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= psy4285
(533 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 197 bits (501), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 93/158 (58%), Positives = 118/158 (74%), Gaps = 8/158 (5%)
Query: 289 ESMDLCYKIN-------RFIDENELPHLLFYGPPGTGKTTTILACARKLYTKAQFNAMVL 341
E++D Y N +F+DE +LPHLLFYGPPGTGKT+TI+A AR++Y K ++ MVL
Sbjct: 22 ETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGK-NYSNMVL 80
Query: 342 ELNASDDRGIGIVRDQIFQFASTKTMHKSSYKLIILDEADAMTNDAQNALRRIIEKFTTN 401
ELNASDDRGI +VR+QI FAST+ + +KLIILDEADAMTN AQNALRR+IE++T N
Sbjct: 81 ELNASDDRGIDVVRNQIKDFASTRQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKN 140
Query: 402 VRFCIICNYLSKIPPAIQSRCTRFRFGPLDSSLIMSRL 439
RFC++ NY K+ PA+ S+CTRFRF PL I R+
Sbjct: 141 TRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRI 178
Score = 128 bits (321), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 87/255 (34%), Positives = 124/255 (48%), Gaps = 63/255 (24%)
Query: 103 VEKYRPSTLDELVSHQDIISTIEIPESMLVDLVLKMSDIEYRLAAGTSEKIQLSALIAAF 162
VEKYRP TLDE+ ++I+T+ VD K+ + + GT + + AL
Sbjct: 16 VEKYRPETLDEVYGQNEVITTVR----KFVDEG-KLPHLLFYGPPGTGKTSTIVALAREI 70
Query: 163 NSARDKLEVLELNASDDRGIGIVRDQIFQFASTKTMHKSSYKLIILDEADAMTNDAQNAL 222
VLELNASDDRGI +VR+QI FAST+ + +KLIILDEADAMTN AQNAL
Sbjct: 71 YGKNYSNMVLELNASDDRGIDVVRNQIKDFASTRQIFSKGFKLIILDEADAMTNAAQNAL 130
Query: 223 RR-----------------------------------------------------KLPVT 229
RR KL ++
Sbjct: 131 RRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLVHEKLKLS 190
Query: 230 PDGKKAIIDLSDGDMRKVLNILQSAATA----HADEVNEDTVYNSVGYPTKTEITNILRW 285
P+ +KA+I+LS+GDMR+VLN+LQS DE+++D +Y G P +++ +L+
Sbjct: 191 PNAEKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGAPRPSDLKAVLKS 250
Query: 286 LLNESMDLC-YKINR 299
+L + Y +N+
Sbjct: 251 ILEDDWGTAHYTLNK 265
Score = 116 bits (291), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 70/201 (34%), Positives = 109/201 (54%), Gaps = 40/201 (19%)
Query: 1 IEKFTTNVRFCIICNYLSKITPAIQSRCTRFRFGPLDSSLIMSRLDYVIEQEKVNVTPDG 60
IE++T N RFC++ NY K+TPA+ S+CTRFRF PL I R+ V+ EK+ ++P+
Sbjct: 134 IERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLVHEKLKLSPNA 193
Query: 61 KKAIIDLSDGDMRKVLNILQSAATA----HADEVNEDTIFTLLVSRVEKYRPSTL----- 111
+KA+I+LS+GDMR+VLN+LQS DE+++D I+ + RPS L
Sbjct: 194 EKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGAP----RPSDLKAVLK 249
Query: 112 -----DELVSH------------------QDIISTIE----IPESMLVDLVLKMSDIEYR 144
D +H + I+ +E E V L+ K++DIEY
Sbjct: 250 SILEDDWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEETRVHLLTKLADIEYS 309
Query: 145 LAAGTSEKIQLSALIAAFNSA 165
++ G +++IQ SA+I A ++
Sbjct: 310 ISKGGNDQIQGSAVIGAIKAS 330
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 38/60 (63%), Gaps = 1/60 (1%)
Query: 464 GLALTDILTEISLLVHRLEIP-ESMLVDLVLKMSDIEYRLAAGTSEKIQLSALIAAFNSA 522
GLAL D++ I ++ E+ E V L+ K++DIEY ++ G +++IQ SA+I A ++
Sbjct: 271 GLALIDLIEGIVKILEDYELQNEETRVHLLTKLADIEYSISKGGNDQIQGSAVIGAIKAS 330
>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 = 162 bits (410), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 76/149 (51%), Positives = 102/149 (68%), Gaps = 1/149 (0%)
Query: 293 LCYKINRFIDENELPHLLFYGPPGTGKTTTILACARKLYTKAQFNAMVLELNASDDRGIG 352
+ ++ ++ +PHLLF GPPG GKTT LA AR+L+ + + LELNASD+RGI
Sbjct: 33 IVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGE-NWRHNFLELNASDERGIN 91
Query: 353 IVRDQIFQFASTKTMHKSSYKLIILDEADAMTNDAQNALRRIIEKFTTNVRFCIICNYLS 412
++R+++ +FA TK + +S+K+I LDEADA+T DAQ ALRR +E F++NVRF + CNY S
Sbjct: 92 VIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSS 151
Query: 413 KIPPAIQSRCTRFRFGPLDSSLIMSRLDY 441
KI IQSRC FRF PL I RL Y
Sbjct: 152 KIIEPIQSRCAIFRFRPLRDEDIAKRLRY 180
Score = 107 bits (267), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 67/188 (35%), Positives = 99/188 (52%), Gaps = 26/188 (13%)
Query: 1 IEKFTTNVRFCIICNYLSKITPAIQSRCTRFRFGPLDSSLIMSRLDYVIEQEKVNVTPDG 60
+E F++NVRF + CNY SKI IQSRC FRF PL I RL Y+ E E + +T +G
Sbjct: 134 MEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELTEEG 193
Query: 61 KKAIIDLSDGDMRKVLNILQSAAT----------------AHADEVNEDTIFTL---LVS 101
+AI+ +++GDMR+ +NILQ+AA A +++ E + L +
Sbjct: 194 LQAILYIAEGDMRRAINILQAAAALDKKITDENVFMVASRARPEDIREMMLLALKGNFLK 253
Query: 102 RVEKYRPSTLDELVSHQDIISTIE-------IPESMLVDLVLKMSDIEYRLAAGTSEKIQ 154
EK R L + +S +D++ + I E V L K+ + +RL G +E IQ
Sbjct: 254 AREKLREILLKQGLSGEDVLVQMHKEVFNLPIEEPKKVLLADKIGEYNFRLVEGANEIIQ 313
Query: 155 LSALIAAF 162
L AL+A F
Sbjct: 314 LEALLAQF 321
Score = 91.3 bits (225), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 65/213 (30%), Positives = 100/213 (46%), Gaps = 70/213 (32%)
Query: 103 VEKYRPSTLDELVSHQDIISTIEIPESMLVDLVLKMSDIEYRLAAGTSEKIQLSALIAAF 162
VEKYRP LD++V + I+ ++ +K + + L AG + AA
Sbjct: 16 VEKYRPQRLDDIVGQEHIVKRLK--------HYVKTGSMPHLLFAGPP---GVGKTTAAL 64
Query: 163 NSARD------KLEVLELNASDDRGIGIVRDQIFQFASTKTMHKSSYKLIILDEADAMTN 216
AR+ + LELNASD+RGI ++R+++ +FA TK + +S+K+I LDEADA+T
Sbjct: 65 ALARELFGENWRHNFLELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQ 124
Query: 217 DAQNALRRKL---------------------PV--------------------------- 228
DAQ ALRR + P+
Sbjct: 125 DAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAEN 184
Query: 229 -----TPDGKKAIIDLSDGDMRKVLNILQSAAT 256
T +G +AI+ +++GDMR+ +NILQ+AA
Sbjct: 185 EGLELTEEGLQAILYIAEGDMRRAINILQAAAA 217
Score = 37.0 bits (84), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 22/56 (39%), Positives = 31/56 (55%)
Query: 464 GLALTDILTEISLLVHRLEIPESMLVDLVLKMSDIEYRLAAGTSEKIQLSALIAAF 519
GL+ D+L ++ V L I E V L K+ + +RL G +E IQL AL+A F
Sbjct: 266 GLSGEDVLVQMHKEVFNLPIEEPKKVLLADKIGEYNFRLVEGANEIIQLEALLAQF 321
>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 = 152 bits (385), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 75/147 (51%), Positives = 103/147 (70%), Gaps = 12/147 (8%)
Query: 306 LPHLLFYGPPGTGKTTTILACARKLYTKAQFNAMVLELNASDDRGIGIVRDQIFQFASTK 365
LPH+LFYGPPGTGKT+TILA ++LY + +LELNASD+RGI IVR+++ FA
Sbjct: 58 LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARL- 116
Query: 366 TMHKSS-----------YKLIILDEADAMTNDAQNALRRIIEKFTTNVRFCIICNYLSKI 414
T+ K S YK+IILDEAD+MT DAQ+ALRR +E ++ RFC+ICNY+++I
Sbjct: 117 TVSKPSKHDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRI 176
Query: 415 PPAIQSRCTRFRFGPLDSSLIMSRLDY 441
+ S+C++FRF LD+S + RL +
Sbjct: 177 IDPLASQCSKFRFKALDASNAIDRLRF 203
Score = 76.3 bits (186), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 40/127 (31%), Positives = 70/127 (55%), Gaps = 13/127 (10%)
Query: 1 IEKFTTNVRFCIICNYLSKITPAIQSRCTRFRFGPLDSSLIMSRLDYVIEQEKVNVTPDG 60
+E ++ RFC+ICNY+++I + S+C++FRF LD+S + RL ++ EQE V
Sbjct: 157 METYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDASNAIDRLRFISEQENVKCDDGV 216
Query: 61 KKAIIDLSDGDMRKVLNILQSAA-------------TAHADEVNEDTIFTLLVSRVEKYR 107
+ I+D+S GD+R+ + +LQSA+ + +E+ +L+ VEK +
Sbjct: 217 LERILDISAGDLRRGITLLQSASKGAQYLGDGKNITSTQVEELAGVVPHDILIEIVEKVK 276
Query: 108 PSTLDEL 114
DE+
Sbjct: 277 SGDFDEI 283
Score = 75.9 bits (185), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 56/139 (40%), Positives = 77/139 (55%), Gaps = 24/139 (17%)
Query: 103 VEKYRPSTLDELVSHQDIISTIEIPESMLVDLVLKMSDIEYRLAAGTSEKIQLSALIAA- 161
VEKYRP LDE V+ QD T+ + LK +++ + L G + S ++A
Sbjct: 28 VEKYRPKNLDE-VTAQDHAVTV-------LKKTLKSANLPHMLFYGPPGTGKTSTILALT 79
Query: 162 ---FNSARDKLEVLELNASDDRGIGIVRDQIFQFASTKTMHKSS-----------YKLII 207
+ K +LELNASD+RGI IVR+++ FA T+ K S YK+II
Sbjct: 80 KELYGPDLMKSRILELNASDERGISIVREKVKNFARL-TVSKPSKHDLENYPCPPYKIII 138
Query: 208 LDEADAMTNDAQNALRRKL 226
LDEAD+MT DAQ+ALRR +
Sbjct: 139 LDEADSMTADAQSALRRTM 157
>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 = 145 bits (365), Expect = 8e-35, Method: Compositional matrix adjust.
Identities = 67/148 (45%), Positives = 99/148 (66%), Gaps = 1/148 (0%)
Query: 292 DLCYKINRFIDENELPHLLFYGPPGTGKTTTILACARKLYTKAQFNAMVLELNASDDRGI 351
++ ++ +++ +PHLLF GPPGTGKT T +A AR L+ + + +E+NASD+RGI
Sbjct: 24 EVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGE-NWRDNFIEMNASDERGI 82
Query: 352 GIVRDQIFQFASTKTMHKSSYKLIILDEADAMTNDAQNALRRIIEKFTTNVRFCIICNYL 411
+VR +I +FA T + + +K+I LDEADA+T DAQ ALRR +E ++ + RF + CNY+
Sbjct: 83 DVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYV 142
Query: 412 SKIPPAIQSRCTRFRFGPLDSSLIMSRL 439
S+I IQSRC FRF P+ + RL
Sbjct: 143 SRIIEPIQSRCAVFRFKPVPKEAMKKRL 170
Score = 104 bits (259), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 63/195 (32%), Positives = 104/195 (53%), Gaps = 36/195 (18%)
Query: 1 IEKFTTNVRFCIICNYLSKITPAIQSRCTRFRFGPLDSSLIMSRLDYVIEQEKVNVTPDG 60
+E ++ + RF + CNY+S+I IQSRC FRF P+ + RL + E+E V +T DG
Sbjct: 126 MEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKITEDG 185
Query: 61 KKAIIDLSDGDMRKVLNILQSAATAHADEVNEDTIFTLLVSRVEKYRPSTLDELV----- 115
+A+I +S GD RK +N LQ AA A + V+ DTI+ + + RP + EL+
Sbjct: 186 LEALIYISGGDFRKAINALQGAA-AIGEVVDADTIYQITAT----ARPEEMTELIQTALK 240
Query: 116 -------------------SHQDIIS-------TIEIPESMLVDLVLKMSDIEYRLAAGT 149
S +DI++ ++ I +S+ V L+ K+ ++++RL G
Sbjct: 241 GNFMEARELLDRLMVEYGMSGEDIVAQLFREIISMPIKDSLKVQLIDKLGEVDFRLTEGA 300
Query: 150 SEKIQLSALIAAFNS 164
+E+IQL A +A ++
Sbjct: 301 NERIQLDAYLAYLST 315
Score = 90.9 bits (224), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 74/241 (30%), Positives = 110/241 (45%), Gaps = 71/241 (29%)
Query: 103 VEKYRPSTLDELVSHQDIISTIEIPESMLVDLVLKMSDIEYRLAAGTSEKIQLSALIAAF 162
VEKYRP TLDE+V ++I ++ ++ +I + L +G + + IA
Sbjct: 8 VEKYRPRTLDEVVGQDEVIQRLK--------GYVERKNIPHLLFSGPPGTGKTATAIAL- 58
Query: 163 NSARD------KLEVLELNASDDRGIGIVRDQIFQFASTKTMHKSSYKLIILDEADAMTN 216
ARD + +E+NASD+RGI +VR +I +FA T + + +K+I LDEADA+T
Sbjct: 59 --ARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTA 116
Query: 217 DAQNALRRKL---------------------------------PV--------------- 228
DAQ ALRR + PV
Sbjct: 117 DAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEK 176
Query: 229 -----TPDGKKAIIDLSDGDMRKVLNILQSAATAHADEVNEDTVYNSVGYPTKTEITNIL 283
T DG +A+I +S GD RK +N LQ AA A + V+ DT+Y E+T ++
Sbjct: 177 EGVKITEDGLEALIYISGGDFRKAINALQGAA-AIGEVVDADTIYQITATARPEEMTELI 235
Query: 284 R 284
+
Sbjct: 236 Q 236
Score = 37.7 bits (86), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 37/58 (63%)
Query: 464 GLALTDILTEISLLVHRLEIPESMLVDLVLKMSDIEYRLAAGTSEKIQLSALIAAFNS 521
G++ DI+ ++ + + I +S+ V L+ K+ ++++RL G +E+IQL A +A ++
Sbjct: 258 GMSGEDIVAQLFREIISMPIKDSLKVQLIDKLGEVDFRLTEGANERIQLDAYLAYLST 315
>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 = 144 bits (363), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 67/148 (45%), Positives = 99/148 (66%), Gaps = 1/148 (0%)
Query: 292 DLCYKINRFIDENELPHLLFYGPPGTGKTTTILACARKLYTKAQFNAMVLELNASDDRGI 351
++ ++ +++ +PHLLF GPPGTGKT T +A AR L+ + + +E+NASD+RGI
Sbjct: 24 EVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGE-NWRDNFIEMNASDERGI 82
Query: 352 GIVRDQIFQFASTKTMHKSSYKLIILDEADAMTNDAQNALRRIIEKFTTNVRFCIICNYL 411
+VR +I +FA T + + +K+I LDEADA+T DAQ ALRR +E ++ + RF + CNY+
Sbjct: 83 DVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRTMEMYSKSCRFILSCNYV 142
Query: 412 SKIPPAIQSRCTRFRFGPLDSSLIMSRL 439
S+I IQSRC FRF P+ + RL
Sbjct: 143 SRIIEPIQSRCAVFRFKPVPKEAMKKRL 170
Score = 89.7 bits (221), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 72/226 (31%), Positives = 104/226 (46%), Gaps = 71/226 (31%)
Query: 103 VEKYRPSTLDELVSHQDIISTIEIPESMLVDLVLKMSDIEYRLAAGTSEKIQLSALIAAF 162
VEKYRP TLDE+V ++I ++ ++ +I + L +G + + IA
Sbjct: 8 VEKYRPRTLDEVVGQDEVIQRLK--------GYVERKNIPHLLFSGPPGTGKTATAIAL- 58
Query: 163 NSARD------KLEVLELNASDDRGIGIVRDQIFQFASTKTMHKSSYKLIILDEADAMTN 216
ARD + +E+NASD+RGI +VR +I +FA T + + +K+I LDEADA+T
Sbjct: 59 --ARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTA 116
Query: 217 DAQNALRRKL---------------------------------PV--------------- 228
DAQ ALRR + PV
Sbjct: 117 DAQAALRRTMEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEK 176
Query: 229 -----TPDGKKAIIDLSDGDMRKVLNILQSAATAHADEVNEDTVYN 269
T DG +A+I +S GD RK +N LQ AA A + V+ DT+Y
Sbjct: 177 EGVKITEDGLEALIYISGGDFRKAINALQGAA-AIGEVVDADTIYQ 221
Score = 84.7 bits (208), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 42/98 (42%), Positives = 62/98 (63%), Gaps = 1/98 (1%)
Query: 1 IEKFTTNVRFCIICNYLSKITPAIQSRCTRFRFGPLDSSLIMSRLDYVIEQEKVNVTPDG 60
+E ++ + RF + CNY+S+I IQSRC FRF P+ + RL + E+E V +T DG
Sbjct: 126 MEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKITEDG 185
Query: 61 KKAIIDLSDGDMRKVLNILQSAATAHADEVNEDTIFTL 98
+A+I +S GD RK +N LQ AA A + V+ DTI+ +
Sbjct: 186 LEALIYISGGDFRKAINALQGAA-AIGEVVDADTIYQI 222
>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 = 120 bits (301), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 61/158 (38%), Positives = 94/158 (59%), Gaps = 6/158 (3%)
Query: 296 KINRFIDENELPHLLFYGPPGTGKTTTILACARKLYTKAQFNAMVLELNASDDRGIGIVR 355
++ + + +PH++ G PG GKTT++ A +L ++ + VLELNASDDRGI +VR
Sbjct: 32 RLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSYADG-VLELNASDDRGIDVVR 90
Query: 356 DQIFQFASTK-TMHKSSYKLIILDEADAMTNDAQNALRRIIEKFTTNVRFCIICNYLSKI 414
+QI FA K + +K++ILDEAD+MT AQ ALRR +E ++ + RF CN +KI
Sbjct: 91 NQIKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKI 150
Query: 415 PPAIQSRCTRFRFGPLDSSLIMSRL----DYDDISFFN 448
+QS+C R+ L ++ RL +D+ + N
Sbjct: 151 IEPLQSQCAILRYSKLSDEDVLKRLLQIIKLEDVKYTN 188
Score = 82.8 bits (203), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 72/233 (30%), Positives = 100/233 (42%), Gaps = 60/233 (25%)
Query: 96 FTLLVSRVEKYRPSTLDELVSHQDIISTIEIPESMLVDLVLKMSDIEYRLAAGTSEKIQL 155
+L + VEKYRP L ++V +++ TI+ + + D + I G + +
Sbjct: 5 LSLQLPWVEKYRPQVLSDIVGNKE---TIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHC 61
Query: 156 SALIAAFNSARDKLEVLELNASDDRGIGIVRDQIFQFASTK-TMHKSSYKLIILDEADAM 214
A S D VLELNASDDRGI +VR+QI FA K + +K++ILDEAD+M
Sbjct: 62 LAHELLGRSYADG--VLELNASDDRGIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSM 119
Query: 215 TNDAQNALRRKLPV---------------------------------------------- 228
T AQ ALRR + +
Sbjct: 120 TAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQII 179
Query: 229 -------TPDGKKAIIDLSDGDMRKVLNILQSAATAHADEVNEDTVYNSVGYP 274
T DG +AII ++GDMR+ +N LQS H VN D V+ V P
Sbjct: 180 KLEDVKYTNDGLEAIIFTAEGDMRQAINNLQSTVAGHG-LVNADNVFKIVDSP 231
Score = 75.9 bits (185), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 53/193 (27%), Positives = 92/193 (47%), Gaps = 26/193 (13%)
Query: 1 IEKFTTNVRFCIICNYLSKITPAIQSRCTRFRFGPLDSSLIMSRLDYVIEQEKVNVTPDG 60
+E ++ + RF CN +KI +QS+C R+ L ++ RL +I+ E V T DG
Sbjct: 131 MELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQIIKLEDVKYTNDG 190
Query: 61 KKAIIDLSDGDMRKVLNILQSAATAHADEVNEDTIFT-------------LLVSRVEK-- 105
+AII ++GDMR+ +N LQS H VN D +F LL S +E
Sbjct: 191 LEAIIFTAEGDMRQAINNLQSTVAGHG-LVNADNVFKIVDSPHPLIVKKMLLASNLEDSI 249
Query: 106 --YRPSTLDELVSHQDIIST--------IEIPESMLVDLVLKMSDIEYRLAAGTSEKIQL 155
R + S DI++T ++ ES+ ++++ ++ R+ G +QL
Sbjct: 250 QILRTDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGLTHMRILEGVGTYLQL 309
Query: 156 SALIAAFNSARDK 168
++++A + +K
Sbjct: 310 ASMLAKIHKLNNK 322
>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 = 78.6 bits (192), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 55/191 (28%), Positives = 88/191 (46%), Gaps = 47/191 (24%)
Query: 278 EITNILRWLLNESMDLCYKINRFIDENELPHLLFYGPPGTGKTTTILACARKLYTKAQFN 337
E+TN L+ L ++ DL PHLL YGP GTGK T +A ++ +
Sbjct: 21 ELTNFLKSLSDQPRDL-------------PHLLLYGPNGTGKKTRCMALLESIFGPGVYR 67
Query: 338 AMV------------LELN---------------ASDDRGI------GIVRDQIFQFAST 364
+ LELN ++DR + + + + F +
Sbjct: 68 LKIDVRQFVTASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDS 127
Query: 365 KTMHKSSYKLIILDEADAMTNDAQNALRRIIEKFTTNVRFCIICNYLSKIPPAIQSRCTR 424
K YK +I++EA+++T DAQ ALRR +EK++ N+R ++C+ +S I I+S+C
Sbjct: 128 KDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIAPIKSQCLL 187
Query: 425 FRF-GPLDSSL 434
R P DS +
Sbjct: 188 IRCPAPSDSEI 198
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 47/84 (55%), Gaps = 1/84 (1%)
Query: 1 IEKFTTNVRFCIICNYLSKITPAIQSRCTRFRFGPLDSSLIMSRLDYVIEQEKVNV-TPD 59
+EK++ N+R ++C+ +S I I+S+C R S I + L V+ E++ + T D
Sbjct: 158 MEKYSKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKD 217
Query: 60 GKKAIIDLSDGDMRKVLNILQSAA 83
K I S+G++R L +L+S A
Sbjct: 218 ILKRIAQASNGNLRVSLLMLESMA 241
Score = 34.3 bits (77), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 25/37 (67%), Gaps = 2/37 (5%)
Query: 190 FQFASTKTMHKSSYKLIILDEADAMTNDAQNALRRKL 226
FQ + H+ YK +I++EA+++T DAQ ALRR +
Sbjct: 124 FQDSKDGLAHR--YKCVIINEANSLTKDAQAALRRTM 158
>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 = 61.6 bits (148), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 44/136 (32%), Positives = 69/136 (50%), Gaps = 11/136 (8%)
Query: 303 ENELPHLLFYGP-PGTGKTTTILACARKLYTKAQFNAMVLELNASDDRGIGIVRDQIFQF 361
+ ++PH++ + P PGTGKTT A + NA ++ +N SD + I VR + F
Sbjct: 44 KGKIPHIILHSPSPGTGKTTVAKALCHDV------NADMMFVNGSDCK-IDFVRGPLTNF 96
Query: 362 ASTKTMHKSSYKLIILDEAD-AMTNDAQNALRRIIEKFTTNVRFCIICNYLSKIPPAIQS 420
AS + K+I++DE D + ++Q LR +E +++N I N + I +QS
Sbjct: 97 ASAASF-DGRQKVIVIDEFDRSGLAESQRHLRSFMEAYSSNCSIIITANNIDGIIKPLQS 155
Query: 421 RCTRFRFG-PLDSSLI 435
RC FG P D I
Sbjct: 156 RCRVITFGQPTDEDKI 171
Score = 33.1 bits (74), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 35/128 (27%), Positives = 59/128 (46%), Gaps = 26/128 (20%)
Query: 104 EKYRPSTLDELV-------SHQDIISTIEIPESMLVDLVLKMSDIEYRLAAGTSEKIQLS 156
+KYRPST+DE + + + I S +IP +L + + GT +
Sbjct: 18 QKYRPSTIDECILPAFDKETFKSITSKGKIPHIIL-----------HSPSPGTGKTTVAK 66
Query: 157 ALIAAFNSARDKLEVLELNASDDRGIGIVRDQIFQFASTKTMHKSSYKLIILDEAD-AMT 215
AL N+ +++ +N SD + I VR + FAS + K+I++DE D +
Sbjct: 67 ALCHDVNA-----DMMFVNGSDCK-IDFVRGPLTNFASAASF-DGRQKVIVIDEFDRSGL 119
Query: 216 NDAQNALR 223
++Q LR
Sbjct: 120 AESQRHLR 127
>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 = 45.4 bits (106), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 36/152 (23%), Positives = 66/152 (43%), Gaps = 24/152 (15%)
Query: 310 LFYGPPGTGKTTTILACARKLYTKAQFNAM------------------VLELNASDDRGI 351
LF G G GKT+ A+ L + A ++E++A+ +
Sbjct: 42 LFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKV 101
Query: 352 GIVRDQI--FQFASTKTMHKSSYKLIILDEADAMTNDAQNALRRIIEKFTTNVRFCIICN 409
RD + Q+A + +K+ ++DE ++ + NAL + +E+ +V+F +
Sbjct: 102 EDTRDLLDNVQYAPAR----GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATT 157
Query: 410 YLSKIPPAIQSRCTRFRFGPLDSSLIMSRLDY 441
K+P I SRC +F LD I +L++
Sbjct: 158 DPQKLPVTILSRCLQFHLKALDVEQIRHQLEH 189
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/99 (21%), Positives = 47/99 (47%)
Query: 1 IEKFTTNVRFCIICNYLSKITPAIQSRCTRFRFGPLDSSLIMSRLDYVIEQEKVNVTPDG 60
+E+ +V+F + K+ I SRC +F LD I +L++++ +E + P
Sbjct: 143 LEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRA 202
Query: 61 KKAIIDLSDGDMRKVLNILQSAATAHADEVNEDTIFTLL 99
+ + ++G +R L++ A + +V+ + +L
Sbjct: 203 LQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAML 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 = 45.4 bits (106), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 36/152 (23%), Positives = 66/152 (43%), Gaps = 24/152 (15%)
Query: 310 LFYGPPGTGKTTTILACARKLYTKAQFNAM------------------VLELNASDDRGI 351
LF G G GKT+ A+ L + A ++E++A+ +
Sbjct: 45 LFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKV 104
Query: 352 GIVRDQI--FQFASTKTMHKSSYKLIILDEADAMTNDAQNALRRIIEKFTTNVRFCIICN 409
RD + Q+A + +K+ ++DE ++ + NAL + +E+ +V+F +
Sbjct: 105 EDTRDLLDNVQYAPAR----GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATT 160
Query: 410 YLSKIPPAIQSRCTRFRFGPLDSSLIMSRLDY 441
K+P I SRC +F LD I +L++
Sbjct: 161 DPQKLPVTILSRCLQFHLKALDVEQIRHQLEH 192
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/99 (21%), Positives = 47/99 (47%)
Query: 1 IEKFTTNVRFCIICNYLSKITPAIQSRCTRFRFGPLDSSLIMSRLDYVIEQEKVNVTPDG 60
+E+ +V+F + K+ I SRC +F LD I +L++++ +E + P
Sbjct: 146 LEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRA 205
Query: 61 KKAIIDLSDGDMRKVLNILQSAATAHADEVNEDTIFTLL 99
+ + ++G +R L++ A + +V+ + +L
Sbjct: 206 LQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAML 244
>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 = 45.4 bits (106), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 36/152 (23%), Positives = 66/152 (43%), Gaps = 24/152 (15%)
Query: 310 LFYGPPGTGKTTTILACARKLYTKAQFNAM------------------VLELNASDDRGI 351
LF G G GKT+ A+ L + A ++E++A+ +
Sbjct: 42 LFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKV 101
Query: 352 GIVRDQI--FQFASTKTMHKSSYKLIILDEADAMTNDAQNALRRIIEKFTTNVRFCIICN 409
RD + Q+A + +K+ ++DE ++ + NAL + +E+ +V+F +
Sbjct: 102 EDTRDLLDNVQYAPAR----GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATT 157
Query: 410 YLSKIPPAIQSRCTRFRFGPLDSSLIMSRLDY 441
K+P I SRC +F LD I +L++
Sbjct: 158 DPQKLPVTILSRCLQFHLKALDVEQIRHQLEH 189
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/99 (21%), Positives = 47/99 (47%)
Query: 1 IEKFTTNVRFCIICNYLSKITPAIQSRCTRFRFGPLDSSLIMSRLDYVIEQEKVNVTPDG 60
+E+ +V+F + K+ I SRC +F LD I +L++++ +E + P
Sbjct: 143 LEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRA 202
Query: 61 KKAIIDLSDGDMRKVLNILQSAATAHADEVNEDTIFTLL 99
+ + ++G +R L++ A + +V+ + +L
Sbjct: 203 LQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAML 241
>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 = 45.4 bits (106), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 36/152 (23%), Positives = 66/152 (43%), Gaps = 24/152 (15%)
Query: 310 LFYGPPGTGKTTTILACARKLYTKAQFNAM------------------VLELNASDDRGI 351
LF G G GKT+ A+ L + A ++E++A+ +
Sbjct: 64 LFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKV 123
Query: 352 GIVRDQI--FQFASTKTMHKSSYKLIILDEADAMTNDAQNALRRIIEKFTTNVRFCIICN 409
RD + Q+A + +K+ ++DE ++ + NAL + +E+ +V+F +
Sbjct: 124 EDTRDLLDNVQYAPAR----GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATT 179
Query: 410 YLSKIPPAIQSRCTRFRFGPLDSSLIMSRLDY 441
K+P I SRC +F LD I +L++
Sbjct: 180 DPQKLPVTILSRCLQFHLKALDVEQIRHQLEH 211
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/99 (21%), Positives = 47/99 (47%)
Query: 1 IEKFTTNVRFCIICNYLSKITPAIQSRCTRFRFGPLDSSLIMSRLDYVIEQEKVNVTPDG 60
+E+ +V+F + K+ I SRC +F LD I +L++++ +E + P
Sbjct: 165 LEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRA 224
Query: 61 KKAIIDLSDGDMRKVLNILQSAATAHADEVNEDTIFTLL 99
+ + ++G +R L++ A + +V+ + +L
Sbjct: 225 LQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAML 263
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 45.1 bits (105), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 42/148 (28%), Positives = 66/148 (44%), Gaps = 40/148 (27%)
Query: 309 LLFYGPPGTGKTTTILACARKLYTKAQFNAMVLELNASD------DRGIGIVRDQIFQFA 362
+L YGPPGTGKT + A A TKA F + +N S+ G +VRD +F+ A
Sbjct: 209 VLLYGPPGTGKTMLVKAVANS--TKAAF----IRVNGSEFVHKYLGEGPRMVRD-VFRLA 261
Query: 363 STKTMHKSSYKLIILDEADAMTN---DAQNALRRIIEKF-------------TTNVRFCI 406
+++ +I +DE D++ DAQ R +++ +TNV+ +
Sbjct: 262 -----RENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKVIM 316
Query: 407 ICNYLSKIPPAIQSRCTRFRFGPLDSSL 434
N + PA+ R G LD +
Sbjct: 317 ATNRADTLDPAL------LRPGRLDRKI 338
>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 = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 36/152 (23%), Positives = 66/152 (43%), Gaps = 24/152 (15%)
Query: 310 LFYGPPGTGKTTTILACARKLYTKAQFNAM------------------VLELNASDDRGI 351
LF G G GKT+ A+ L + A ++E++A+ +
Sbjct: 64 LFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKV 123
Query: 352 GIVRDQI--FQFASTKTMHKSSYKLIILDEADAMTNDAQNALRRIIEKFTTNVRFCIICN 409
RD + Q+A + +K+ ++DE ++ + NAL + +E+ +V+F +
Sbjct: 124 EDTRDLLDNVQYAPAR----GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATA 179
Query: 410 YLSKIPPAIQSRCTRFRFGPLDSSLIMSRLDY 441
K+P I SRC +F LD I +L++
Sbjct: 180 DPQKLPVTILSRCLQFHLKALDVEQIRHQLEH 211
Score = 39.3 bits (90), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/99 (21%), Positives = 47/99 (47%)
Query: 1 IEKFTTNVRFCIICNYLSKITPAIQSRCTRFRFGPLDSSLIMSRLDYVIEQEKVNVTPDG 60
+E+ +V+F + K+ I SRC +F LD I +L++++ +E + P
Sbjct: 165 LEEPPEHVKFLLATADPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRA 224
Query: 61 KKAIIDLSDGDMRKVLNILQSAATAHADEVNEDTIFTLL 99
+ + ++G +R L++ A + +V+ + +L
Sbjct: 225 LQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAML 263
>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 = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 36/152 (23%), Positives = 66/152 (43%), Gaps = 24/152 (15%)
Query: 310 LFYGPPGTGKTTTILACARKLYTKAQFNAM------------------VLELNASDDRGI 351
LF G G GKT+ A+ L + A ++E++A+ +
Sbjct: 49 LFSGTRGVGKTSIARLLAKGLNCETGITATPCGVCDNCREIEQGRFVDLIEIDAASRTKV 108
Query: 352 GIVRDQI--FQFASTKTMHKSSYKLIILDEADAMTNDAQNALRRIIEKFTTNVRFCIICN 409
RD + Q+A + +K+ ++DE ++ + NAL + +E+ +V+F +
Sbjct: 109 EDTRDLLDNVQYAPAR----GRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATT 164
Query: 410 YLSKIPPAIQSRCTRFRFGPLDSSLIMSRLDY 441
K+P I SRC +F LD I +L++
Sbjct: 165 DPQKLPVTILSRCLQFHLKALDVEQIRHQLEH 196
Score = 38.9 bits (89), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 21/99 (21%), Positives = 47/99 (47%)
Query: 1 IEKFTTNVRFCIICNYLSKITPAIQSRCTRFRFGPLDSSLIMSRLDYVIEQEKVNVTPDG 60
+E+ +V+F + K+ I SRC +F LD I +L++++ +E + P
Sbjct: 150 LEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRA 209
Query: 61 KKAIIDLSDGDMRKVLNILQSAATAHADEVNEDTIFTLL 99
+ + ++G +R L++ A + +V+ + +L
Sbjct: 210 LQLLARAAEGSLRDALSLTDQAIASGDGQVSTQAVSAML 248
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 42.4 bits (98), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 32/80 (40%), Positives = 38/80 (47%), Gaps = 18/80 (22%)
Query: 310 LFYGPPGTGKTTTILACARKLYTKAQFNAMVLELNASD------DRGIGIVRDQIFQFAS 363
L YGPPGTGKT ACA AQ NA L+L A G +VRD F A
Sbjct: 219 LMYGPPGTGKTLLARACA------AQTNATFLKLAAPQLVQMYIGEGAKLVRD-AFALAK 271
Query: 364 TKTMHKSSYKLIILDEADAM 383
K + +I +DE DA+
Sbjct: 272 EK-----APTIIFIDELDAI 286
>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 = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 41/145 (28%), Positives = 63/145 (43%), Gaps = 22/145 (15%)
Query: 310 LFYGPPGTGKTTTILACARKLYTKAQFNAMVLELNASDDR-------GIGIVRDQI---- 358
+ YGPPG GKTT A++L +LE NASD R G+ D +
Sbjct: 81 MLYGPPGIGKTTAAHLVAQELGYD------ILEQNASDVRSKTLLNAGVKNALDNMSVVG 134
Query: 359 -FQFASTKTMHKSSYKLIILDEADAMTNDAQNALRRIIEKF-TTNVRFCIICN--YLSKI 414
F+ + +II+DE D M+ + + ++ + T+ +ICN L K+
Sbjct: 135 YFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNLPKM 194
Query: 415 PPAIQSRCTRFRFGPLDSSLIMSRL 439
P C +F D++ I SRL
Sbjct: 195 RP-FDRVCLDIQFRRPDANSIKSRL 218
Score = 33.9 bits (76), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 40/76 (52%), Gaps = 3/76 (3%)
Query: 6 TNVRFCIICN--YLSKITPAIQSRCTRFRFGPLDSSLIMSRLDYVIEQEKVNVTPDGKKA 63
T+ +ICN L K+ P C +F D++ I SRL + +EK + P+
Sbjct: 178 TSTPLILICNERNLPKMRP-FDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNVIDR 236
Query: 64 IIDLSDGDMRKVLNIL 79
+I + GD+R+V+N+L
Sbjct: 237 LIQTTRGDIRQVINLL 252
>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 = 37.7 bits (86), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 31/85 (36%), Positives = 43/85 (50%), Gaps = 10/85 (11%)
Query: 309 LLFYGPPGTGKTTTILACARKLYTKAQFNAMVLE--LNASDDRGIGIVRDQIFQFASTKT 366
+L YGPPGTGK T+LA A T A F +V + G +V+D IF+ A K
Sbjct: 54 ILLYGPPGTGK--TLLAKAVATETNATFIRVVGSELVKKFIGEGASLVKD-IFKLAKEK- 109
Query: 367 MHKSSYKLIILDEADAMTNDAQNAL 391
+ +I +DE DA+ +AL
Sbjct: 110 ----APSIIFIDEIDAIAAKRTDAL 130
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 37.7 bits (86), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 51/116 (43%), Gaps = 16/116 (13%)
Query: 287 LNESMDLCYKINRFIDENELP--HLLFYGPPGTGKTTTILACARKLYTKAQFNAMVLELN 344
L E++ L K N P +L YGPPGTGK+ A A + N+ ++
Sbjct: 39 LKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVA------TEANSTFFSVS 92
Query: 345 ASD--DRGIGIVRDQIFQFASTKTMHKSSYKLIILDEADAMTN----DAQNALRRI 394
+SD + +G + Q + +K S +I +DE DA+T A RRI
Sbjct: 93 SSDLVSKWMGESEKLVKQLFAMARENKPS--IIFIDEVDALTGTRGEGESEASRRI 146
>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 = 37.4 bits (85), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 17/32 (53%), Positives = 21/32 (65%)
Query: 309 LLFYGPPGTGKTTTILACARKLYTKAQFNAMV 340
+L GPPGTGKT LA A++L +K F MV
Sbjct: 66 VLLAGPPGTGKTALALAIAQELGSKVPFCPMV 97
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 36.6 bits (83), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 54/116 (46%), Gaps = 16/116 (13%)
Query: 287 LNESMDLCYKINRFIDENELP--HLLFYGPPGTGKTTTILACARKLYTKAQFNAMVLELN 344
L E++ L K N P +L YGPPGTGK+ A+ + T+A N+ ++
Sbjct: 30 LKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSY----LAKAVATEA--NSTFFSVS 83
Query: 345 ASD--DRGIGIVRDQIFQFASTKTMHKSSYKLIILDEADAMTN----DAQNALRRI 394
+SD + +G + Q + +K S +I +D+ DA+T A RRI
Sbjct: 84 SSDLVSKWMGESEKLVKQLFAMARENKPS--IIFIDQVDALTGTRGEGESEASRRI 137
>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 = 35.8 bits (81), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 33/116 (28%), Positives = 51/116 (43%), Gaps = 16/116 (13%)
Query: 287 LNESMDLCYKINRFIDENELP--HLLFYGPPGTGKTTTILACARKLYTKAQFNAMVLELN 344
L E++ L K N P +L YGPPGTGK+ A A + N+ ++
Sbjct: 63 LKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVA------TEANSTFFSVS 116
Query: 345 ASD--DRGIGIVRDQIFQFASTKTMHKSSYKLIILDEADAMTN----DAQNALRRI 394
+SD + +G + Q + +K S +I +D+ DA+T A RRI
Sbjct: 117 SSDLVSKWMGESEKLVKQLFAMARENKPS--IIFIDQVDALTGTRGEGESEASRRI 170
>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 = 35.8 bits (81), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 33/116 (28%), Positives = 51/116 (43%), Gaps = 16/116 (13%)
Query: 287 LNESMDLCYKINRFIDENELP--HLLFYGPPGTGKTTTILACARKLYTKAQFNAMVLELN 344
L E++ L K N P +L YGPPGTGK+ A A + N+ ++
Sbjct: 48 LKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVA------TEANSTFFSVS 101
Query: 345 ASD--DRGIGIVRDQIFQFASTKTMHKSSYKLIILDEADAMTN----DAQNALRRI 394
+SD + +G + Q + +K S +I +D+ DA+T A RRI
Sbjct: 102 SSDLVSKWMGESEKLVKQLFAMARENKPS--IIFIDQVDALTGTRGEGESEASRRI 155
>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 = 35.0 bits (79), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 20/32 (62%)
Query: 309 LLFYGPPGTGKTTTILACARKLYTKAQFNAMV 340
+L GPPGTGKT LA A++L +K F V
Sbjct: 80 VLLAGPPGTGKTALALAIAQELGSKVPFCPXV 111
>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 = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 45/101 (44%), Gaps = 9/101 (8%)
Query: 299 RFIDENELPHLLFYGPPGTGKTTTILACARKLYTKAQFNAMVLELNASDDRGIGIVRDQI 358
R I+ L ++ +GPPGTGKTT AR NA V ++A G+ +R+ I
Sbjct: 43 RAIEAGHLHSMILWGPPGTGKTTLAEVIARYA------NADVERISAVTS-GVKEIREAI 95
Query: 359 FQFASTKTMHKSSYKLIILDEADAMTNDAQNALRRIIEKFT 399
+ + + + ++ +DE Q+A IE T
Sbjct: 96 ERARQNRNAGRRT--ILFVDEVHRFNKSQQDAFLPHIEDGT 134
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 34.3 bits (77), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 40/83 (48%), Gaps = 18/83 (21%)
Query: 309 LLFYGPPGTGKTTTILACARKLYTKAQFNAMVLELNASD------DRGIGIVRDQIFQFA 362
+L YGPPGTGKT CAR + + +A + + S+ G +VR ++F+ A
Sbjct: 246 ILLYGPPGTGKTL----CARAVANRT--DATFIRVIGSELVQKYVGEGARMVR-ELFEMA 298
Query: 363 STKTMHKSSYKLIILDEADAMTN 385
TK +I DE DA+
Sbjct: 299 RTKKAC-----IIFFDEIDAVGG 316
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 33.1 bits (74), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 34/135 (25%), Positives = 64/135 (47%), Gaps = 23/135 (17%)
Query: 287 LNESMDLCYKINRFIDENELPH--LLFYGPPGTGKTTTILACARKLYTKAQFNAMVLELN 344
L E++ L K P +L +GPPGTGK+ A+ + T+A N+ ++
Sbjct: 24 LKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSY----LAKAVATEAN-NSTFFSIS 78
Query: 345 ASD--DRGIG----IVRDQIFQFASTKTMHKSSYKLIILDEADAM----TNDAQNALRRI 394
+SD + +G +V++ +FQ A ++ +I +DE D++ + + A RRI
Sbjct: 79 SSDLVSKWLGESEKLVKN-LFQLA-----RENKPSIIFIDEIDSLCGSRSENESEAARRI 132
Query: 395 IEKFTTNVRFCIICN 409
+F ++ + N
Sbjct: 133 KTEFLVQMQGVGVDN 147
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 32.7 bits (73), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 16/25 (64%)
Query: 306 LPHLLFYGPPGTGKTTTILACARKL 330
L HLL +GPPG GKTT A +L
Sbjct: 38 LEHLLLFGPPGLGKTTLAHVIAHEL 62
>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 = 32.7 bits (73), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 27/81 (33%), Positives = 38/81 (46%), Gaps = 18/81 (22%)
Query: 309 LLFYGPPGTGKTTTILACARKLYT------KAQFNAMVLELNASDDRGIGIVRDQIFQFA 362
+L GPPGTGKT A A + + + F M + L AS VRD +F+
Sbjct: 47 VLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEMFVGLGASR------VRD-LFE-- 97
Query: 363 STKTMHKSSYKLIILDEADAM 383
T K + +I +DE DA+
Sbjct: 98 ---TAKKQAPSIIFIDEIDAI 115
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 32.3 bits (72), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 16/25 (64%)
Query: 306 LPHLLFYGPPGTGKTTTILACARKL 330
L HLL +GPPG GKTT A +L
Sbjct: 38 LEHLLLFGPPGLGKTTLAHVIAHEL 62
>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 = 32.3 bits (72), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 29/111 (26%), Positives = 57/111 (51%), Gaps = 21/111 (18%)
Query: 309 LLFYGPPGTGKTTTILACARKLYTKAQFNAMVLELNASD--DRGIG----IVRDQIFQFA 362
+L +GPPGTGK+ A+ + T+A N+ +++SD + +G +V++ +FQ A
Sbjct: 170 ILLFGPPGTGKSY----LAKAVATEAN-NSTFFSISSSDLVSKWLGESEKLVKN-LFQLA 223
Query: 363 STKTMHKSSYKLIILDEADAM----TNDAQNALRRIIEKFTTNVRFCIICN 409
++ +I +DE D++ + + A RRI +F ++ + N
Sbjct: 224 -----RENKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGVDN 269
>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 = 32.3 bits (72), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 16/25 (64%)
Query: 306 LPHLLFYGPPGTGKTTTILACARKL 330
L HLL +GPPG GKTT A +L
Sbjct: 38 LEHLLLFGPPGLGKTTLAHVIAHEL 62
>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 = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 10/15 (66%), Positives = 14/15 (93%)
Query: 310 LFYGPPGTGKTTTIL 324
+ +GPPGTGKTTT++
Sbjct: 209 IIHGPPGTGKTTTVV 223
>pdb|4B3F|X Chain X, Crystal Structure Of 1ghmbp2 Helicase
Length = 646
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 10/15 (66%), Positives = 14/15 (93%)
Query: 310 LFYGPPGTGKTTTIL 324
+ +GPPGTGKTTT++
Sbjct: 209 IIHGPPGTGKTTTVV 223
>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 = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 41/87 (47%), Gaps = 12/87 (13%)
Query: 307 PHLLFYGPPGTGKTTTILACARKLYTKAQFNAMVLELNASDDRG-----IGIVRDQIFQF 361
P L GPPG GKT+ + A+ L K ++ + S+ RG +G + +I Q
Sbjct: 109 PILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIRGHRRTYVGAMPGRIIQ- 167
Query: 362 ASTKTMHKSSY--KLIILDEADAMTND 386
M K+ + +LDE D M++D
Sbjct: 168 ----GMKKAGKLNPVFLLDEIDKMSSD 190
>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
Length = 334
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 16/27 (59%)
Query: 306 LPHLLFYGPPGTGKTTTILACARKLYT 332
L H+L GPPG GKTT A +L T
Sbjct: 51 LDHVLLAGPPGLGKTTLAHIIASELQT 77
>pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant
Length = 334
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 16/27 (59%)
Query: 306 LPHLLFYGPPGTGKTTTILACARKLYT 332
L H+L GPPG GKTT A +L T
Sbjct: 51 LDHVLLAGPPGLGKTTLAHIIASELQT 77
>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
Length = 334
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 16/27 (59%)
Query: 306 LPHLLFYGPPGTGKTTTILACARKLYT 332
L H+L GPPG GKTT A +L T
Sbjct: 51 LDHVLLAGPPGLGKTTLAHIIASELQT 77
>pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
Length = 334
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 16/27 (59%)
Query: 306 LPHLLFYGPPGTGKTTTILACARKLYT 332
L H+L GPPG GKTT A +L T
Sbjct: 51 LDHVLLAGPPGLGKTTLAHIIASELQT 77
>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
Migration Motor
Length = 334
Score = 30.8 bits (68), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 16/27 (59%)
Query: 306 LPHLLFYGPPGTGKTTTILACARKLYT 332
L H+L GPPG GKTT A +L T
Sbjct: 51 LDHVLLAGPPGLGKTTLAHIIASELQT 77
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 40/81 (49%), Gaps = 18/81 (22%)
Query: 309 LLFYGPPGTGKTTTILACARKLYTKAQFNAMVLELNASD--DRGIG----IVRDQIFQFA 362
+L YGPPGTGKT A A A A + AS D+ IG I+R ++F +A
Sbjct: 218 VLLYGPPGTGKTLLAKAVA------ATIGANFIFSPASGIVDKYIGESARIIR-EMFAYA 270
Query: 363 STKTMHKSSYKLIILDEADAM 383
H+ +I +DE DA+
Sbjct: 271 KE---HEPC--IIFMDEVDAI 286
>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 = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 13/19 (68%)
Query: 309 LLFYGPPGTGKTTTILACA 327
+L YGPPGTGKT A A
Sbjct: 241 ILLYGPPGTGKTLIARAVA 259
>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 = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 13/19 (68%)
Query: 309 LLFYGPPGTGKTTTILACA 327
+L YGPPGTGKT A A
Sbjct: 241 ILLYGPPGTGKTLIARAVA 259
>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 = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 13/19 (68%)
Query: 309 LLFYGPPGTGKTTTILACA 327
+L YGPPGTGKT A A
Sbjct: 241 ILLYGPPGTGKTLIARAVA 259
>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 = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 13/19 (68%)
Query: 309 LLFYGPPGTGKTTTILACA 327
+L YGPPGTGKT A A
Sbjct: 241 ILLYGPPGTGKTLIARAVA 259
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 13/19 (68%)
Query: 309 LLFYGPPGTGKTTTILACA 327
+L YGPPGTGKT A A
Sbjct: 241 ILLYGPPGTGKTLIARAVA 259
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 13/19 (68%)
Query: 309 LLFYGPPGTGKTTTILACA 327
+LFYGPPG GKT A A
Sbjct: 514 VLFYGPPGCGKTLLAKAIA 532
>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 = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 13/19 (68%)
Query: 309 LLFYGPPGTGKTTTILACA 327
+L YGPPGTGKT A A
Sbjct: 241 ILLYGPPGTGKTLIARAVA 259
Score = 30.0 bits (66), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 13/19 (68%)
Query: 309 LLFYGPPGTGKTTTILACA 327
+LFYGPPG GKT A A
Sbjct: 514 VLFYGPPGCGKTLLAKAIA 532
>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 = 29.6 bits (65), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 13/19 (68%)
Query: 309 LLFYGPPGTGKTTTILACA 327
+LFYGPPG GKT A A
Sbjct: 52 VLFYGPPGCGKTLLAKAIA 70
>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 = 29.6 bits (65), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 18/30 (60%), Gaps = 2/30 (6%)
Query: 304 NELP--HLLFYGPPGTGKTTTILACARKLY 331
+E P H+ F G PGTGKTT L A L+
Sbjct: 63 HETPTLHMSFTGNPGTGKTTVALKMAGLLH 92
>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 = 29.6 bits (65), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 37/135 (27%), Positives = 56/135 (41%), Gaps = 22/135 (16%)
Query: 255 ATAHADEVNEDTVYNSVGYPTKT--EITNILRWLLNESMDLCYKINRFIDENELPHLLFY 312
AT + N+ + VG + E+ ++ +L + S K NR I +L
Sbjct: 2 ATMYKPSGNKRVTFKDVGGAEEAIEELKEVVEFLKDPS-----KFNR-IGARMPKGILLV 55
Query: 313 GPPGTGKTTTILACARKLYTKAQFNAMVLELNASD----DRGIGIVRDQIFQFASTKTMH 368
GPPGTGKT A A + N ++ SD G+G R + FA K H
Sbjct: 56 GPPGTGKTLLARAVA------GEANVPFFHISGSDFVELFVGVGAARVRDL-FAQAKA-H 107
Query: 369 KSSYKLIILDEADAM 383
++ +DE DA+
Sbjct: 108 APC--IVFIDEIDAV 120
>pdb|1IN6|A Chain A, Thermotoga Maritima Ruvb K64r Mutant
Length = 334
Score = 29.6 bits (65), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 16/27 (59%)
Query: 306 LPHLLFYGPPGTGKTTTILACARKLYT 332
L H+L GPPG G+TT A +L T
Sbjct: 51 LDHVLLAGPPGLGRTTLAHIIASELQT 77
>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 = 29.6 bits (65), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 18/30 (60%), Gaps = 2/30 (6%)
Query: 304 NELP--HLLFYGPPGTGKTTTILACARKLY 331
+E P H+ F G PGTGKTT L A L+
Sbjct: 56 HETPTLHMSFTGNPGTGKTTVALKMAGLLH 85
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
0.320 0.135 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,722,867
Number of Sequences: 62578
Number of extensions: 514319
Number of successful extensions: 1826
Number of sequences better than 100.0: 72
Number of HSP's better than 100.0 without gapping: 44
Number of HSP's successfully gapped in prelim test: 28
Number of HSP's that attempted gapping in prelim test: 1707
Number of HSP's gapped (non-prelim): 127
length of query: 533
length of database: 14,973,337
effective HSP length: 103
effective length of query: 430
effective length of database: 8,527,803
effective search space: 3666955290
effective search space used: 3666955290
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)