerevisiae Vps4
pdb|2QPA|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
pdb|2QPA|B Chain B, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
pdb|2QPA|C Chain C, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
Length = 355
Score = 31.2 bits (69), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ 105
+L YGPPGTGK+ A A+A +
Sbjct: 87 ILLYGPPGTGKSYLAKAVATE 107
>pdb|2WJV|A Chain A, Crystal Structure Of The Complex Between Human Nonsense
Mediated Decay Factors Upf1 And Upf2
pdb|2WJV|B Chain B, Crystal Structure Of The Complex Between Human Nonsense
Mediated Decay Factors Upf1 And Upf2
pdb|2WJY|A Chain A, Crystal Structure Of The Complex Between Human Nonsense
Mediated Decay Factors Upf1 And Upf2 Orthorhombic Form
Length = 800
Score = 31.2 bits (69), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 15/24 (62%)
Query: 83 PHMLFYGPPGTGKTTTALAIAHQL 106
P L GPPGTGKT T+ I + L
Sbjct: 372 PLSLIQGPPGTGKTVTSATIVYHL 395
>pdb|2GJK|A Chain A, Structural And Functional Insights Into The Human Upf1
Helicase Core
pdb|2GK6|A Chain A, Structural And Functional Insights Into The Human Upf1
Helicase Core
pdb|2GK6|B Chain B, Structural And Functional Insights Into The Human Upf1
Helicase Core
pdb|2GK7|A Chain A, Structural And Functional Insights Into The Human Upf1
Helicase Core
Length = 624
Score = 30.8 bits (68), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 15/24 (62%)
Query: 83 PHMLFYGPPGTGKTTTALAIAHQL 106
P L GPPGTGKT T+ I + L
Sbjct: 196 PLSLIQGPPGTGKTVTSATIVYHL 219
>pdb|2XZO|A Chain A, Upf1 Helicase - Rna Complex
pdb|2XZP|A Chain A, Upf1 Helicase
Length = 623
Score = 30.8 bits (68), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 15/24 (62%)
Query: 83 PHMLFYGPPGTGKTTTALAIAHQL 106
P L GPPGTGKT T+ I + L
Sbjct: 195 PLSLIQGPPGTGKTVTSATIVYHL 218
>pdb|3EIH|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
pdb|3EIH|B Chain B, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
pdb|3EIH|C Chain C, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
Length = 340
Score = 30.8 bits (68), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ 105
+L YGPPGTGK+ A A+A +
Sbjct: 72 ILLYGPPGTGKSYLAKAVATE 92
>pdb|1G29|1 Chain 1, Malk
pdb|1G29|2 Chain 2, Malk
Length = 372
Score = 30.8 bits (68), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 19/36 (52%)
Query: 68 EVVRVLTNTLETANCPHMLFYGPPGTGKTTTALAIA 103
EV V +LE + M+ GP G GKTTT IA
Sbjct: 15 EVTAVREMSLEVKDGEFMILLGPSGCGKTTTLRMIA 50
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 30.8 bits (68), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ 105
+L YGPPGTGK+ A A+A +
Sbjct: 54 ILLYGPPGTGKSYLAKAVATE 74
>pdb|3PFI|A Chain A, 2.7 Angstrom Resolution Crystal Structure Of A Probable
Holliday Junction Dna Helicase (Ruvb) From Campylobacter
Jejuni Subsp. Jejuni Nctc 11168 In Complex With
Adenosine-5'-Diphosphate
pdb|3PFI|B Chain B, 2.7 Angstrom Resolution Crystal Structure Of A Probable
Holliday Junction Dna Helicase (Ruvb) From Campylobacter
Jejuni Subsp. Jejuni Nctc 11168 In Complex With
Adenosine-5'-Diphosphate
Length = 338
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 84 HMLFYGPPGTGKTTTALAIAHQ 105
H+LF GP G GKTT A I+++
Sbjct: 57 HILFSGPAGLGKTTLANIISYE 78
>pdb|2CDN|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Adenylate
Kinase Complexed With Two Molecules Of Adp And Mg
Length = 201
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 84 HM--LFYGPPGTGKTTTALAIAHQLFGPELYKSRVLELN 120
HM L GPPG GK T A+ +A +L P++ + N
Sbjct: 20 HMRVLLLGPPGAGKGTQAVKLAEKLGIPQISTGELFRRN 58
>pdb|3VAX|A Chain A, Crytal Structure Of Dnda From Streptomyces Lividans
pdb|3VAX|B Chain B, Crytal Structure Of Dnda From Streptomyces Lividans
Length = 400
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 40/82 (48%), Gaps = 15/82 (18%)
Query: 210 RFKPLSEEVMSSRVLHICNEEGLNLDAEALSTLSSISQGDLRRAITYL-----QGAARLF 264
R +P + + ++H+ NE G+ + ++ ++Q LR TYL QG ++
Sbjct: 155 RLRP---DTLLVSLMHVNNETGV------IQPVAELAQ-QLRATPTYLHVDAAQGYGKVP 204
Query: 265 GSSITSKDLISVSGYPTGGSGG 286
G T D+IS+SG+ G G
Sbjct: 205 GDLTTPIDMISISGHKIGAPKG 226
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ 105
++ YG PGTGKT A A+A+Q
Sbjct: 219 VILYGAPGTGKTLLAKAVANQ 239
>pdb|1P4S|A Chain A, Solution Structure Of Mycobacterium Tuberculosis Adenylate
Kinase
Length = 181
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 84 HMLFYGPPGTGKTTTALAIAHQLFGPEL 111
+L GPPG GK T A+ +A +L P++
Sbjct: 2 RVLLLGPPGAGKGTQAVKLAEKLGIPQI 29
>pdb|3CNL|A Chain A, Crystal Structure Of Gnp-Bound Ylqf From T. Maritima
pdb|3CNN|A Chain A, Gtp-Bound Structure Of Tm Ylqf
pdb|3CNO|A Chain A, Gdp-Bound Structue Of Tm Ylqf
Length = 262
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 29/54 (53%), Gaps = 3/54 (5%)
Query: 46 QSSQPWVEKYRPKQVKDV--AHQEEVVRVLTNTLETANCPHMLFYGPPGTGKTT 97
++++ WVE ++ KQ K V H+ E +VL L +L G P TGK+T
Sbjct: 62 KTTKKWVEFFK-KQGKRVITTHKGEPRKVLLKKLSFDRLARVLIVGVPNTGKST 114
>pdb|2ZAM|A Chain A, Crystal Structure Of Mouse Skd1VPS4B APO-Form
pdb|2ZAN|A Chain A, Crystal Structure Of Mouse Skd1VPS4B ATP-Form
pdb|2ZAO|A Chain A, Crystal Structure Of Mouse Skd1VPS4B ADP-Form
Length = 444
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 29/99 (29%), Positives = 44/99 (44%), Gaps = 21/99 (21%)
Query: 85 MLFYGPPGTGKTTTALAIAHQLFGPELYKSRVLELNASD--DRGINVVRTKIKTFAAVAV 142
+L +GPPGTGK+ A A+A E S +++SD + + +K +A
Sbjct: 170 ILLFGPPGTGKSYLAKAVAT-----EANNSTFFSISSSDLVSKWLGESEKLVKNLFQLA- 223
Query: 143 GSGQRRGGYPCPPYKIIILDEADSM----TEDAQNALRR 177
R P II +DE DS+ +E+ A RR
Sbjct: 224 -----RENKPS----IIFIDEIDSLCGSRSENESEAARR 253
>pdb|3D8B|A Chain A, Crystal Structure Of Human Fidgetin-Like Protein 1 In
Complex With Adp
pdb|3D8B|B Chain B, Crystal Structure Of Human Fidgetin-Like Protein 1 In
Complex With Adp
Length = 357
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ 105
+L +GPPGTGKT IA Q
Sbjct: 120 ILLFGPPGTGKTLIGKCIASQ 140
>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 = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 26/61 (42%), Gaps = 12/61 (19%)
Query: 61 KDVAHQEEVVRVLTNTLETANCPH------------MLFYGPPGTGKTTTALAIAHQLFG 108
KD+A EE + ++ P +L GPPGTGKT A A+A +
Sbjct: 11 KDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHV 70
Query: 109 P 109
P
Sbjct: 71 P 71
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ 105
+L +GPPG GKT A A+A +
Sbjct: 57 LLLFGPPGNGKTLLARAVATE 77
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 29/99 (29%), Positives = 44/99 (44%), Gaps = 21/99 (21%)
Query: 85 MLFYGPPGTGKTTTALAIAHQLFGPELYKSRVLELNASD--DRGINVVRTKIKTFAAVAV 142
+L +GPPGTGK+ A A+A E S +++SD + + +K +A
Sbjct: 48 ILLFGPPGTGKSYLAKAVAT-----EANNSTFFSISSSDLVSKWLGESEKLVKNLFQLA- 101
Query: 143 GSGQRRGGYPCPPYKIIILDEADSM----TEDAQNALRR 177
R P II +DE DS+ +E+ A RR
Sbjct: 102 -----RENKPS----IIFIDEIDSLCGSRSENESEAARR 131
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ 105
+L +GPPG GKT A A+A +
Sbjct: 151 LLLFGPPGNGKTMLAKAVAAE 171
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 37/92 (40%), Gaps = 32/92 (34%)
Query: 85 MLFYGPPGTGKTTTALAIAHQLFGPELYKSRVLELNASDDRGINVVRTKIKTFAAVAVGS 144
+L GPPGTGKT A AIA + K ++ SD F + VG
Sbjct: 48 VLMVGPPGTGKTLLAKAIAGE------AKVPFFTISGSD-------------FVEMFVGV 88
Query: 145 G---------QRRGGYPCPPYKIIILDEADSM 167
G Q + PC II +DE D++
Sbjct: 89 GASRVRDMFEQAKKAAPC----IIFIDEIDAV 116
>pdb|1SGW|A Chain A, Putative Abc Transporter (Atp-Binding Protein) From
Pyrococcus Furiosus Pfu-867808-001
Length = 214
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 63 VAHQEEVVRVLTNTLETANCPHMLFYGPPGTGKTTTALAIAHQL 106
V + + V+ +T T+E N + F+GP G GKTT I+ L
Sbjct: 18 VGYDKPVLERITMTIEKGNVVN--FHGPNGIGKTTLLKTISTYL 59
>pdb|1HQM|A Chain A, Crystal Structure Of Thermus Aquaticus Core Rna
Polymerase- Includes Complete Structure With Side-Chains
(Except For Disordered Regions)-Further Refined From
Original Deposition-Contains Additional Sequence
Information
pdb|1HQM|B Chain B, Crystal Structure Of Thermus Aquaticus Core Rna
Polymerase- Includes Complete Structure With Side-Chains
(Except For Disordered Regions)-Further Refined From
Original Deposition-Contains Additional Sequence
Information
Length = 313
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 24/39 (61%), Gaps = 4/39 (10%)
Query: 213 PLSEEVMSSRVLHICNEEGLNLDAEALSTLSSISQGDLR 251
PL E +S+RVLH EEG+ E++ L +++ DLR
Sbjct: 253 PLEELGLSTRVLHSLKEEGI----ESVRALLALNLKDLR 287
>pdb|1L9U|A Chain A, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9U|B Chain B, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9U|J Chain J, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9U|K Chain K, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9Z|A Chain A, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
Promoter Dna Complex At 6.5 A Resolution
pdb|1L9Z|B Chain B, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
Promoter Dna Complex At 6.5 A Resolution
pdb|1YNJ|A Chain A, Taq Rna Polymerase-Sorangicin Complex
pdb|1YNJ|B Chain B, Taq Rna Polymerase-Sorangicin Complex
pdb|1YNN|A Chain A, Taq Rna Polymerase-rifampicin Complex
pdb|1YNN|B Chain B, Taq Rna Polymerase-rifampicin Complex
pdb|2GHO|A Chain A, Recombinant Thermus Aquaticus Rna Polymerase For
Structural Studies
pdb|2GHO|B Chain B, Recombinant Thermus Aquaticus Rna Polymerase For
Structural Studies
Length = 314
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 24/39 (61%), Gaps = 4/39 (10%)
Query: 213 PLSEEVMSSRVLHICNEEGLNLDAEALSTLSSISQGDLR 251
PL E +S+RVLH EEG+ E++ L +++ DLR
Sbjct: 254 PLEELGLSTRVLHSLKEEGI----ESVRALLALNLKDLR 288
>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 = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 2/49 (4%)
Query: 58 KQVKDVAHQEEVVRVLTNTLETANCPHMLFYGPPGTGKTTTALAIAHQL 106
K + V QE V V+ H+L G PGTGK+ A+A L
Sbjct: 38 KLIDQVIGQEHAVEVIKTAANQKR--HVLLIGEPGTGKSMLGQAMAELL 84
>pdb|1I6V|A Chain A, Thermus Aquaticus Core Rna Polymerase-Rifampicin Complex
pdb|1I6V|B Chain B, Thermus Aquaticus Core Rna Polymerase-Rifampicin Complex
Length = 314
Score = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 24/39 (61%), Gaps = 4/39 (10%)
Query: 213 PLSEEVMSSRVLHICNEEGLNLDAEALSTLSSISQGDLR 251
PL E +S+RVLH EEG+ E++ L +++ DLR
Sbjct: 254 PLEELGLSTRVLHSLKEEGI----ESVRALLALNLKDLR 288
>pdb|3SYK|A Chain A, Crystal Structure Of The Aaa+ Protein Cbbx,
Selenomethionine Structure
pdb|3SYK|B Chain B, Crystal Structure Of The Aaa+ Protein Cbbx,
Selenomethionine Structure
Length = 309
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 13/20 (65%), Positives = 13/20 (65%)
Query: 84 HMLFYGPPGTGKTTTALAIA 103
H F G PGTGKTT AL A
Sbjct: 69 HXSFTGNPGTGKTTVALKXA 88
>pdb|3CM0|A Chain A, Crystal Structure Of Adenylate Kinase From Thermus
Thermophilus Hb8
Length = 186
Score = 28.5 bits (62), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 85 MLFYGPPGTGKTTTALAIAHQL 106
++F GPPG GK T A +A +L
Sbjct: 7 VIFLGPPGAGKGTQASRLAQEL 28
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 34/82 (41%), Gaps = 14/82 (17%)
Query: 86 LFYGPPGTGKTTTALAIAHQLFGPELYKSRVLELNASDDRGINVVRTKIKTFAAVAVGSG 145
L GPPG GKT A A+A + P L + + G VR+ K
Sbjct: 43 LLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGLGAARVRSLFK---------- 92
Query: 146 QRRGGYPCPPYKIIILDEADSM 167
+ R PC I+ +DE D++
Sbjct: 93 EARARAPC----IVYIDEIDAV 110
>pdb|3E1S|A Chain A, Structure Of An N-Terminal Truncation Of Deinococcus
Radiodurans Recd2
pdb|3GP8|A Chain A, Crystal Structure Of The Binary Complex Of Recd2 With Dna
pdb|3GPL|A Chain A, Crystal Structure Of The Ternary Complex Of Recd2 With Dna
And Adpnp
pdb|3GPL|B Chain B, Crystal Structure Of The Ternary Complex Of Recd2 With Dna
And Adpnp
Length = 574
Score = 28.1 bits (61), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 42/95 (44%), Gaps = 15/95 (15%)
Query: 85 MLFYGPPGTGKTTTALAIAHQLFGPELYKSRVLELN-------ASDDRGINVVRTKIKTF 137
++ G PGTGK+TT A+A +L +S LE+ A+ G RT
Sbjct: 207 VVLTGGPGTGKSTTTKAVA------DLAESLGLEVGLCAPTGKAARRLGEVTGRTASTVH 260
Query: 138 AAVAVG-SGQRRGGYPCPPYKIIILDEADSMTEDA 171
+ G G R PY ++I+DE SM DA
Sbjct: 261 RLLGYGPQGFRHNHLEPAPYDLLIVDEV-SMMGDA 294
>pdb|2V1U|A Chain A, Structure Of The Aeropyrum Pernix Orc1 Protein In Complex
With Dna
Length = 387
Score = 27.7 bits (60), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 27/61 (44%), Gaps = 7/61 (11%)
Query: 51 WVEKYRPKQVKDVA-HQEEVVRVLTNTLETA----NCPHMLFYGPPGTGKTTTALAIAHQ 105
WV P V DV H+E +R L L A + L YG GTGKT A + +
Sbjct: 10 WV--LLPDYVPDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRR 67
Query: 106 L 106
L
Sbjct: 68 L 68
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
0.317 0.132 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,479,555
Number of Sequences: 62578
Number of extensions: 322542
Number of successful extensions: 1177
Number of sequences better than 100.0: 98
Number of HSP's better than 100.0 without gapping: 70
Number of HSP's successfully gapped in prelim test: 28
Number of HSP's that attempted gapping in prelim test: 1078
Number of HSP's gapped (non-prelim): 105
length of query: 294
length of database: 14,973,337
effective HSP length: 98
effective length of query: 196
effective length of database: 8,840,693
effective search space: 1732775828
effective search space used: 1732775828
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)