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= 025762
(248 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 = 220 bits (560), Expect = 6e-58, Method: Compositional matrix adjust.
Identities = 101/153 (66%), Positives = 121/153 (79%), Gaps = 2/153 (1%)
Query: 47 SSQPWVEKYRPKQVKDVAHQEEVVRVLTNTLETANCPHMLFYGPPGTGKTTTALAIAHQL 106
+ QPWVEKYRPK + +V Q+ V VL TL++AN PHMLFYGPPGTGKT+T LA+ +L
Sbjct: 23 AQQPWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKEL 82
Query: 107 FGPELYKSRVLELNASDDRGINVVRTKIKTFAAVAVG--SGQRRGGYPCPPYKIIILDEA 164
+GP+L KSR+LELNASD+RGI++VR K+K FA + V S YPCPPYKIIILDEA
Sbjct: 83 YGPDLMKSRILELNASDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEA 142
Query: 165 DSMTEDAQNALRRTMETYSKVTRFFFICNYISR 197
DSMT DAQ+ALRRTMETYS VTRF ICNY++R
Sbjct: 143 DSMTADAQSALRRTMETYSGVTRFCLICNYVTR 175
>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 = 167 bits (423), Expect = 5e-42, Method: Compositional matrix adjust.
Identities = 82/153 (53%), Positives = 106/153 (69%), Gaps = 9/153 (5%)
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 DSMTEDAQNALRRTMETYSKVTRFFFICNYISR 197
D++T DAQ ALRRTME YSK RF CNY+SR
Sbjct: 112 DALTADAQAALRRTMEMYSKSCRFILSCNYVSR 144
>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 = 166 bits (420), Expect = 1e-41, Method: Compositional matrix adjust.
Identities = 82/153 (53%), Positives = 106/153 (69%), Gaps = 9/153 (5%)
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 DSMTEDAQNALRRTMETYSKVTRFFFICNYISR 197
D++T DAQ ALRRTME YSK RF CNY+SR
Sbjct: 112 DALTADAQAALRRTMEMYSKSCRFILSCNYVSR 144
>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 = 163 bits (413), Expect = 8e-41, Method: Compositional matrix adjust.
Identities = 78/151 (51%), Positives = 103/151 (68%), Gaps = 9/151 (5%)
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 TEDAQNALRRTMETYSKVTRFFFICNYISRC 198
T+DAQ ALRRTME +S RF CNY S+
Sbjct: 123 TQDAQQALRRTMEMFSSNVRFILSCNYSSKI 153
>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 = 154 bits (388), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 78/153 (50%), Positives = 95/153 (62%), Gaps = 8/153 (5%)
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 LDEADSMTEDAQNALRRTMETYSKVTRFFFICN 193
LDEADSMT AQ ALRRTME YS TRF F CN
Sbjct: 113 LDEADSMTAGAQQALRRTMELYSNSTRFAFACN 145
>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 = 151 bits (382), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 76/150 (50%), Positives = 102/150 (68%), Gaps = 9/150 (6%)
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 DAQNALRRTMETYSKVTRFFFICNYISRCT 199
AQNALRR +E Y+K TRF + NY + T
Sbjct: 125 AAQNALRRVIERYTKNTRFCVLANYAHKLT 154
>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 = 106 bits (264), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 65/176 (36%), Positives = 92/176 (52%), Gaps = 34/176 (19%)
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 AVGSGQRRGGYPCPPYKIIILDEADSMTEDAQNALRRTMETYSKVTRFFFICNYIS 196
Q YK +I++EA+S+T+DAQ ALRRTME YSK R +C+ +S
Sbjct: 120 EQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMS 175
>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 = 58.2 bits (139), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 48/159 (30%), Positives = 74/159 (46%), Gaps = 32/159 (20%)
Query: 53 EKYRPKQVKDV---AHQEEVVRVLTNTLETANCPHMLFYGP-PGTGKTTTALAIAHQLFG 108
+KYRP + + A +E + +T+ PH++ + P PGTGKTT A A+ H +
Sbjct: 18 QKYRPSTIDECILPAFDKETFKSITSK---GKIPHIILHSPSPGTGKTTVAKALCHDVNA 74
Query: 109 PELYKSRVLELNASDDRGINVVRTKIKTFAAVAVGSGQRRGGYPCPPYKIIILDEAD-SM 167
++ +N SD + I+ VR + FA+ A G++ K+I++DE D S
Sbjct: 75 DMMF------VNGSDCK-IDFVRGPLTNFASAASFDGRQ---------KVIVIDEFDRSG 118
Query: 168 TEDAQNALRRTMETYSKVTRFFFICNYI--------SRC 198
++Q LR ME YS N I SRC
Sbjct: 119 LAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQSRC 157
>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 = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 45/176 (25%), Positives = 67/176 (38%), Gaps = 32/176 (18%)
Query: 42 APVLQSSQPWVEKYRPKQVKDVAHQEEVVRVLTNTLETANCPH----------------- 84
P + S + W KY P ++ V + V L N L AN +
Sbjct: 20 GPHMASDKLWTVKYAPTNLQQVCGNKGSVMKLKNWL--ANWENSKKNSFKHAGKDGSGVF 77
Query: 85 --MLFYGPPGTGKTTTALAIAHQLFGPELYKSRVLELNASDDRGINVVRTKIK----TFA 138
+ YGPPG GKTT A +A +L +LE NASD R ++ +K +
Sbjct: 78 RAAMLYGPPGIGKTTAAHLVAQEL------GYDILEQNASDVRSKTLLNAGVKNALDNMS 131
Query: 139 AVAVGSGQRRGGYPCPPYKIIILDEADSMTEDAQNALRRTMETYSKV-TRFFFICN 193
V + +II+DE D M+ + + + + K T ICN
Sbjct: 132 VVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICN 187
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 44.3 bits (103), 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 = 44.3 bits (103), 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|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 = 43.9 bits (102), 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|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
Length = 334
Score = 43.5 bits (101), Expect = 1e-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 = 43.5 bits (101), Expect = 1e-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 = 43.5 bits (101), Expect = 1e-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 = 43.5 bits (101), Expect = 1e-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|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
Length = 334
Score = 43.5 bits (101), Expect = 1e-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 = 42.4 bits (98), Expect = 2e-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|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 = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 43/162 (26%), Positives = 66/162 (40%), Gaps = 27/162 (16%)
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 GGYPCPPYKIIILDEADSMTEDAQNALRRTMETYSKVTRFFF 190
G +K+ ++DE ++ + NAL +T+E + +F
Sbjct: 125 G-----RFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLL 161
>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 = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 31/58 (53%), Gaps = 3/58 (5%)
Query: 49 QPWVEKYRPKQVKDVAHQEEVV---RVLTNTLETANCPHMLFYGPPGTGKTTTALAIA 103
QP + RP+ + Q+ ++ + L +E + M+ +GPPGTGKTT A IA
Sbjct: 14 QPLAARMRPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTTLAEVIA 71
>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 = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 46/178 (25%), Positives = 70/178 (39%), Gaps = 35/178 (19%)
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 GGYPCPPYKIIILDEADSMTEDAQNALRRTMETYSKVTRFFFI--------CNYISRC 198
G + K+ ++DE ++ + NAL +T+E + +F +SRC
Sbjct: 118 GRF-----KVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRC 170
>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 = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 43/176 (24%), Positives = 65/176 (36%), Gaps = 31/176 (17%)
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---------------ELYKSRVLELNASDDRGINVVRTKIKTFAAVAVGSGQRRGG 150
L E+ + R ++L D V V + R
Sbjct: 84 LNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGR-- 141
Query: 151 YPCPPYKIIILDEADSMTEDAQNALRRTMETYSKVTRFFFI--------CNYISRC 198
+K+ ++DE ++ + NAL +T+E + +F +SRC
Sbjct: 142 -----FKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRC 192
>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 = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 46/178 (25%), Positives = 70/178 (39%), Gaps = 35/178 (19%)
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 GGYPCPPYKIIILDEADSMTEDAQNALRRTMETYSKVTRFFFI--------CNYISRC 198
G + K+ ++DE ++ + NAL +T+E + +F +SRC
Sbjct: 140 GRF-----KVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATADPQKLPVTILSRC 192
>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 = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 46/178 (25%), Positives = 70/178 (39%), Gaps = 35/178 (19%)
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 GGYPCPPYKIIILDEADSMTEDAQNALRRTMETYSKVTRFFFI--------CNYISRC 198
G + K+ ++DE ++ + NAL +T+E + +F +SRC
Sbjct: 121 GRF-----KVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRC 173
>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 = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 46/178 (25%), Positives = 70/178 (39%), Gaps = 35/178 (19%)
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 GGYPCPPYKIIILDEADSMTEDAQNALRRTMETYSKVTRFFFI--------CNYISRC 198
G + K+ ++DE ++ + NAL +T+E + +F +SRC
Sbjct: 118 GRF-----KVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRC 170
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 38.1 bits (87), Expect = 0.005, 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 = 37.0 bits (84), Expect = 0.011, 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 = 36.6 bits (83), Expect = 0.013, 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|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 = 36.6 bits (83), Expect = 0.015, Method: Composition-based stats.
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|2XZL|A Chain A, Upf1-Rna Complex
Length = 802
Score = 36.2 bits (82), Expect = 0.016, 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 = 36.2 bits (82), Expect = 0.019, 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 = 35.0 bits (79), Expect = 0.039, 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 = 36.2 bits (82), Expect = 0.019, 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 = 35.0 bits (79), Expect = 0.040, 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|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 = 36.2 bits (82), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 32/121 (26%), Positives = 56/121 (46%), Gaps = 15/121 (12%)
Query: 53 EKYRPKQVKDVAHQEEVVRVLTNTLETANCPHMLFYGPPGTGKTTTALAIAHQLFGPELY 112
E + ++VK+ + V+ LT +L+ P + GPPG GKT+ A +IA L
Sbjct: 82 EHHGLEKVKERILEYLAVQKLTKSLK---GPILCLAGPPGVGKTSLAKSIAKSL------ 132
Query: 113 KSRVLELNASDDRGINVVRTKIKTFAAVAVG---SGQRRGGYPCPPYKIIILDEADSMTE 169
+ + ++ R + +R +T+ G G ++ G P + +LDE D M+
Sbjct: 133 GRKFVRISLGGVRDESEIRGHRRTYVGAMPGRIIQGMKKAGKLNP---VFLLDEIDKMSS 189
Query: 170 D 170
D
Sbjct: 190 D 190
>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 = 0.020, 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|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 = 35.4 bits (80), Expect = 0.032, 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|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 = 35.4 bits (80), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 22/35 (62%), Gaps = 7/35 (20%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ-------LFGPELY 112
+L YGPPGTGKT A A+A++ + GPE+
Sbjct: 241 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM 275
>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 = 35.4 bits (80), Expect = 0.034, 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 = 0.035, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 22/35 (62%), Gaps = 7/35 (20%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ-------LFGPELY 112
+L YGPPGTGKT A A+A++ + GPE+
Sbjct: 241 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM 275
>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 = 0.035, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 22/35 (62%), Gaps = 7/35 (20%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ-------LFGPELY 112
+L YGPPGTGKT A A+A++ + GPE+
Sbjct: 241 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIM 275
>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 = 33.9 bits (76), Expect = 0.077, 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|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 33.9 bits (76), Expect = 0.087, 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|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 = 33.5 bits (75), Expect = 0.099, 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|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 = 33.5 bits (75), Expect = 0.13, 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 = 33.1 bits (74), Expect = 0.13, 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|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 = 32.7 bits (73), Expect = 0.17, 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|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 32.7 bits (73), Expect = 0.18, 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|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 32.7 bits (73), Expect = 0.20, 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|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 = 32.7 bits (73), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 15/23 (65%), Positives = 16/23 (69%)
Query: 84 HMLFYGPPGTGKTTTALAIAHQL 106
HM F G PGTGKTT AL +A L
Sbjct: 69 HMSFTGNPGTGKTTVALKMAGLL 91
>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 = 0.23, Method: Compositional matrix adjust.
Identities = 15/23 (65%), Positives = 16/23 (69%)
Query: 84 HMLFYGPPGTGKTTTALAIAHQL 106
HM F G PGTGKTT AL +A L
Sbjct: 62 HMSFTGNPGTGKTTVALKMAGLL 84
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 32.3 bits (72), Expect = 0.27, 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|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 31.2 bits (69), Expect = 0.50, 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|2CDN|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis Adenylate
Kinase Complexed With Two Molecules Of Adp And Mg
Length = 201
Score = 31.2 bits (69), Expect = 0.60, 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|1G29|1 Chain 1, Malk
pdb|1G29|2 Chain 2, Malk
Length = 372
Score = 31.2 bits (69), Expect = 0.60, 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|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 = 0.61, 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|4B3F|X Chain X, Crystal Structure Of 1ghmbp2 Helicase
Length = 646
Score = 31.2 bits (69), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 15/20 (75%)
Query: 86 LFYGPPGTGKTTTALAIAHQ 105
+ +GPPGTGKTTT + I Q
Sbjct: 209 IIHGPPGTGKTTTVVEIILQ 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 = 0.62, Method: Compositional matrix adjust.
Identities = 12/20 (60%), Positives = 15/20 (75%)
Query: 86 LFYGPPGTGKTTTALAIAHQ 105
+ +GPPGTGKTTT + I Q
Sbjct: 209 IIHGPPGTGKTTTVVEIILQ 228
>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 = 0.63, 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|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 = 0.64, 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 = 0.66, 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|1P4S|A Chain A, Solution Structure Of Mycobacterium Tuberculosis Adenylate
Kinase
Length = 181
Score = 30.8 bits (68), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 20/37 (54%)
Query: 84 HMLFYGPPGTGKTTTALAIAHQLFGPELYKSRVLELN 120
+L GPPG GK T A+ +A +L P++ + N
Sbjct: 2 RVLLLGPPGAGKGTQAVKLAEKLGIPQISTGELFRRN 38
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 30.8 bits (68), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 16/21 (76%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ 105
+L YGPPGTGK+ A A+A +
Sbjct: 63 ILLYGPPGTGKSYLAKAVATE 83
>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 = 0.71, 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|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 30.8 bits (68), Expect = 0.72, 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|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 30.8 bits (68), Expect = 0.80, 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|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 = 30.8 bits (68), Expect = 0.81, 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|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 = 30.4 bits (67), Expect = 0.99, 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|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 = 1.0, 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|3B9P|A Chain A, Spastin
Length = 297
Score = 30.4 bits (67), Expect = 1.0, 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|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 = 1.1, 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|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 = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 16/25 (64%)
Query: 85 MLFYGPPGTGKTTTALAIAHQLFGP 109
+L GPPGTGKT A A+A + P
Sbjct: 47 VLLVGPPGTGKTLLAKAVAGEAHVP 71
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 30.0 bits (66), Expect = 1.2, 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 = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/21 (61%), Positives = 15/21 (71%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ 105
+L GPPGTGKT A AIA +
Sbjct: 48 VLMVGPPGTGKTLLAKAIAGE 68
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 30.0 bits (66), 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: 48 ILLFGPPGTGKSYLAKAVAT-----EANNSTFFSISSSDLVSKWLGESEKLVKNLFQLA- 101
Query: 143 GSGQRRGGYPCPPYKIIILDEADSM----TEDAQNALRR 177
R P II +DE DS+ +E+ A RR
Sbjct: 102 -----RENKPS----IIFIDEIDSLCGSRSENESEAARR 131
>pdb|1ODF|A Chain A, Structure Of Ygr205w Protein
Length = 290
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 21/32 (65%), Gaps = 2/32 (6%)
Query: 77 LETAN-CPHMLFY-GPPGTGKTTTALAIAHQL 106
ET N CP +F+ GP G+GK+ T++ I + L
Sbjct: 24 FETGNKCPLFIFFSGPQGSGKSFTSIQIYNHL 55
>pdb|3UK6|A Chain A, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|B Chain B, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|C Chain C, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|D Chain D, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|E Chain E, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|F Chain F, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|G Chain G, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|H Chain H, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|I Chain I, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|J Chain J, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|K Chain K, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|L Chain L, Crystal Structure Of The Tip48 (Tip49b) Hexamer
Length = 368
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 17/26 (65%), Gaps = 1/26 (3%)
Query: 85 MLFYGPPGTGKTTTALAIAHQLFGPE 110
+L G PGTGKT A+ +A Q GP+
Sbjct: 73 VLIAGQPGTGKTAIAMGMA-QALGPD 97
>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 = 29.3 bits (64), Expect = 2.0, 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|3CM0|A Chain A, Crystal Structure Of Adenylate Kinase From Thermus
Thermophilus Hb8
Length = 186
Score = 28.9 bits (63), Expect = 2.8, 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|3NXS|A Chain A, Crystal Structure Of LaoAO TRANSPORT SYSTEM FROM
MYCOBACTERIUM Smegmatis Bound To Gdp
Length = 329
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 65 HQEEVVRVLTNTL-ETANCPHMLFYGPPGTGKTTTALAIAHQLF 107
H+E+ ++L + + E + H+ G PG GK+TT A+ L
Sbjct: 39 HREQAQQLLLDLMPEAGSAMHVGITGVPGVGKSTTIEALGMHLI 82
>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 = 2.8, 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|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 28.9 bits (63), Expect = 2.9, 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|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 = 2.9, Method: Compositional matrix adjust.
Identities = 14/23 (60%), Positives = 14/23 (60%)
Query: 84 HMLFYGPPGTGKTTTALAIAHQL 106
H F G PGTGKTT AL A L
Sbjct: 69 HXSFTGNPGTGKTTVALKXAGLL 91
>pdb|2V1U|A Chain A, Structure Of The Aeropyrum Pernix Orc1 Protein In Complex
With Dna
Length = 387
Score = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 27/61 (44%), Gaps = 7/61 (11%)
Query: 51 WVEKYRPKQVKDVA-HQEEVVR----VLTNTLETANCPHMLFYGPPGTGKTTTALAIAHQ 105
WV P V DV H+E +R VL L + L YG GTGKT A + +
Sbjct: 10 WV--LLPDYVPDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRR 67
Query: 106 L 106
L
Sbjct: 68 L 68
>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 = 5.3, 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|2DHR|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|B Chain B, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|C Chain C, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|D Chain D, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|E Chain E, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|F Chain F, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
Length = 499
Score = 27.7 bits (60), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ 105
+L GPPG GKT A A+A +
Sbjct: 67 VLLVGPPGVGKTHLARAVAGE 87
>pdb|4EIW|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|B Chain B, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|C Chain C, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|D Chain D, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|E Chain E, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|F Chain F, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
Length = 508
Score = 27.7 bits (60), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ 105
+L GPPG GKT A A+A +
Sbjct: 76 VLLVGPPGVGKTHLARAVAGE 96
>pdb|1IXZ|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
pdb|1IY0|A Chain A, Crystal Structure Of The Ftsh Atpase Domain With Amp-Pnp
From Thermus Thermophilus
pdb|1IY1|A Chain A, Crystal Structure Of The Ftsh Atpase Domain With Adp From
Thermus Thermophilus
Length = 254
Score = 27.7 bits (60), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ 105
+L GPPG GKT A A+A +
Sbjct: 52 VLLVGPPGVGKTHLARAVAGE 72
>pdb|3BFN|A Chain A, Crystal Structure Of The Motor Domain Of Human Kinesin
Family Member 22
Length = 388
Score = 27.3 bits (59), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 72 VLTNTLETANCPHMLFYGPPGTGKTTTALAIAHQ 105
+L + LE N +L YGP G GKT T L Q
Sbjct: 90 ILRHLLEGQNA-SVLAYGPTGAGKTHTMLGSPEQ 122
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 27.3 bits (59), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 14/21 (66%)
Query: 85 MLFYGPPGTGKTTTALAIAHQ 105
+L GPPG GKT A A+A +
Sbjct: 76 VLLVGPPGVGKTHLARAVAGE 96
>pdb|4IWH|A Chain A, Crystal Structure Of A 3-isopropylmalate Dehydrogenase
From Burkholderia Pseudomallei
pdb|4IWH|B Chain B, Crystal Structure Of A 3-isopropylmalate Dehydrogenase
From Burkholderia Pseudomallei
Length = 363
Score = 27.3 bits (59), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 8/61 (13%)
Query: 107 FGPELYKSRVLELNASDDRGINVVRTKIKTFAAVAVGSGQRRGGYPCPPYKIIILDEADS 166
GPE+ V LNA D+ K + A G+G G+P P + + EAD+
Sbjct: 19 IGPEIVNEAVKVLNALDE--------KFELEHAPVGGAGYEASGHPLPDATLALAKEADA 70
Query: 167 M 167
+
Sbjct: 71 I 71
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 0.133 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,666,406
Number of Sequences: 62578
Number of extensions: 240582
Number of successful extensions: 912
Number of sequences better than 100.0: 94
Number of HSP's better than 100.0 without gapping: 65
Number of HSP's successfully gapped in prelim test: 29
Number of HSP's that attempted gapping in prelim test: 819
Number of HSP's gapped (non-prelim): 101
length of query: 248
length of database: 14,973,337
effective HSP length: 96
effective length of query: 152
effective length of database: 8,965,849
effective search space: 1362809048
effective search space used: 1362809048
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: 50 (23.9 bits)