RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17062
(520 letters)
>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1;
winged-helix domain, helix-turn-helix, AAA+ ATPase
domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A
{Sulfolobus solfataricus}
Length = 386
Score = 189 bits (482), Expect = 2e-55
Identities = 56/229 (24%), Positives = 101/229 (44%), Gaps = 10/229 (4%)
Query: 122 STPLQLARESLHLSRVPESLPCREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATV 181
+ + + RE L +P+ LP RE + + I L + ++I G+ GTGKTA V
Sbjct: 3 MSSIFINREYLLPDYIPDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVV 62
Query: 182 HAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRIL-ELLLNVDAPPEQAKAMLERHFTR 240
V+ KL ++ KF +V +N I P R + +L L + V + R
Sbjct: 63 KFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKA 122
Query: 241 P---HGPCVLLIDELDYLCNKR-QDVIYNILE-YLNKPKSRLIILCIANTMDLPERTLKG 295
V+++DE+D K D++Y + KS++ + I N + + L
Sbjct: 123 VRDYGSQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVDL-LDP 181
Query: 296 KVSSRMGLTRLMFKPYDHHQLQEIVQNRLK---NNNCFHPDAVQLVARL 341
+V S + ++F PY+ +L++I+ R + + ++L A L
Sbjct: 182 RVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAAL 230
Score = 95.1 bits (236), Expect = 2e-21
Identities = 24/75 (32%), Positives = 38/75 (50%)
Query: 446 STPLQLARESLHLSRVPESLPCREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATV 505
+ + + RE L +P+ LP RE + + I L + ++I G+ GTGKTA V
Sbjct: 3 MSSIFINREYLLPDYIPDELPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVV 62
Query: 506 HAVMRKLKQEIGDKF 520
V+ KL ++ KF
Sbjct: 63 KFVLSKLHKKFLGKF 77
>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR
complex, HMR, HML, TELO AAA+ domain, structural,
nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}
Length = 318
Score = 184 bits (467), Expect = 3e-54
Identities = 38/213 (17%), Positives = 81/213 (38%), Gaps = 10/213 (4%)
Query: 121 PSTPLQLARESLHLSRVPESLPCREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTAT 180
P+ + L + E L + +F I + + S YI+ + K
Sbjct: 2 PNADINLEESIRESLQKRELLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQL 61
Query: 181 VHAVMRKLKQEIGDK----FVYVEMNALSIPEPKRAYSRILELLLNVDAPPEQAKAMLER 236
V+ VM +L K F Y+ ++AL + Y +I + + + + L
Sbjct: 62 VNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKIWFAISKENLCGDISLEALNF 121
Query: 237 HFTR----PHGPCVLLIDELDYLCNKRQDVIYNILEYLNKPKSRLIILCIANTMDLPERT 292
+ T ++LI + L + + ++ ++++ S+L I+C+
Sbjct: 122 YITNVPKAKKRKTLILIQNPENLLS--EKILQYFEKWISSKNSKLSIICVGGHNVTIREQ 179
Query: 293 LKGKVSSRMGLTRLMFKPYDHHQLQEIVQNRLK 325
+ S + T + D ++LQ+++ RLK
Sbjct: 180 INIMPSLKAHFTEIKLNKVDKNELQQMIITRLK 212
Score = 76.9 bits (188), Expect = 1e-15
Identities = 15/75 (20%), Positives = 26/75 (34%)
Query: 445 PSTPLQLARESLHLSRVPESLPCREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTAT 504
P+ + L + E L + +F I + + S YI+ + K
Sbjct: 2 PNADINLEESIRESLQKRELLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQL 61
Query: 505 VHAVMRKLKQEIGDK 519
V+ VM +L K
Sbjct: 62 VNDVMDELITSSARK 76
>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA
replication initation factor, cell cycle control factor;
HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11
c.37.1.20
Length = 389
Score = 171 bits (434), Expect = 1e-48
Identities = 45/223 (20%), Positives = 81/223 (36%), Gaps = 13/223 (5%)
Query: 129 RESLHLSRVPESLPCREAEFQSIHRFLLSKISQ--STTGCMYISGVPGTGKTATVHAVMR 186
S VP+ LP RE + Q + L + + + G PGTGKT T+ +
Sbjct: 7 DSVFSPSYVPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWE 66
Query: 187 KLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDA----PPEQAKAMLERHFTRPH 242
K + +FVY+ N I L ++ A+L H
Sbjct: 67 LYKDKTTARFVYI--NGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERD 124
Query: 243 GPCVLLIDELDYLCNKRQDVIYNILEYLNK-PKSRLIILCIANTMDLPERTLKGKVSSRM 301
L++D+ L + + +K R+ ++ + + + L M
Sbjct: 125 LYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNN-LDPSTRGIM 183
Query: 302 GLTRLMFKPYDHHQLQEIVQNRLKN---NNCFHPDAVQLVARL 341
G + F PY Q+ +I+ +R K + D +Q++A +
Sbjct: 184 GKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADI 226
Score = 85.6 bits (211), Expect = 3e-18
Identities = 19/70 (27%), Positives = 29/70 (41%), Gaps = 2/70 (2%)
Query: 453 RESLHLSRVPESLPCREAEFQSIHRFLLSKISQ--STTGCMYISGVPGTGKTATVHAVMR 510
S VP+ LP RE + Q + L + + + G PGTGKT T+ +
Sbjct: 7 DSVFSPSYVPKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWE 66
Query: 511 KLKQEIGDKF 520
K + +F
Sbjct: 67 LYKDKTTARF 76
>2v1u_A Cell division control protein 6 homolog; DNA replication,
nucleotide-binding, replication, archaea; HET: ADP;
3.10A {Aeropyrum pernix}
Length = 387
Score = 168 bits (426), Expect = 2e-47
Identities = 64/233 (27%), Positives = 105/233 (45%), Gaps = 15/233 (6%)
Query: 123 TPLQLARESLHLSRVPESLPCREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVH 182
+ + R L VP+ LP REAE + + L + + G+ GTGKTA
Sbjct: 3 SKIFRKRWVLLPDYVPDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVAR 62
Query: 183 AVMRKLKQ---EIGDKFVYVEMNALSIPEPKRAYSRILELL-LNVDAPPEQAKAMLERHF 238
V+R+L+ +G + +NA P R S I E + + V + ER
Sbjct: 63 LVLRRLEARASSLGVLVKPIYVNARHRETPYRVASAIAEAVGVRVPFTGLSVGEVYERLV 122
Query: 239 TRP---HGPCVLLIDELDYLCNKR--QDVIYNILEYLNKPKS--RLIILCIANTMDLPER 291
R G ++++DE+D+L + QD++Y I + + ++ I N++ E
Sbjct: 123 KRLSRLRGIYIIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNSLGFVEN 182
Query: 292 TLKGKVSSRMGLTRLMFKPYDHHQLQEIVQNRLK---NNNCFHPDAVQLVARL 341
L+ +V S +G L+F PY QL++I++ R + N PD V L A L
Sbjct: 183 -LEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAAL 234
Score = 80.6 bits (198), Expect = 1e-16
Identities = 21/69 (30%), Positives = 32/69 (46%)
Query: 447 TPLQLARESLHLSRVPESLPCREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVH 506
+ + R L VP+ LP REAE + + L + + G+ GTGKTA
Sbjct: 3 SKIFRKRWVLLPDYVPDVLPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVAR 62
Query: 507 AVMRKLKQE 515
V+R+L+
Sbjct: 63 LVLRRLEAR 71
>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3;
winged-helix domain, helix-turn-helix, AAA+ ATPase
domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A
{Sulfolobus solfataricus}
Length = 384
Score = 165 bits (419), Expect = 2e-46
Identities = 37/231 (16%), Positives = 88/231 (38%), Gaps = 16/231 (6%)
Query: 123 TPLQLARESLHLSRVPESLPCREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVH 182
++ + + V + +P RE + + + G+ GTGKT
Sbjct: 4 EVIKNPKVFIDPLSVFKEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSK 63
Query: 183 AVMRKLK-----QEIGDKFVYVEMNALSIP-EPKRAYSRILELLLNVDAPPE--QAKAML 234
+ +++ E +N + P+ S + L P +
Sbjct: 64 YIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYI 123
Query: 235 ERHFTRPHG-PCVLLIDELDYLCNKRQDVIYNILEYLNKPKSRLIILCIANTMDLPERTL 293
++ ++ +DE+D L +R +L L + + + ++ I+N +++ + +
Sbjct: 124 DKIKNGTRNIRAIIYLDEVDTLVKRRGG--DIVLYQLLRSDANISVIMISNDINVRDY-M 180
Query: 294 KGKVSSRMGLTRLMFKPYDHHQLQEIVQNRLK---NNNCFHPDAVQLVARL 341
+ +V S +G ++FKPYD QL+ I+ + + + + +A +
Sbjct: 181 EPRVLSSLG-PSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAI 230
Score = 90.6 bits (224), Expect = 7e-20
Identities = 10/69 (14%), Positives = 25/69 (36%)
Query: 447 TPLQLARESLHLSRVPESLPCREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVH 506
++ + + V + +P RE + + + G+ GTGKT
Sbjct: 4 EVIKNPKVFIDPLSVFKEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSK 63
Query: 507 AVMRKLKQE 515
+ ++++
Sbjct: 64 YIFNEIEEV 72
>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA
replication initiation, DNA BIND protein, AAA+ ATPase;
HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11
c.37.1.20 PDB: 1w5t_A*
Length = 412
Score = 135 bits (339), Expect = 5e-35
Identities = 38/238 (15%), Positives = 86/238 (36%), Gaps = 26/238 (10%)
Query: 129 RESLHLSRVPESLPCREAEFQSIHRFLLSKISQSTTG-----CMYISGVPGTGKTATVHA 183
R + +P L R E +++ R L+++ G G GKT
Sbjct: 12 RRVFDENYIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKF 71
Query: 184 VMRKLKQ---EIGDKFVYVEMNALSIPEPKRAYSRILELL----LNVDAPPEQAKAMLER 236
++++ + + G +NA + P S I+ AP L
Sbjct: 72 TVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVD 131
Query: 237 HFTRPHGPCVLLIDELDYLCNKRQD---VIYNILE-----YLNKPKSRLIILCIANTMDL 288
+ + ++++DE + + + +Y +L +R+ L +A+ +
Sbjct: 132 NLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASDVRA 191
Query: 289 PER--TLKGKVSSRMGLTRLMFKPYDHHQLQEIVQNRLKN---NNCFHPDAVQLVARL 341
+V S++G +L Y +L I++ R + + + P ++L++ +
Sbjct: 192 LSYMREKIPQVESQIG-FKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDV 248
Score = 65.7 bits (159), Expect = 1e-11
Identities = 12/68 (17%), Positives = 25/68 (36%), Gaps = 5/68 (7%)
Query: 453 RESLHLSRVPESLPCREAEFQSIHRFLLSKISQSTTG-----CMYISGVPGTGKTATVHA 507
R + +P L R E +++ R L+++ G G GKT
Sbjct: 12 RRVFDENYIPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKF 71
Query: 508 VMRKLKQE 515
++++ +
Sbjct: 72 TVKRVSEA 79
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 91.1 bits (225), Expect = 2e-19
Identities = 77/554 (13%), Positives = 152/554 (27%), Gaps = 152/554 (27%)
Query: 54 EKEENHVIGKLDTAPVENLRPRSL------KSTKKSQHATPSSHKPNVSTPSSIKKTVTL 107
++E +H+I + L K + Q + N S KT
Sbjct: 48 KEEIDHIIM----SKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQR 103
Query: 108 TPTLPKRLTAPLTPSTPLQLARESLHLSRVPESLP----CREAEFQSIHRFLLSKISQST 163
P++ R+ R+ L+ + R + + + LL +
Sbjct: 104 QPSMMTRM---------YIEQRDRLY--NDNQVFAKYNVSRLQPYLKLRQALLE--LRPA 150
Query: 164 TGCMYISGVPGTGKTATVHAVMR--KLKQEIGDKFVYVEMNALSIPEP-----KRAYSRI 216
+ I GV G+GKT V K++ ++ K ++ + + PE ++ +I
Sbjct: 151 KN-VLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI 209
Query: 217 -------LELLLNVDAPPEQAKAMLERHFTRPHGPCVLLIDELDYLCNKRQDVIYNILEY 269
+ N+ +A L R LL+ L + N +
Sbjct: 210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLV--LLNVQNAK------AWNA 261
Query: 270 LNKPKSRLIIL----CIANTMDLPERTLKGKVSSRMGLT----RLMFKPYDHHQLQEIVQ 321
N ++++ + + + T M LT + + Y + Q+
Sbjct: 262 FN-LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQD--- 317
Query: 322 NRLKNNNC-FHPDAVQLV-ARLEPPTSRSEIFCANHYTNEKKS---------------KS 364
L +P + ++ + + + + H +K + +
Sbjct: 318 --LPREVLTTNPRRLSIIAESIRDGLATWDNW--KHVNCDKLTTIIESSLNVLEPAEYRK 373
Query: 365 KYWD------------------WVSSSSDEEEKEENHVIGKLDTAPVENLRPRSL--KST 404
+ W + N L SL K
Sbjct: 374 MFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNK------------LHKYSLVEKQP 421
Query: 405 KKSQHATPSSHKPNVSTPSSIKKTVTLTPTLPKRL--------TAPLTPSTPLQ------ 450
K+S + PS + +K + L + + T P
Sbjct: 422 KESTISIPSIY-------LELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFY 474
Query: 451 --LARESLHLSRVPESLPCREAEFQSIH---RFLLSKISQSTTGCMYISGVPGTGKTATV 505
+ HL + R F+ + RFL KI +T +G
Sbjct: 475 SHIGH---HLKNIEHPE--RMTLFRMVFLDFRFLEQKIRHDSTAW------NASGSILNT 523
Query: 506 HAVMRKLKQEIGDK 519
++ K I D
Sbjct: 524 LQQLKFYKPYICDN 537
Score = 44.5 bits (104), Expect = 1e-04
Identities = 63/431 (14%), Positives = 128/431 (29%), Gaps = 128/431 (29%)
Query: 5 WRTSKSSRTRTEQNQMLIDDQTNTSPDIGPKKKSKSKYWDWVSSSSDEEEKEENHVIGK- 63
W K+ + +++ I P S+S + + + E ++
Sbjct: 186 WLNLKNCNSPET----VLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK 241
Query: 64 --------LDTAPVENLRPRSLKS---------TKKSQHATPSSHKPNVSTPSSIKKTVT 106
L V+N ++ + T + + T + S ++T
Sbjct: 242 PYENCLLVLLN--VQN--AKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMT 297
Query: 107 LTPTLPKRLTAPLTPSTPLQLARES-----LHLSRVPESL---PCREAEFQSIHRFLLSK 158
LTP K L P L RE LS + ES+ ++ ++ L+
Sbjct: 298 LTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTT 357
Query: 159 ISQSTTGCMYISGVPGTGKTATVHAVMRKLKQEIG--DKFVYVEMNALSI---------P 207
I +S+ + P A RK+ + ++ LS+
Sbjct: 358 IIESSLNVLE----P---------AEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDV 404
Query: 208 E---------------PKRAYSRILELLLNVDAPPEQAKAM----LER-HFTRPHGPCVL 247
PK + I + L + E A+ ++ + + L
Sbjct: 405 MVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDL 464
Query: 248 LIDELD-YLCNKRQDVIYNILEY-LNKPKS-------RLIILCIANTMDLPERTLKGKV- 297
+ LD Y Y+ + + L + R++ L D R L+ K+
Sbjct: 465 IPPYLDQY--------FYSHIGHHLKNIEHPERMTLFRMVFL------DF--RFLEQKIR 508
Query: 298 ------SSRMGLTRLM-----FKPY--DHHQLQEIVQNRLKNN------NCF---HPDAV 335
++ + + +KPY D+ E + N + + N + D +
Sbjct: 509 HDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLL 568
Query: 336 QLVARLEPPTS 346
++ L
Sbjct: 569 RIA--LMAEDE 577
Score = 41.0 bits (95), Expect = 0.001
Identities = 34/216 (15%), Positives = 66/216 (30%), Gaps = 51/216 (23%)
Query: 311 YDHHQLQ-EIVQNRLKNNNCFHPDAVQLVARLEPPTSRSEIFCANHYTNEKKSKSKYWDW 369
+ HH + E +++ + + +++ E + F + KS
Sbjct: 2 HHHHHMDFETGEHQYQYKD--------ILSVFEDAFVDN--FDCKDVQDMPKS------- 44
Query: 370 VSSSSDEEEKEENHVIGKLDTAPVENLRPRSL------KSTKKSQHATPSSHKPNVSTPS 423
+ S +E +H+I + L K + Q + N
Sbjct: 45 ILSK-----EEIDHIIM----SKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLM 95
Query: 424 SIKKTVTLTPTLPKRLTAPLTPSTPLQLARESLHLSRVPESLP----CREAEFQSIHRFL 479
S KT P++ R+ R+ L+ + R + + + L
Sbjct: 96 SPIKTEQRQPSMMTRM---------YIEQRDRLY--NDNQVFAKYNVSRLQPYLKLRQAL 144
Query: 480 LSKISQSTTGCMYISGVPGTGKTATVHAVMRKLKQE 515
L + + I GV G+GKT V K +
Sbjct: 145 LE--LRPAKN-VLIDGVLGSGKTWVALDVCLSYKVQ 177
Score = 38.7 bits (89), Expect = 0.006
Identities = 40/307 (13%), Positives = 72/307 (23%), Gaps = 110/307 (35%)
Query: 1 MSEQWRTSKSSRTRTEQNQMLIDDQTNTSPDIGPKKKSKSKYWD---------------- 44
+ W+ + T + ++ P + +
Sbjct: 343 TWDNWKHVNCDKL-TTIIESSLNVL---EPAE-----YRKMFDRLSVFPPSAHIPTILLS 393
Query: 45 --WVSSSSDEEEKEENHVIGKLDTAPVENLRPRSL--KSTKKSQHATPSSHKPNVSTPSS 100
W + N L SL K K+S + PS +
Sbjct: 394 LIWFDVIKSDVMVVVNK------------LHKYSLVEKQPKESTISIPSIY-------LE 434
Query: 101 IKKTVTLTPTLPKRL--------TAPLTPSTPLQ--------LARESLHLSRVPESLPCR 144
+K + L + + T P + HL + R
Sbjct: 435 LKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGH---HLKNIEHPE--R 489
Query: 145 EAEFQSIH---RFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEM 201
F+ + RFL KI +T +G ++ K I D
Sbjct: 490 MTLFRMVFLDFRFLEQKIRHDSTAW------NASGSILNTLQQLKFYKPYICDN------ 537
Query: 202 NALSIPEPKRAYSRILELLLNVDAPPEQAKAMLERHFTRPHGPCVLLIDELDYL---CNK 258
+PK Y R++ +L F ++ D L
Sbjct: 538 ------DPK--YERLVNAIL---------------DFLPKIEENLICSKYTDLLRIALMA 574
Query: 259 RQDVIYN 265
+ I+
Sbjct: 575 EDEAIFE 581
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 76.6 bits (188), Expect = 1e-14
Identities = 96/491 (19%), Positives = 156/491 (31%), Gaps = 158/491 (32%)
Query: 72 LRPRSLKSTKKSQHATPSSHKPNVSTPSSIKKTVTLTPTLPKRLTAPLT-------PSTP 124
RP +L H + H V T S + L K L P P+TP
Sbjct: 6 TRPLTL------SHGS-LEHVLLVPTASFFIASQ-LQEQFNKILPEPTEGFAADDEPTTP 57
Query: 125 LQLARESL-HLSRVPESLPCREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHA 183
+L + L ++S + E P + +F + L++ Y+ G +HA
Sbjct: 58 AELVGKFLGYVSSLVE--PSKVGQFDQVLNLCLTEFENC-----YLEG-------NDIHA 103
Query: 184 VMRKLKQEIGDKFV--------YVE-MNALSIPEPKRAYSRILELLLNVDAPPEQAKAML 234
+ KL QE V Y+ P K++ S + A+ +
Sbjct: 104 LAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFR-----AVGEGNAQLVA 158
Query: 235 -------------E-RHFTRPHGPCV-LLIDE----LDYLCNKRQDV--IY----NILEY 269
E R + + V LI L L D ++ NILE+
Sbjct: 159 IFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEW 218
Query: 270 LNKPKSR--LIILCIANTMDLPERTLKGKVSSRM-GLTRLMFKPYDHHQL-QEIVQNRLK 325
L P + L P +S + G+ QL +V +L
Sbjct: 219 LENPSNTPDKDYLLSI-----P-------ISCPLIGVI----------QLAHYVVTAKLL 256
Query: 326 NNNCFHPDAVQLVARLEPPTSRSE-IFCANHYTNEKKSKSKYWDWVSSSSDEEEKEENHV 384
F P +L + L+ T S+ + A ++ + E +
Sbjct: 257 G---FTPG--ELRSYLKGATGHSQGLVTAV--------------AIAETDSWESFFVSVR 297
Query: 385 --------IGK--LDTAPVENLRPRSLKSTKKSQHATPSSHKP--NVS--TPSSIKKTVT 430
IG + P +L P L+ + ++ PS P ++S T ++ V
Sbjct: 298 KAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPS---PMLSISNLTQEQVQDYVN 354
Query: 431 LT-PTLP--KRLTAPL--TPST------PLQLARESLHL-----------SRVPESLPCR 468
T LP K++ L P L +L L SR+P S R
Sbjct: 355 KTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSE--R 412
Query: 469 EAEFQSIHRFL 479
+ +F +RFL
Sbjct: 413 KLKFS--NRFL 421
Score = 52.0 bits (124), Expect = 4e-07
Identities = 36/203 (17%), Positives = 64/203 (31%), Gaps = 68/203 (33%)
Query: 46 VSSSSDEEEKEENHV--------IGK--LDTAPVENLRPRSLKSTKKSQHATPSSHKP-- 93
++ + E + IG + P +L P L+ + ++ PS P
Sbjct: 283 IAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPS---PML 339
Query: 94 NVS--TPSSIKKTVTLT-PTLP--KRLTAPL--TPST------PLQLARESLHL------ 134
++S T ++ V T LP K++ L P L +L L
Sbjct: 340 SISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAP 399
Query: 135 -----SRVPESLPCREAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVH-----AV 184
SR+P S R+ +F +RFL ++ P H
Sbjct: 400 SGLDQSRIPFSE--RKLKFS--NRFL--PVA-----------SP-------FHSHLLVPA 435
Query: 185 MRKLKQEIGDKFVYVEMNALSIP 207
+ +++ V + IP
Sbjct: 436 SDLINKDLVKNNVSFNAKDIQIP 458
Score = 28.5 bits (63), Expect = 6.5
Identities = 13/89 (14%), Positives = 26/89 (29%), Gaps = 34/89 (38%)
Query: 173 PG----TGKTATVHAVMRKLKQEIGDKFV-----------YV---EMNALSIPEPKRAYS 214
PG + + V+ ++ + G V YV ++ AL +
Sbjct: 1814 PGRVAASFSQEALQYVVERVGKRTG-WLVEIVNYNVENQQYVAAGDLRALD------TVT 1866
Query: 215 RILELL---------LNVDAPPEQAKAML 234
+L + L E+ + L
Sbjct: 1867 NVLNFIKLQKIDIIELQKSLSLEEVEGHL 1895
>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 516
Score = 49.9 bits (119), Expect = 1e-06
Identities = 28/127 (22%), Positives = 46/127 (36%), Gaps = 16/127 (12%)
Query: 166 CMYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNA---LSIPEPKRAYSRILELLLN 222
+ G PG GKT H V ++L +I +E NA S + L N
Sbjct: 79 AAMLYGPPGIGKTTAAHLVAQELGYDI------LEQNASDVRSKTLLNA---GVKNALDN 129
Query: 223 VDAPPEQAKAMLERHFTRPHGPCVLLIDELDYLCNKRQDVIYNILEYLNKPKSRLIILCI 282
E V+++DE+D + + + + ++ K + LI I
Sbjct: 130 --MSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLI--LI 185
Query: 283 ANTMDLP 289
N +LP
Sbjct: 186 CNERNLP 192
Score = 39.1 bits (91), Expect = 0.003
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 490 CMYISGVPGTGKTATVHAVMRKLKQEI 516
+ G PG GKT H V ++L +I
Sbjct: 79 AAMLYGPPGIGKTTAAHLVAQELGYDI 105
>1ypw_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD,
CDC48; HET: ADP ANP; 3.50A {Mus musculus} PDB: 1oz4_A*
1yq0_A* 1yqi_A* 1r7r_A* 3cf2_A* 3cf1_A* 3cf3_A*
Length = 806
Score = 49.8 bits (119), Expect = 2e-06
Identities = 24/96 (25%), Positives = 37/96 (38%), Gaps = 24/96 (25%)
Query: 169 ISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAPPE 228
+ G PGTGKT AV E G F + N I +
Sbjct: 243 LYGPPGTGKTLIARAVAN----ETGAFFFLI--NGPEI----------------MSKLAG 280
Query: 229 QAKAMLERHFTR--PHGPCVLLIDELDYLCNKRQDV 262
++++ L + F + P ++ IDELD + KR+
Sbjct: 281 ESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKT 316
Score = 32.1 bits (73), Expect = 0.51
Identities = 27/95 (28%), Positives = 32/95 (33%), Gaps = 32/95 (33%)
Query: 171 GVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAPPEQA 230
G PG GKT A+ + + N +SI P ELL E
Sbjct: 518 GPPGCGKTLLAKAIANECQ-----------ANFISIKGP--------ELLTMWFGESEAN 558
Query: 231 ------KAMLERHFTRPHGPCVLLIDELDYLCNKR 259
KA R PCVL DELD + R
Sbjct: 559 VREIFDKA-------RQAAPCVLFFDELDSIAKAR 586
Score = 28.6 bits (64), Expect = 6.6
Identities = 9/16 (56%), Positives = 10/16 (62%)
Query: 493 ISGVPGTGKTATVHAV 508
+ G PGTGKT AV
Sbjct: 243 LYGPPGTGKTLIARAV 258
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 45.5 bits (107), Expect = 2e-05
Identities = 47/213 (22%), Positives = 74/213 (34%), Gaps = 35/213 (16%)
Query: 152 HRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKLKQEIG----DKFVYVEMNALSIP 207
R L ++ T M +G PGTGKT TV M L +G V V + L
Sbjct: 55 ARQKLGLAHETPTLHMSFTGNPGTGKT-TVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQ 113
Query: 208 EPKRAYSRILELLLNVDAPPEQAKAMLERHFTRPHGPCVLLIDELDYLCNK------RQD 261
+ E+L ++A VL IDE YL Q+
Sbjct: 114 YIGHTAPKTKEVL-------KRAM------------GGVLFIDEAYYLYRPDNERDYGQE 154
Query: 262 VIYNILEYLNKPKSRLIILCIANT--MDLPERTLKGKVSSRMGLTRLMFKPYDHHQLQEI 319
I +L+ + + L+++ M+ ++ G SR+ + F Y +L EI
Sbjct: 155 AIEILLQVMENNRDDLVVILAGYADRMENFFQSNPG-FRSRIA-HHIEFPDYSDEELFEI 212
Query: 320 VQNRLKNNN-CFHPDAVQLVARLEPPTSRSEIF 351
+ L + N P+A + F
Sbjct: 213 AGHMLDDQNYQMTPEAETALRAYIGLRRNQPHF 245
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 40.1 bits (94), Expect = 6e-04
Identities = 32/175 (18%), Positives = 55/175 (31%), Gaps = 38/175 (21%)
Query: 144 REAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKL-KQEIGDKFVYVE-- 200
R + RF+ +Y+ G G GKT + A+ +L K+ + VYV
Sbjct: 34 RIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPEL 93
Query: 201 MNALSIPEPKRAYSRILELLLNVDAPPEQAKAMLERHFTRPHGPCVLLIDELDYLCNK-- 258
L + + L+ + V VL++D+L
Sbjct: 94 FRELKHSLQDQTMNEKLDYIKKVP---------------------VLMLDDLGAEAMSSW 132
Query: 259 -RQDVIYNILEYL-----------NKPKSRLIILCIANTMDLPERTLKGKVSSRM 301
R DV IL+Y N +L + E+ ++ R+
Sbjct: 133 VRDDVFGPILQYRMFENLPTFFTSNFDMQQLAHHLTYSQRGEEEKVKAARIMERI 187
Score = 30.0 bits (68), Expect = 1.3
Identities = 10/48 (20%), Positives = 18/48 (37%), Gaps = 4/48 (8%)
Query: 468 REAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKT----ATVHAVMRK 511
R + RF+ +Y+ G G GKT A + + ++
Sbjct: 34 RIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIANELAKR 81
>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 353
Score = 40.6 bits (95), Expect = 0.001
Identities = 34/183 (18%), Positives = 75/183 (40%), Gaps = 28/183 (15%)
Query: 167 MYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALS------IPEPKRAYSRILELL 220
M G PGTGKT+T+ A+ ++L K +E+NA + E + ++R+
Sbjct: 61 MLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARL---- 116
Query: 221 LNVDAPPEQAKAMLERHFTRPHGPCVLLIDELDYLCNKRQDVIYNILEYLNKPKSRLIIL 280
+ +K LE + P+ ++++DE D + Q + +E + +R ++
Sbjct: 117 ----TVSKPSKHDLENYPCPPYK--IIILDEADSMTADAQSALRRTMETYSG-VTRFCLI 169
Query: 281 C-IANTMDLPERTLKGKVSSRMGLTRLMFKPYDHHQLQEIVQNRLKNNNC-FHPDAVQLV 338
C + P ++S+ ++ FK D + ++ + N ++ +
Sbjct: 170 CNYVTRIIDP-------LASQ--CSKFRFKALDASNAIDRLRFISEQENVKCDDGVLERI 220
Query: 339 ARL 341
+
Sbjct: 221 LDI 223
Score = 27.9 bits (62), Expect = 8.6
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 491 MYISGVPGTGKTATVHAVMRKL 512
M G PGTGKT+T+ A+ ++L
Sbjct: 61 MLFYGPPGTGKTSTILALTKEL 82
>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein;
HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A*
1e32_A* 1s3s_A* 2pjh_B
Length = 489
Score = 39.4 bits (92), Expect = 0.002
Identities = 24/94 (25%), Positives = 37/94 (39%), Gaps = 24/94 (25%)
Query: 171 GVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAPPEQA 230
G PGTGKT AV E G F + + PE + ++
Sbjct: 245 GPPGTGKTLIARAVAN----ETGAFFFLI-----NGPEIMSKLA-------------GES 282
Query: 231 KAMLERHFT--RPHGPCVLLIDELDYLCNKRQDV 262
++ L + F + P ++ IDELD + KR+
Sbjct: 283 ESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKT 316
>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus
abyssi}
Length = 350
Score = 38.9 bits (90), Expect = 0.003
Identities = 19/166 (11%), Positives = 49/166 (29%), Gaps = 41/166 (24%)
Query: 144 REAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNA 203
RE E + + L + + G+ GK++ + A + + + ++
Sbjct: 17 REEESRKLEESLENYP------LTLLLGIRRVGKSSLLRAFLNERP------GILIDCRE 64
Query: 204 LSIPEPKRAYSRILELLLNVDAPPEQAKAMLERHFT------------------------ 239
L +++ L + +P ++ ++ +
Sbjct: 65 LYAERGHITREELIKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLG 124
Query: 240 RPHGPCVLLIDELDYLCNKRQDVIYNILEYL-----NKPKSRLIIL 280
G ++ DE YL +L + P ++I+
Sbjct: 125 EELGEFIVAFDEAQYLRFYGSRGGKELLALFAYAYDSLPNLKIILT 170
>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase
activation, cytochrome C, procaspase-9, A nucleotide,
cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A*
3iyt_A* 3iza_A*
Length = 1249
Score = 39.0 bits (91), Expect = 0.004
Identities = 22/119 (18%), Positives = 43/119 (36%), Gaps = 12/119 (10%)
Query: 144 REAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNA 203
R+ +I + L + G + I G+ G GK+ +R G V +
Sbjct: 129 RKKLVHAIQQKLWKLNGEP--GWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVS 186
Query: 204 LSIPEPKRAYSRILELLLNVDAP----------PEQAKAMLERHFTRPHGPCVLLIDEL 252
+ + ++ L + +D E+AK L R H +L++D++
Sbjct: 187 IGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDV 245
Score = 29.4 bits (66), Expect = 3.5
Identities = 11/53 (20%), Positives = 20/53 (37%), Gaps = 3/53 (5%)
Query: 468 REAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKLKQEIGDKF 520
R+ +I + L + G + I G+ G GK+ +R + F
Sbjct: 129 RKKLVHAIQQKLWKLNGEP--GWVTIYGMAGCGKSVLAAEAVRDHSL-LEGCF 178
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 37.9 bits (88), Expect = 0.005
Identities = 21/96 (21%), Positives = 33/96 (34%), Gaps = 26/96 (27%)
Query: 171 GVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAPPEQA 230
G G GK+ V R ++G + + S E L + +A E A
Sbjct: 43 GGKGQGKSFQCELVFR----KMGINPIMM-----SAGE-----------LESGNAG-EPA 81
Query: 231 KAMLER-----HFTRPHGPCVLLIDELDYLCNKRQD 261
K + +R R C L I++LD +
Sbjct: 82 KLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGG 117
>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP,
replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP:
a.80.1.1 c.37.1.20
Length = 327
Score = 38.1 bits (89), Expect = 0.005
Identities = 34/183 (18%), Positives = 68/183 (37%), Gaps = 39/183 (21%)
Query: 167 MYISGVPGTGKTATVHAVMRKLKQEIGDKF--VYVEMNALSIPEPKRAYS--RILELLLN 222
+ +G PG GKT A+ R+L G+ + ++E+NA S R
Sbjct: 49 LLFAGPPGVGKTTAALALAREL---FGENWRHNFLELNA----------SDER------G 89
Query: 223 VDAPPEQAK--AMLERHFTRPHGPCVLLIDELDYLCNKRQDVIYNILEYLNKPKSRLIIL 280
++ E+ K A + ++ +DE D L Q + +E + R I+
Sbjct: 90 INVIREKVKEFARTKPIGGASFK--IIFLDEADALTQDAQQALRRTMEMFSS-NVRFILS 146
Query: 281 C-IANTMDLPERTLKGKVSSRMGLTRLMFKPYDHHQLQEIVQNRLKNNNC-FHPDAVQLV 338
C ++ + P + SR F+P + + ++ +N + +Q +
Sbjct: 147 CNYSSKIIEP-------IQSRC--AIFRFRPLRDEDIAKRLRYIAENEGLELTEEGLQAI 197
Query: 339 ARL 341
+
Sbjct: 198 LYI 200
Score = 32.7 bits (75), Expect = 0.23
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 491 MYISGVPGTGKTATVHAVMRKL 512
+ +G PG GKT A+ R+L
Sbjct: 49 LLFAGPPGVGKTTAALALAREL 70
>2chq_A Replication factor C small subunit; DNA-binding protein, DNA
replication, clamp loader, AAA+ ATP ATP-binding,
nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus
fulgidus} PDB: 2chv_A
Length = 319
Score = 37.7 bits (88), Expect = 0.006
Identities = 34/121 (28%), Positives = 49/121 (40%), Gaps = 28/121 (23%)
Query: 167 MYISGVPGTGKTATVHAVMRKLKQEIGDKF--VYVEMNALSIPEPKRAYS--RILELLLN 222
+ SG PGTGKTAT A+ R L G+ + ++EMNA S R
Sbjct: 41 LLFSGPPGTGKTATAIALARDL---FGENWRDNFIEMNA----------SDER------G 81
Query: 223 VDAPPEQAK--AMLERHFTRPHGPCVLLIDELDYLCNKRQDVIYNILEYLNKPKSRLIIL 280
+D + K A P ++ +DE D L Q + +E +K R I+
Sbjct: 82 IDVVRHKIKEFARTAPIGGAPFK--IIFLDEADALTADAQAALRRTMEMYSK-SCRFILS 138
Query: 281 C 281
C
Sbjct: 139 C 139
Score = 33.5 bits (77), Expect = 0.15
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 491 MYISGVPGTGKTATVHAVMRKL 512
+ SG PGTGKTAT A+ R L
Sbjct: 41 LLFSGPPGTGKTATAIALARDL 62
>2chg_A Replication factor C small subunit; DNA-binding protein, DNA
replication, clamp loader, AAA+ ATPase, ATP-binding,
nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus
fulgidus}
Length = 226
Score = 36.8 bits (86), Expect = 0.010
Identities = 18/39 (46%), Positives = 24/39 (61%), Gaps = 5/39 (12%)
Query: 167 MYISGVPGTGKTATVHAVMRKLKQEIGDKF--VYVEMNA 203
+ SG PGTGKTAT A+ R L G+ + ++EMNA
Sbjct: 41 LLFSGPPGTGKTATAIALARDL---FGENWRDNFIEMNA 76
Score = 33.0 bits (76), Expect = 0.15
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 491 MYISGVPGTGKTATVHAVMRKL 512
+ SG PGTGKTAT A+ R L
Sbjct: 41 LLFSGPPGTGKTATAIALARDL 62
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 36.7 bits (85), Expect = 0.015
Identities = 25/134 (18%), Positives = 50/134 (37%), Gaps = 31/134 (23%)
Query: 144 REAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNA 203
R F +I F+ + + +Y+ G G GK+ + A+ +L ++ G + +
Sbjct: 133 RMEAFSAILDFV-EQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPS 191
Query: 204 LSIPEPKRAYS-----RILELLLNVDAPPEQAKAMLERHFTRPHGPCVLLIDELDYLCNK 258
+ K A S ++ + NV VL++D++
Sbjct: 192 F-AIDVKNAISNGSVKEEIDAVKNVP---------------------VLILDDIGAEQAT 229
Query: 259 ---RQDVIYNILEY 269
R +V+ IL+Y
Sbjct: 230 SWVRDEVLQVILQY 243
>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase;
NMR {Homo sapiens} SCOP: c.37.1.11
Length = 189
Score = 35.8 bits (82), Expect = 0.016
Identities = 31/187 (16%), Positives = 70/187 (37%), Gaps = 27/187 (14%)
Query: 166 CMYISGVPGTGKTATVHAVMRKLK-----------QEIGDK-----FVYVEMNALSIP-- 207
++++G PG GKT +H LK +E+ F V ++ P
Sbjct: 3 HVFLTGPPGVGKTTLIHKASEVLKSSGVPVDGFYTEEVRQGGRRIGFDVVTLSGTRGPLS 62
Query: 208 ------EPKRAYSRILELLLNVDAPPEQAKAMLERHFTR-PHGPCVLLIDELDYLCNKRQ 260
P + R+ + ++++ + + A +L G V +IDE+ + Q
Sbjct: 63 RVGLEPPPGKRECRVGQYVVDLTSFEQLALPVLRNADCSSGPGQRVCVIDEIGKMELFSQ 122
Query: 261 DVIYNILEYLNKPKSRLIILCIANTMDLPERTLKGKVSSRMGLTRLMFKPYDHHQLQEIV 320
I + + L+ P + ++ I P L ++ +R + + + L +
Sbjct: 123 LFIQAVRQTLSTPGTIILGT-IPVPKGKPLA-LVEEIRNRKDVKVFNVTKENRNHLLPDI 180
Query: 321 QNRLKNN 327
++++
Sbjct: 181 VTCVQSS 187
Score = 30.1 bits (67), Expect = 1.2
Identities = 9/26 (34%), Positives = 14/26 (53%)
Query: 490 CMYISGVPGTGKTATVHAVMRKLKQE 515
++++G PG GKT +H LK
Sbjct: 3 HVFLTGPPGVGKTTLIHKASEVLKSS 28
>3ec2_A DNA replication protein DNAC; helicase loader, replication
initiation factor, ATP-binding, nucleotide-binding; HET:
DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*
Length = 180
Score = 35.4 bits (82), Expect = 0.022
Identities = 32/176 (18%), Positives = 60/176 (34%), Gaps = 42/176 (23%)
Query: 144 REAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNA 203
+ +I F+ + + G + G PG GKT A ++ + ++ G + + +
Sbjct: 19 QNRALLTIRVFVHNFNPEEGKG-LTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKD 77
Query: 204 LSIPEPKRAYS-----RILELLLNVDAPPEQAKAMLERHFTRPHGPCVLLIDELDYLCNK 258
L I K + L+ +LN VL++D+L
Sbjct: 78 L-IFRLKHLMDEGKDTKFLKTVLNSP---------------------VLVLDDLGSERLS 115
Query: 259 R--QDVIYNILEYL-----------NKPKSRLIILCIANTMDLPERTLKGKVSSRM 301
+++I I+ Y N R + + DL R L V S++
Sbjct: 116 DWQRELISYIITYRYNNLKSTIITTNYSLQREEESSVRISADLASR-LGENVVSKI 170
>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292;
mixed alpha-beta protein, rossman fold, signaling
protein, transferase; 1.40A {Aquifex aeolicus} SCOP:
c.37.1.11
Length = 178
Score = 34.6 bits (79), Expect = 0.040
Identities = 22/130 (16%), Positives = 46/130 (35%), Gaps = 20/130 (15%)
Query: 169 ISGVPGTGKTATVHAVMRKLKQEIG------------DKFVYVEMNALSIPE------PK 210
I+G PG GKT V ++ +L + K + +
Sbjct: 5 ITGEPGVGKTTLVKKIVERLGKRAIGFWTEEVRDPETKKRTGFRIITTEGKKKIFSSKFF 64
Query: 211 RAYSRILELLLNVDAPPEQAKAMLERHFT--RPHGPCVLLIDELDYLCNKRQDVIYNILE 268
+ + +NV E A +LER + + V++IDE+ + + + +
Sbjct: 65 TSKKLVGSYGVNVQYFEELAIPILERAYREAKKDRRKVIIIDEIGKMELFSKKFRDLVRQ 124
Query: 269 YLNKPKSRLI 278
++ P ++
Sbjct: 125 IMHDPNVNVV 134
Score = 30.4 bits (68), Expect = 0.96
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 493 ISGVPGTGKTATVHAVMRKLKQEIG 517
I+G PG GKT V ++ +L +
Sbjct: 5 ITGEPGVGKTTLVKKIVERLGKRAI 29
>2kjq_A DNAA-related protein; solution structure, NESG, structural
genomics, PSI-2, protei structure initiative; NMR
{Neisseria meningitidis serogroup B}
Length = 149
Score = 33.4 bits (77), Expect = 0.060
Identities = 18/129 (13%), Positives = 46/129 (35%), Gaps = 33/129 (25%)
Query: 152 HRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKR 211
+ L+ + +Y+ G G GK+ + A + + + G Y++ ++ + +
Sbjct: 24 NAELVYVLRHKHGQFIYVWGEEGAGKSHLLQAWVAQALEA-GKNAAYIDAASMPLTDAAF 82
Query: 212 AYSRILELLLNVDAPPEQAKAMLERHFTRPHGPCVLLIDELDYLCNKRQDVIYNILEYL- 270
+ L +D+++ L N+ Q ++++I
Sbjct: 83 ----------EAE---------------------YLAVDQVEKLGNEEQALLFSIFNRFR 111
Query: 271 NKPKSRLII 279
N K L++
Sbjct: 112 NSGKGFLLL 120
>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP:
a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*
Length = 549
Score = 35.0 bits (80), Expect = 0.067
Identities = 40/285 (14%), Positives = 86/285 (30%), Gaps = 38/285 (13%)
Query: 15 TEQNQMLIDDQTNTSPDIGPKKKSKSKYWDWVSSSSDEEEKEENHVIGKLDTAPVENLRP 74
+ + L T D P+ D ++ + E+H + R
Sbjct: 4 EIECRALSTAHTRLIHDFEPR--------DALTYLEGKNIFTEDH-SELISKMSTRLERI 54
Query: 75 RSLKS--TKKSQHATPSSHKPNVSTPSSIK----KTVTLTPTLPKRLT-APLTPSTPLQL 127
+ +++ P N + S + + P L + P Q+
Sbjct: 55 ANFLRIYRRQASELGPLIDFFNYNNQSHLADFLEDYIDFAINEPDLLRPVVIAPQFSRQM 114
Query: 128 ARESLHLSRVPESLPC--REAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVM 185
L L VP+ + C RE + + L + +++ G G+GK+ +
Sbjct: 115 LDRKLLLGNVPKQMTCYIREYHVDRVIKKLDEMCDLDS-FFLFLHGRAGSGKSVIASQAL 173
Query: 186 RKLKQEIGDKF-----VYV-EMNALSIPEPKRAYSRILELLLNVDAPP---EQAKAMLER 236
K Q IG + + S + +L+ ++ P +L+R
Sbjct: 174 SKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKR 233
Query: 237 HFTRP--HGPCVLLIDELDYLCNKRQDVIYNILEYLNKPKSRLII 279
P L + D + + + + + + R ++
Sbjct: 234 MICNALIDRPNTLFV--FDDVVQE------ETIRWAQELRLRCLV 270
Score = 31.9 bits (72), Expect = 0.58
Identities = 20/99 (20%), Positives = 37/99 (37%), Gaps = 4/99 (4%)
Query: 425 IKKTVTLTPTLPKRLT-APLTPSTPLQLARESLHLSRVPESLPC--REAEFQSIHRFLLS 481
++ + P L + P Q+ L L VP+ + C RE + + L
Sbjct: 87 LEDYIDFAINEPDLLRPVVIAPQFSRQMLDRKLLLGNVPKQMTCYIREYHVDRVIKKLDE 146
Query: 482 KISQSTTGCMYISGVPGTGKTATVHAVMRKLKQEIGDKF 520
+ +++ G G+GK+ + K Q IG +
Sbjct: 147 MCDLDS-FFLFLHGRAGSGKSVIASQALSKSDQLIGINY 184
>1jr3_D DNA polymerase III, delta subunit; processivity, processivity
clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA;
2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB:
1jqj_C* 1xxh_A* 1xxi_A* 3glf_A* 3glg_A* 3glh_A* 3gli_A*
Length = 343
Score = 34.5 bits (79), Expect = 0.075
Identities = 14/94 (14%), Positives = 29/94 (30%), Gaps = 5/94 (5%)
Query: 246 VLLIDELDYLCNKRQDVIYNILEYLNKPKSRLIILCIANTMDLPERTLKG-KVSSRMGLT 304
LL+ + N + +L L+++ N + + + +
Sbjct: 79 TLLLLLPENGPNA--AINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQ 136
Query: 305 RLMFKPYDHHQLQEIVQNRLKNNNC-FHPDAVQL 337
+ + + QL V R K N A Q+
Sbjct: 137 -VTCQTPEQAQLPRWVAARAKQLNLELDDAANQV 169
>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain,
ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus}
SCOP: c.37.1.20 PDB: 1nsf_A*
Length = 272
Score = 33.2 bits (76), Expect = 0.18
Identities = 20/139 (14%), Positives = 45/139 (32%), Gaps = 39/139 (28%)
Query: 171 GVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAPPEQA 230
G P +GKTA + +E F+ + P+ +S
Sbjct: 71 GPPHSGKTALAAKIA----EESNFPFI-----KICSPDKMIGFS------------ETAK 109
Query: 231 KAMLERHFT--RPHGPCVLLIDELDYLCNKR-------QDVIYNILEYLNKPKS---RLI 278
+++ F +++D+++ L + V+ +L L K +L+
Sbjct: 110 CQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLL 169
Query: 279 ILCIAN------TMDLPER 291
I+ + M++
Sbjct: 170 IIGTTSRKDVLQEMEMLNA 188
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor,
microtubles, motor protein; HET: ADP SPM; 2.81A
{Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C*
Length = 3245
Score = 33.3 bits (76), Expect = 0.24
Identities = 15/78 (19%), Positives = 27/78 (34%), Gaps = 16/78 (20%)
Query: 135 SRVPE-SLPCREAEFQSI---------HRFLLSKISQSTTGCMYISGVPGTGKTATVHAV 184
++VP + + + H +L + G PG+GKT T+ +
Sbjct: 1266 NKVPSVEVETHKVASPDVVIPTVDTTRHVDVLHAWLSEHRPLILC-GPPGSGKTMTLTST 1324
Query: 185 MRKLKQEIGDKFVYVEMN 202
+R F V +N
Sbjct: 1325 LRAF-----PDFEVVSLN 1337
Score = 32.2 bits (73), Expect = 0.49
Identities = 12/68 (17%), Positives = 23/68 (33%), Gaps = 11/68 (16%)
Query: 459 SRVPE-SLPCREAEFQSI---------HRFLLSKISQSTTGCMYISGVPGTGKTATVHAV 508
++VP + + + H +L + G PG+GKT T+ +
Sbjct: 1266 NKVPSVEVETHKVASPDVVIPTVDTTRHVDVLHAWLSEHRPLILC-GPPGSGKTMTLTST 1324
Query: 509 MRKLKQEI 516
+R
Sbjct: 1325 LRAFPDFE 1332
Score = 27.9 bits (62), Expect = 9.8
Identities = 13/70 (18%), Positives = 26/70 (37%), Gaps = 6/70 (8%)
Query: 143 CREAEFQSIHRFL-----LSKISQSTTGCMYISGVPGTGKTATVHAVMRKLKQEIGDKFV 197
++ + ++ L +I G M + G G GKT + + ++Q K
Sbjct: 881 AKQRHLVTKQEWVEKILQLHQILNINHGVM-MVGPSGGGKTTSWEVYLEAIEQVDNIKSE 939
Query: 198 YVEMNALSIP 207
M+ +I
Sbjct: 940 AHVMDPKAIT 949
>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain,
PIN-tower interface, coupling hydrolysis to DNA
unwinding, ssDNA; 3.30A {Enterobacteria phage T4}
Length = 459
Score = 33.1 bits (75), Expect = 0.24
Identities = 8/37 (21%), Positives = 15/37 (40%)
Query: 155 LLSKISQSTTGCMYISGVPGTGKTATVHAVMRKLKQE 191
++ K + + I+G GTG T ++ L
Sbjct: 36 IVMKAIKEKKHHVTINGPAGTGATTLTKFIIEALIST 72
Score = 33.1 bits (75), Expect = 0.24
Identities = 8/37 (21%), Positives = 15/37 (40%)
Query: 479 LLSKISQSTTGCMYISGVPGTGKTATVHAVMRKLKQE 515
++ K + + I+G GTG T ++ L
Sbjct: 36 IVMKAIKEKKHHVTINGPAGTGATTLTKFIIEALIST 72
>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function;
HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*
Length = 359
Score = 32.7 bits (74), Expect = 0.26
Identities = 18/124 (14%), Positives = 42/124 (33%), Gaps = 10/124 (8%)
Query: 144 REAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNA 203
+ + L ++I + C+ + G PG+GK+ +L Q I +K+
Sbjct: 4 THKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAE----ELCQIINEKYHTFLSEH 59
Query: 204 LSIPEPKRAY-SRILELLLNVDAPPEQAKAMLERHFTRPHGPCVLLIDELDYLCNKRQDV 262
++ E + + P + M G ++++++ K +
Sbjct: 60 PNVIEVNDRLKPMVNLVDSLKTLQPNKVAEM-----IENQGLFKDHVEDVNFQPVKYSAL 114
Query: 263 IYNI 266
N
Sbjct: 115 TSNN 118
Score = 30.8 bits (69), Expect = 1.1
Identities = 12/53 (22%), Positives = 24/53 (45%), Gaps = 4/53 (7%)
Query: 468 REAEFQSIHRFLLSKISQSTTGCMYISGVPGTGKTATVHAVMRKLKQEIGDKF 520
+ + L ++I + C+ + G PG+GK+ +L Q I +K+
Sbjct: 4 THKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAE----ELCQIINEKY 52
>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 354
Score = 32.5 bits (74), Expect = 0.27
Identities = 23/135 (17%), Positives = 46/135 (34%), Gaps = 22/135 (16%)
Query: 167 MYISGVPGTGKTATVHAVMRKL-----KQEIGDKFVYVEMNALSIPEPKRAYSRILELLL 221
+ + G GTGK A++ + + D +V + + + LE+
Sbjct: 39 LLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVVSSPYHLEITP 98
Query: 222 NVDAPP-------EQAKAM-------LERHFTRPHGPC-VLLIDELDYLCNKRQDVIYNI 266
+ D E K + + ++I+E + L Q +
Sbjct: 99 S-DMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRRT 157
Query: 267 LEYLNKPKSRLIILC 281
+E +K RLI++C
Sbjct: 158 MEKYSK-NIRLIMVC 171
Score = 28.7 bits (64), Expect = 4.3
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 491 MYISGVPGTGKTATVHAVMRKL 512
+ + G GTGK A++ +
Sbjct: 39 LLLYGPNGTGKKTRCMALLESI 60
>4g1k_A Triosephosphate isomerase; structural genomics, seattle structural
genomics center for infectious disease, ssgcid, TIM
barrel, TPIA; 2.35A {Burkholderia thailandensis}
Length = 272
Score = 32.5 bits (75), Expect = 0.28
Identities = 11/29 (37%), Positives = 14/29 (48%), Gaps = 7/29 (24%)
Query: 174 GTGKTAT------VHAVMRK-LKQEIGDK 195
GTGK+AT VHA +R L +
Sbjct: 198 GTGKSATAEQAQQVHAFLRGRLAAKGAGH 226
Score = 32.5 bits (75), Expect = 0.28
Identities = 11/29 (37%), Positives = 14/29 (48%), Gaps = 7/29 (24%)
Query: 498 GTGKTAT------VHAVMRK-LKQEIGDK 519
GTGK+AT VHA +R L +
Sbjct: 198 GTGKSATAEQAQQVHAFLRGRLAAKGAGH 226
>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB:
1iy0_A* 1iy1_A*
Length = 254
Score = 32.3 bits (74), Expect = 0.33
Identities = 26/93 (27%), Positives = 34/93 (36%), Gaps = 40/93 (43%)
Query: 171 GVPGTGKTATVHAVMRKLKQEIGDKFV------YVEM----NALSIPEPKRAYSRILELL 220
G PG GKT AV E F+ +VEM A +R+ +L
Sbjct: 56 GPPGVGKTHLARAV----AGEARVPFITASGSDFVEMFVGVGA----------ARVRDLF 101
Query: 221 LNVDAPPEQAKAMLERHFTRPHGPCVLLIDELD 253
E AK H PC++ IDE+D
Sbjct: 102 -------ETAKR---------HAPCIVFIDEID 118
>2r2a_A Uncharacterized protein; zonular occludens toxin, structural
genomics, APC84050.2, PS protein structure initiative;
HET: MSE; 1.82A {Neisseria meningitidis MC58}
Length = 199
Score = 32.0 bits (72), Expect = 0.34
Identities = 18/97 (18%), Positives = 36/97 (37%), Gaps = 7/97 (7%)
Query: 169 ISGVPGTGKTATVHAVMRKLK-----QEIGDKFVYVEMNALSIPEPKRAYSRILELLLNV 223
I+G PG+GKT + ++M + + + V+ + L IP + +L +
Sbjct: 10 ITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPH-TYIETDAKKLPKST 68
Query: 224 DAPPEQAKAMLERHFTRPHGPCVLLIDELDYLCNKRQ 260
D G ++++DE + R
Sbjct: 69 DEQLSAHDMYEWIKKPENIGS-IVIVDEAQDVWPARS 104
>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian
virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A
2h1l_A
Length = 377
Score = 32.3 bits (73), Expect = 0.34
Identities = 28/199 (14%), Positives = 61/199 (30%), Gaps = 40/199 (20%)
Query: 148 FQSIHRFLLSKISQSTTG-----CMYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMN 202
+ + + G +GKT A++ +
Sbjct: 148 LPKMDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKA---------- 197
Query: 203 ALSIPEPKRAYSRILELLLNVDAPPEQAKAMLE----RHFTRPHGPCVLLIDELDYLCNK 258
L++ P + L + +Q + E P I+ LD L +
Sbjct: 198 -LNVNLPLDRLNFELGVA------IDQFLVVFEDVKGTGGESRDLPSGQGINNLDNLRDY 250
Query: 259 RQDVIYNILEYLNKPKSRLI---ILCIANTMDLPERTLKGKVSSRMGLTRLMFKPYDHHQ 315
+ LE + K I + N +P +TL+ +R + ++ F+P D+ +
Sbjct: 251 LDGSVKVNLEKKHLNKRTQIFPPGIVTMNEYSVP-KTLQ----ARF-VKQIDFRPKDYLK 304
Query: 316 LQ-----EIVQNRLKNNNC 329
+++ R+ +
Sbjct: 305 HCLERSEFLLEKRIIQSGI 323
Score = 29.6 bits (66), Expect = 2.3
Identities = 5/47 (10%), Positives = 11/47 (23%), Gaps = 5/47 (10%)
Query: 472 FQSIHRFLLSKISQSTTG-----CMYISGVPGTGKTATVHAVMRKLK 513
+ + + G +GKT A++
Sbjct: 148 LPKMDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLELCG 194
>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural
genomics, PSI, protein struc initiative; 3.20A
{Agrobacterium tumefaciens str} SCOP: c.37.1.25
Length = 191
Score = 31.6 bits (71), Expect = 0.44
Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 5/44 (11%)
Query: 158 KISQSTTGCMY-ISGVPGTGKTATVHAVMRKLKQEIGDKFVYVE 200
++ G + +SG PG+GK+ T+ A L G V+
Sbjct: 2 NMTDDLGGNILLLSGHPGSGKS-TI-A--EALANLPGVPKVHFH 41
Score = 28.9 bits (64), Expect = 3.1
Identities = 8/32 (25%), Positives = 15/32 (46%), Gaps = 1/32 (3%)
Query: 482 KISQSTTGCMY-ISGVPGTGKTATVHAVMRKL 512
++ G + +SG PG+GK+ A+
Sbjct: 2 NMTDDLGGNILLLSGHPGSGKSTIAEALANLP 33
>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase,
hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli}
SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*
Length = 608
Score = 32.0 bits (73), Expect = 0.46
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 169 ISGVPGTGKTATVHAVMRKLKQ 190
ISG PGTGKT TV ++ L Q
Sbjct: 169 ISGGPGTGKTTTVAKLLAALIQ 190
Score = 32.0 bits (73), Expect = 0.46
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 493 ISGVPGTGKTATVHAVMRKLKQ 514
ISG PGTGKT TV ++ L Q
Sbjct: 169 ISGGPGTGKTTTVAKLLAALIQ 190
>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 323
Score = 32.0 bits (73), Expect = 0.47
Identities = 16/39 (41%), Positives = 24/39 (61%), Gaps = 5/39 (12%)
Query: 167 MYISGVPGTGKTATVHAVMRKLKQEIGDKFV--YVEMNA 203
M ISG+PG GKT +VH + +L +G + +E+NA
Sbjct: 45 MIISGMPGIGKTTSVHCLAHEL---LGRSYADGVLELNA 80
Score = 27.8 bits (62), Expect = 8.3
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 491 MYISGVPGTGKTATVHAVMRKL 512
M ISG+PG GKT +VH + +L
Sbjct: 45 MIISGMPGIGKTTSVHCLAHEL 66
>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 340
Score = 31.6 bits (72), Expect = 0.58
Identities = 30/121 (24%), Positives = 55/121 (45%), Gaps = 28/121 (23%)
Query: 167 MYISGVPGTGKTATVHAVMRKLKQEIGDKF--VYVEMNALSIPEPKRAYS--RILELLLN 222
+ G PGTGKT+T+ A+ R++ G + + +E+NA S R
Sbjct: 49 LLFYGPPGTGKTSTIVALAREI---YGKNYSNMVLELNA----------SDDR------G 89
Query: 223 VDAPPEQAK--AMLERHFTRPHGPCVLLIDELDYLCNKRQDVIYNILEYLNKPKSRLIIL 280
+D Q K A + F++ ++++DE D + N Q+ + ++E K +R +L
Sbjct: 90 IDVVRNQIKDFASTRQIFSKGFK--LIILDEADAMTNAAQNALRRVIERYTK-NTRFCVL 146
Query: 281 C 281
Sbjct: 147 A 147
Score = 28.2 bits (63), Expect = 7.1
Identities = 10/22 (45%), Positives = 16/22 (72%)
Query: 491 MYISGVPGTGKTATVHAVMRKL 512
+ G PGTGKT+T+ A+ R++
Sbjct: 49 LLFYGPPGTGKTSTIVALAREI 70
>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein,
ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus
radiodurans} PDB: 3gp8_A 3gpl_A*
Length = 574
Score = 32.0 bits (73), Expect = 0.58
Identities = 9/29 (31%), Positives = 14/29 (48%)
Query: 163 TTGCMYISGVPGTGKTATVHAVMRKLKQE 191
+ ++G PGTGK+ T AV +
Sbjct: 203 GHRLVVLTGGPGTGKSTTTKAVADLAESL 231
Score = 32.0 bits (73), Expect = 0.58
Identities = 9/29 (31%), Positives = 14/29 (48%)
Query: 487 TTGCMYISGVPGTGKTATVHAVMRKLKQE 515
+ ++G PGTGK+ T AV +
Sbjct: 203 GHRLVVLTGGPGTGKSTTTKAVADLAESL 231
>1b9b_A TIM, protein (triosephosphate isomerase); thermophilic; 2.85A
{Thermotoga maritima} SCOP: c.1.1.1
Length = 255
Score = 31.3 bits (72), Expect = 0.58
Identities = 13/30 (43%), Positives = 17/30 (56%), Gaps = 6/30 (20%)
Query: 174 GTGKTAT------VHAVMRKLKQEIGDKFV 197
GTG+ AT VHA +RKL E+ D+
Sbjct: 174 GTGRVATPQQAQEVHAFIRKLLSEMYDEET 203
Score = 31.3 bits (72), Expect = 0.64
Identities = 13/28 (46%), Positives = 17/28 (60%), Gaps = 6/28 (21%)
Query: 498 GTGKTAT------VHAVMRKLKQEIGDK 519
GTG+ AT VHA +RKL E+ D+
Sbjct: 174 GTGRVATPQQAQEVHAFIRKLLSEMYDE 201
>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P;
hydrolase, type IV secretion, conjugation; 2.35A
{Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A
Length = 392
Score = 31.5 bits (71), Expect = 0.60
Identities = 13/66 (19%), Positives = 24/66 (36%), Gaps = 9/66 (13%)
Query: 155 LLSKISQSTTGCMYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYS 214
+ + T I PG GK+ T ++ + G + + I +P+R Y
Sbjct: 26 IWKRGGDRTNSNWTILAKPGAGKSFTAKMLLLRE-YMQGSRVI--------IIDPEREYK 76
Query: 215 RILELL 220
+ L
Sbjct: 77 EMCRKL 82
>3th6_A Triosephosphate isomerase; alpha/beta barrel, embryogenesis,
glycolysis; 2.40A {Rhipicephalus microplus}
Length = 249
Score = 31.3 bits (72), Expect = 0.61
Identities = 11/29 (37%), Positives = 14/29 (48%), Gaps = 7/29 (24%)
Query: 174 GTGKTAT------VHAVMRK-LKQEIGDK 195
GTGKTAT VH+ +R L +
Sbjct: 171 GTGKTATPDQAQEVHSKVRNWLSTNVSAD 199
Score = 31.3 bits (72), Expect = 0.61
Identities = 11/29 (37%), Positives = 14/29 (48%), Gaps = 7/29 (24%)
Query: 498 GTGKTAT------VHAVMRK-LKQEIGDK 519
GTGKTAT VH+ +R L +
Sbjct: 171 GTGKTATPDQAQEVHSKVRNWLSTNVSAD 199
>3m9y_A Triosephosphate isomerase; TIM barrel, glycolysis, gluconeogenesis,
pentose; HET: CIT; 1.90A {Staphylococcus aureus}
Length = 254
Score = 31.3 bits (72), Expect = 0.63
Identities = 9/30 (30%), Positives = 16/30 (53%), Gaps = 6/30 (20%)
Query: 174 GTGKTAT------VHAVMRKLKQEIGDKFV 197
GTGK++T + A +R+ ++ K V
Sbjct: 176 GTGKSSTSEDANEMCAFVRQTIADLSSKEV 205
Score = 30.9 bits (71), Expect = 0.74
Identities = 8/28 (28%), Positives = 15/28 (53%), Gaps = 6/28 (21%)
Query: 498 GTGKTAT------VHAVMRKLKQEIGDK 519
GTGK++T + A +R+ ++ K
Sbjct: 176 GTGKSSTSEDANEMCAFVRQTIADLSSK 203
>1mo0_A TIM, triosephosphate isomerase; structural genomics, PSI, protein
structure initiative, southeast collaboratory for
structural genomics; 1.70A {Caenorhabditis elegans}
SCOP: c.1.1.1
Length = 275
Score = 31.1 bits (71), Expect = 0.67
Identities = 11/29 (37%), Positives = 16/29 (55%), Gaps = 7/29 (24%)
Query: 174 GTGKTAT------VHAVMRK-LKQEIGDK 195
GTGKTA+ VH +R LK+++
Sbjct: 190 GTGKTASGEQAQEVHEWIRAFLKEKVSPA 218
Score = 31.1 bits (71), Expect = 0.67
Identities = 11/29 (37%), Positives = 16/29 (55%), Gaps = 7/29 (24%)
Query: 498 GTGKTAT------VHAVMRK-LKQEIGDK 519
GTGKTA+ VH +R LK+++
Sbjct: 190 GTGKTASGEQAQEVHEWIRAFLKEKVSPA 218
>1r2r_A TIM, triosephosphate isomerase; closed loop conformation in the
ligand-free state, conformational heterogeneity,
TIM-barrel; 1.50A {Oryctolagus cuniculus} SCOP: c.1.1.1
PDB: 1r2s_A 1r2t_A 2jk2_A 1wyi_A 1hti_A 2vom_A 1tph_1*
8tim_A 1sw3_A 1spq_A 1tpb_1* 1tpw_A* 1sw7_A 1tpu_A*
1tpc_1* 1ssd_A 1ssg_A 1sw0_A 1sq7_A 1tpv_A* ...
Length = 248
Score = 31.0 bits (71), Expect = 0.69
Identities = 13/29 (44%), Positives = 15/29 (51%), Gaps = 7/29 (24%)
Query: 174 GTGKTAT------VHAVMRK-LKQEIGDK 195
GTGKTAT VH +R LK + D
Sbjct: 171 GTGKTATPQQAQEVHEKLRGWLKSNVSDA 199
Score = 31.0 bits (71), Expect = 0.69
Identities = 13/29 (44%), Positives = 15/29 (51%), Gaps = 7/29 (24%)
Query: 498 GTGKTAT------VHAVMRK-LKQEIGDK 519
GTGKTAT VH +R LK + D
Sbjct: 171 GTGKTATPQQAQEVHEKLRGWLKSNVSDA 199
>2i9e_A Triosephosphate isomerase; 2.00A {Tenebrio molitor}
Length = 259
Score = 31.0 bits (71), Expect = 0.75
Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 7/29 (24%)
Query: 174 GTGKTAT------VHAVMRK-LKQEIGDK 195
GTGKTAT VH +R+ + + I K
Sbjct: 170 GTGKTATPQQAQDVHKALRQWICENIDAK 198
Score = 31.0 bits (71), Expect = 0.75
Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 7/29 (24%)
Query: 498 GTGKTAT------VHAVMRK-LKQEIGDK 519
GTGKTAT VH +R+ + + I K
Sbjct: 170 GTGKTATPQQAQDVHKALRQWICENIDAK 198
>1tre_A Triosephosphate isomerase; intramolecular oxidoreductase; 2.60A
{Escherichia coli} SCOP: c.1.1.1 PDB: 1tmh_A
Length = 255
Score = 30.9 bits (71), Expect = 0.76
Identities = 9/27 (33%), Positives = 13/27 (48%), Gaps = 6/27 (22%)
Query: 174 GTGKTAT------VHAVMRKLKQEIGD 194
GTGK+AT VH +R ++
Sbjct: 173 GTGKSATPAQAQAVHKFIRDHIAKVDA 199
Score = 30.9 bits (71), Expect = 0.76
Identities = 9/27 (33%), Positives = 13/27 (48%), Gaps = 6/27 (22%)
Query: 498 GTGKTAT------VHAVMRKLKQEIGD 518
GTGK+AT VH +R ++
Sbjct: 173 GTGKSATPAQAQAVHKFIRDHIAKVDA 199
>1aw2_A Triosephosphate isomerase; psychrophilic, vibrio marinus; 2.65A
{Moritella marina} SCOP: c.1.1.1 PDB: 1aw1_A
Length = 256
Score = 30.9 bits (71), Expect = 0.78
Identities = 10/27 (37%), Positives = 13/27 (48%), Gaps = 6/27 (22%)
Query: 174 GTGKTAT------VHAVMRKLKQEIGD 194
GTGK AT +HA +R E +
Sbjct: 175 GTGKAATAEDAQRIHAQIRAHIAEKSE 201
Score = 30.9 bits (71), Expect = 0.78
Identities = 10/27 (37%), Positives = 13/27 (48%), Gaps = 6/27 (22%)
Query: 498 GTGKTAT------VHAVMRKLKQEIGD 518
GTGK AT +HA +R E +
Sbjct: 175 GTGKAATAEDAQRIHAQIRAHIAEKSE 201
>2vxn_A Triosephosphate isomerase; fatty acid biosynthesis, transition
state analogue, glycolysis, pentose shunt,
gluconeogenesis, TIM, glycosome; HET: PGH PGA; 0.82A
{Leishmania mexicana} PDB: 1if2_A* 1qds_A 1n55_A* 2y61_A
2y62_A 2y63_A 1amk_A 1tpf_A 1iig_A 1ag1_O* 1iih_A 1tpd_A
1trd_A* 2v5l_A 4tim_A* 5tim_A 6tim_A*
Length = 251
Score = 30.9 bits (71), Expect = 0.78
Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 7/29 (24%)
Query: 174 GTGKTAT------VHAVMRK-LKQEIGDK 195
GTGK AT VH ++RK + + IG
Sbjct: 174 GTGKVATPEQAQEVHLLLRKWVSENIGTD 202
Score = 30.9 bits (71), Expect = 0.78
Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 7/29 (24%)
Query: 498 GTGKTAT------VHAVMRK-LKQEIGDK 519
GTGK AT VH ++RK + + IG
Sbjct: 174 GTGKVATPEQAQEVHLLLRKWVSENIGTD 202
>3ta6_A Triosephosphate isomerase; HET: FLC; 1.41A {Mycobacterium
tuberculosis} PDB: 3tao_A* 3gvg_A
Length = 267
Score = 30.9 bits (71), Expect = 0.81
Identities = 8/28 (28%), Positives = 12/28 (42%), Gaps = 6/28 (21%)
Query: 174 GTGKTAT------VHAVMRKLKQEIGDK 195
GTG+ A+ V A +RK +
Sbjct: 178 GTGRVASAADAQEVCAAIRKELASLASP 205
Score = 30.9 bits (71), Expect = 0.81
Identities = 8/28 (28%), Positives = 12/28 (42%), Gaps = 6/28 (21%)
Query: 498 GTGKTAT------VHAVMRKLKQEIGDK 519
GTG+ A+ V A +RK +
Sbjct: 178 GTGRVASAADAQEVCAAIRKELASLASP 205
>3qst_A Triosephosphate isomerase, putative; TIM barrel; 1.75A {Trichomonas
vaginalis} PDB: 3qsr_A
Length = 255
Score = 30.9 bits (71), Expect = 0.82
Identities = 9/29 (31%), Positives = 14/29 (48%), Gaps = 7/29 (24%)
Query: 174 GTGKTAT------VHAVMRK-LKQEIGDK 195
GTGK A+ + V+R L ++G
Sbjct: 175 GTGKVASTQDAQEMCKVIRDILAAKVGAD 203
Score = 30.9 bits (71), Expect = 0.82
Identities = 9/29 (31%), Positives = 14/29 (48%), Gaps = 7/29 (24%)
Query: 498 GTGKTAT------VHAVMRK-LKQEIGDK 519
GTGK A+ + V+R L ++G
Sbjct: 175 GTGKVASTQDAQEMCKVIRDILAAKVGAD 203
>2yc6_A Triosephosphate isomerase; glycolysis; HET: PGA; 1.45A {Giardia
intestinalis} PDB: 2dp3_A 2yc7_A* 3pf3_A 2yc8_A
Length = 257
Score = 30.9 bits (71), Expect = 0.82
Identities = 9/29 (31%), Positives = 14/29 (48%), Gaps = 7/29 (24%)
Query: 174 GTGKTAT------VHAVMRK-LKQEIGDK 195
GTG AT VH +RK +++ +
Sbjct: 176 GTGVVATPEQAEEVHVGLRKWFVEKVAAE 204
Score = 30.9 bits (71), Expect = 0.82
Identities = 9/29 (31%), Positives = 14/29 (48%), Gaps = 7/29 (24%)
Query: 498 GTGKTAT------VHAVMRK-LKQEIGDK 519
GTG AT VH +RK +++ +
Sbjct: 176 GTGVVATPEQAEEVHVGLRKWFVEKVAAE 204
>1m6j_A TIM, TPI, triosephosphate isomerase; asymmetry, monomer stability;
1.50A {Entamoeba histolytica} SCOP: c.1.1.1
Length = 261
Score = 31.0 bits (71), Expect = 0.89
Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 7/29 (24%)
Query: 174 GTGKTAT------VHAVMRK-LKQEIGDK 195
GTGKTAT VH +RK + + I +
Sbjct: 180 GTGKTATPDQAQEVHQYIRKWMTENISKE 208
Score = 31.0 bits (71), Expect = 0.89
Identities = 12/29 (41%), Positives = 16/29 (55%), Gaps = 7/29 (24%)
Query: 498 GTGKTAT------VHAVMRK-LKQEIGDK 519
GTGKTAT VH +RK + + I +
Sbjct: 180 GTGKTATPDQAQEVHQYIRKWMTENISKE 208
>2v5b_A Triosephosphate isomerase; TIM, unfolding, monotctim, glycosome,
gluconeogenesis, lipid synthesis, monomeric mutant,
glycolysis, pentose shunt; 2.00A {Trypanosoma cruzi}
Length = 244
Score = 30.9 bits (71), Expect = 0.89
Identities = 10/29 (34%), Positives = 17/29 (58%), Gaps = 7/29 (24%)
Query: 174 GTGKTAT------VHAVMRK-LKQEIGDK 195
GTGK AT VH ++R+ ++ ++G
Sbjct: 167 GTGKVATPQQAQEVHELLRRWVRSKLGTD 195
Score = 30.9 bits (71), Expect = 0.89
Identities = 10/29 (34%), Positives = 17/29 (58%), Gaps = 7/29 (24%)
Query: 498 GTGKTAT------VHAVMRK-LKQEIGDK 519
GTGK AT VH ++R+ ++ ++G
Sbjct: 167 GTGKVATPQQAQEVHELLRRWVRSKLGTD 195
>1yya_A Triosephosphate isomerase; riken structural genomics/proteom
initiative, RSGI, structural genomics; 1.60A {Thermus
thermophilus}
Length = 250
Score = 30.9 bits (71), Expect = 0.91
Identities = 10/28 (35%), Positives = 13/28 (46%), Gaps = 6/28 (21%)
Query: 174 GTGKTAT------VHAVMRKLKQEIGDK 195
GTGK AT +H +RK E +
Sbjct: 172 GTGKNATPEDAEAMHQAIRKALSERYGE 199
Score = 30.9 bits (71), Expect = 0.91
Identities = 10/28 (35%), Positives = 13/28 (46%), Gaps = 6/28 (21%)
Query: 498 GTGKTAT------VHAVMRKLKQEIGDK 519
GTGK AT +H +RK E +
Sbjct: 172 GTGKNATPEDAEAMHQAIRKALSERYGE 199
>1o5x_A TIM, triosephosphate isomerase; 2- phosphoglycerate,
META-phosphate, catalytic LOOP6; HET: 2PG; 1.10A
{Plasmodium falciparum} SCOP: c.1.1.1 PDB: 1lzo_A
1m7o_A* 1m7p_A* 1lyx_A* 1ydv_A 2vfi_A* 3psw_A 3psv_A
3pwa_A 2vfh_A* 2vff_A 2vfg_A* 1vga_A 1woa_A* 1wob_A
3pvf_A 3py2_A 2vfd_A 2vfe_A*
Length = 248
Score = 30.6 bits (70), Expect = 0.92
Identities = 14/29 (48%), Positives = 17/29 (58%), Gaps = 7/29 (24%)
Query: 174 GTGKTAT------VHAVMRK-LKQEIGDK 195
GTGKTAT VH +RK +K G+K
Sbjct: 171 GTGKTATPEQAQLVHKEIRKIVKDTCGEK 199
Score = 30.6 bits (70), Expect = 0.92
Identities = 14/29 (48%), Positives = 17/29 (58%), Gaps = 7/29 (24%)
Query: 498 GTGKTAT------VHAVMRK-LKQEIGDK 519
GTGKTAT VH +RK +K G+K
Sbjct: 171 GTGKTATPEQAQLVHKEIRKIVKDTCGEK 199
>3krs_A Triosephosphate isomerase; ssgcid, SBRI, emerald biostructures,
university of washingto niaid, I structural genomics;
1.55A {Cryptosporidium parvum iowa II}
Length = 271
Score = 30.6 bits (70), Expect = 1.0
Identities = 8/29 (27%), Positives = 13/29 (44%), Gaps = 7/29 (24%)
Query: 174 GTGKTAT------VHAVMRK-LKQEIGDK 195
GTG AT HA +R+ + + +
Sbjct: 194 GTGVVATPGQAQEAHAFIREYVTRMYNPQ 222
Score = 30.6 bits (70), Expect = 1.0
Identities = 8/29 (27%), Positives = 13/29 (44%), Gaps = 7/29 (24%)
Query: 498 GTGKTAT------VHAVMRK-LKQEIGDK 519
GTG AT HA +R+ + + +
Sbjct: 194 GTGVVATPGQAQEAHAFIREYVTRMYNPQ 222
>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding,
chromatin regulator, growth regulation, hydrolase,
nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo
sapiens} PDB: 2xsz_A*
Length = 456
Score = 30.7 bits (69), Expect = 1.1
Identities = 17/97 (17%), Positives = 28/97 (28%), Gaps = 16/97 (16%)
Query: 169 ISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAPPE 228
++G PGTGKTA A+ QE+G K + M + +
Sbjct: 68 LAGPPGTGKTALALAI----AQELGSKVPFCPMVGSEVYST------------EIKKTEV 111
Query: 229 QAKAMLERHFTRPHGPCVLLIDELDYLCNKRQDVIYN 265
+ R + E+ L +
Sbjct: 112 LMENFRRAIGLRIKETKEVYEGEVTELTPCETENPMG 148
>1kht_A Adenylate kinase; phosphotransferase, signaling protein,
transferase; HET: AMP; 2.50A {Methanococcus voltae}
SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A
Length = 192
Score = 30.4 bits (68), Expect = 1.1
Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 1/44 (2%)
Query: 168 YISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKR 211
++GVPG G T + M L++E G + V ++ K
Sbjct: 7 VVTGVPGVGSTTSSQLAMDNLRKE-GVNYKMVSFGSVMFEVAKE 49
Score = 30.0 bits (67), Expect = 1.2
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 492 YISGVPGTGKTATVHAVMRKLKQE 515
++GVPG G T + M L++E
Sbjct: 7 VVTGVPGVGSTTSSQLAMDNLRKE 30
>2j27_A Triosephosphate isomerase glycosomal; TIM, 2PG, LOOP7, glycosome,
TIM-barrel, gluconeogenesis, lipid synthesis, atomic
resolution; 1.15A {Trypanosoma brucei brucei} PDB:
2j24_A 1kv5_A 1tpe_A 1tsi_A* 3tim_A 2v2c_A 2v0t_A 1tri_A
1tti_A 1mss_A 1ttj_A* 2wsq_A 2y70_A 2y6z_A* 1ml1_A
2wsr_A 3q37_A 2v2h_A 2v2d_A 1dkw_A ...
Length = 250
Score = 30.6 bits (70), Expect = 1.1
Identities = 11/29 (37%), Positives = 15/29 (51%), Gaps = 7/29 (24%)
Query: 174 GTGKTAT------VHAVMRK-LKQEIGDK 195
GTGK AT HA++R + +IG
Sbjct: 173 GTGKVATPQQAQEAHALIRSWVSSKIGAD 201
Score = 30.6 bits (70), Expect = 1.1
Identities = 11/29 (37%), Positives = 15/29 (51%), Gaps = 7/29 (24%)
Query: 498 GTGKTAT------VHAVMRK-LKQEIGDK 519
GTGK AT HA++R + +IG
Sbjct: 173 GTGKVATPQQAQEAHALIRSWVSSKIGAD 201
>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop,
rossman fold, AAA+, photosynthesis, metal transport;
2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB:
2x31_G
Length = 350
Score = 30.5 bits (69), Expect = 1.2
Identities = 33/184 (17%), Positives = 68/184 (36%), Gaps = 29/184 (15%)
Query: 169 ISGVPGTGKTATV---HAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDA 225
+ G GTGK+ V A++ +++ G + + + + I + VD
Sbjct: 50 VFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLSTNVIRKPTPVVDL 109
Query: 226 PP-------------EQAKAMLERHF-----TRPHGPCVLLIDELDYLCNKRQDVIYNIL 267
P E+A + E+ F R + L IDE + L + D++ ++
Sbjct: 110 PLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRG-YLYIDECNLLEDHIVDLLLDVA 168
Query: 268 EYLNKPKSRLII-------LCIANTMDLPERTLKGKVSSRMGLTRLMFKPYDHHQLQEIV 320
+ R + + + + E L+ ++ R GL+ + P D E++
Sbjct: 169 QSGENVVERDGLSIRHPARFVLVGSGNPEEGDLRPQLLDRFGLSVEVLSPRDVETRVEVI 228
Query: 321 QNRL 324
+ R
Sbjct: 229 RRRD 232
>3kxq_A Triosephosphate isomerase; ssgcid, NIH, niaid, SBRI, UW,
gluconeogenesis, glycolysis, pentose shunt; 1.60A
{Bartonella henselae}
Length = 275
Score = 30.6 bits (70), Expect = 1.2
Identities = 9/21 (42%), Positives = 10/21 (47%), Gaps = 6/21 (28%)
Query: 174 GTGKTAT------VHAVMRKL 188
GTG TAT VHA +
Sbjct: 196 GTGNTATSADVAEVHAFIHHK 216
Score = 30.6 bits (70), Expect = 1.2
Identities = 9/21 (42%), Positives = 10/21 (47%), Gaps = 6/21 (28%)
Query: 498 GTGKTAT------VHAVMRKL 512
GTG TAT VHA +
Sbjct: 196 GTGNTATSADVAEVHAFIHHK 216
>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain
cytoplasmic; motor protein, AAA+ protein, ASCE protein,
P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma
japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A
Length = 2695
Score = 31.0 bits (70), Expect = 1.3
Identities = 16/74 (21%), Positives = 26/74 (35%), Gaps = 10/74 (13%)
Query: 143 CREAEFQSIHRFLLSKISQ------STTGCMYISGVPGTGKTATVHAVMRKLKQEIGDKF 196
+ + F FL K Q + + + G G GKTAT V+ + G
Sbjct: 898 GQRSGFSMSEEFLK-KCMQFYYMQKTQQALI-LVGKAGCGKTATWKTVIDAMAIFDGHAN 955
Query: 197 VYVEMN--ALSIPE 208
V ++ L+
Sbjct: 956 VVYVIDTKVLTKES 969
Score = 29.0 bits (65), Expect = 5.3
Identities = 18/78 (23%), Positives = 28/78 (35%), Gaps = 16/78 (20%)
Query: 135 SRVPE-SLPCREAEFQSI---------HRFLLSKISQSTTGCMYISGVPGTGKTATVHAV 184
S +P SL E I H + + S G + G PG+GKT ++
Sbjct: 1229 SEIPSVSLEAHEVMRPDIVIPTIDTIKHEKIFYDLLNSKRGIILC-GPPGSGKTMIMNNA 1287
Query: 185 MRKLKQEIGDKFVYVEMN 202
+R + V +N
Sbjct: 1288 LRNS-----SLYDVVGIN 1300
Score = 28.7 bits (64), Expect = 6.3
Identities = 16/68 (23%), Positives = 24/68 (35%), Gaps = 11/68 (16%)
Query: 459 SRVPE-SLPCREAEFQSI---------HRFLLSKISQSTTGCMYISGVPGTGKTATVHAV 508
S +P SL E I H + + S G + G PG+GKT ++
Sbjct: 1229 SEIPSVSLEAHEVMRPDIVIPTIDTIKHEKIFYDLLNSKRGIILC-GPPGSGKTMIMNNA 1287
Query: 509 MRKLKQEI 516
+R
Sbjct: 1288 LRNSSLYD 1295
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 30.4 bits (69), Expect = 1.4
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 240 RPHGPCVLLIDELDYLCNKRQD 261
R + P ++ IDE+D LC R +
Sbjct: 102 RENKPSIIFIDEIDSLCGSRSE 123
>2btm_A TIM, protein (triosephosphate isomerase); thermophilic
triose-phosphate, glycolysis; 2.40A {Geobacillus
stearothermophilus} SCOP: c.1.1.1 PDB: 1btm_A
Length = 252
Score = 30.1 bits (69), Expect = 1.4
Identities = 7/28 (25%), Positives = 12/28 (42%), Gaps = 6/28 (21%)
Query: 174 GTGKTAT------VHAVMRKLKQEIGDK 195
GTGK++T V +R + +
Sbjct: 172 GTGKSSTPEDANSVCGHIRSVVSRLFGP 199
Score = 30.1 bits (69), Expect = 1.4
Identities = 7/28 (25%), Positives = 12/28 (42%), Gaps = 6/28 (21%)
Query: 498 GTGKTAT------VHAVMRKLKQEIGDK 519
GTGK++T V +R + +
Sbjct: 172 GTGKSSTPEDANSVCGHIRSVVSRLFGP 199
>3s6d_A Putative triosephosphate isomerase; seattle structural genomics
center for infectious disease, S pathogenic fungus,
eukaryote; 2.20A {Coccidioides immitis RS}
Length = 310
Score = 30.0 bits (68), Expect = 1.7
Identities = 5/27 (18%), Positives = 10/27 (37%), Gaps = 6/27 (22%)
Query: 174 GTGKTAT------VHAVMRKLKQEIGD 194
G + A V + +R + + I
Sbjct: 229 GKPQPARVDHVGAVVSGIRSVIERIDR 255
Score = 30.0 bits (68), Expect = 1.7
Identities = 5/27 (18%), Positives = 10/27 (37%), Gaps = 6/27 (22%)
Query: 498 GTGKTAT------VHAVMRKLKQEIGD 518
G + A V + +R + + I
Sbjct: 229 GKPQPARVDHVGAVVSGIRSVIERIDR 255
>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase,
ATP-binding cassette, ATP-binding, endosome, MEM
nucleotide-binding; 2.70A {Saccharomyces cerevisiae}
PDB: 3eih_A* 2rko_A 3mhv_C
Length = 322
Score = 30.0 bits (68), Expect = 1.7
Identities = 7/22 (31%), Positives = 13/22 (59%)
Query: 240 RPHGPCVLLIDELDYLCNKRQD 261
R + P ++ ID++D L R +
Sbjct: 107 RENKPSIIFIDQVDALTGTRGE 128
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 29.8 bits (68), Expect = 1.8
Identities = 30/99 (30%), Positives = 39/99 (39%), Gaps = 40/99 (40%)
Query: 171 GVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSI--PEPKRAYSRILELLLN--VDAP 226
G PG GKT AV E G +N +S+ PE LLN V
Sbjct: 51 GPPGCGKTLLAKAVAN----ESG-------LNFISVKGPE-----------LLNMYVGES 88
Query: 227 PEQA------KAMLERHFTRPHGPCVLLIDELDYLCNKR 259
E+A +A + PCV+ DE+D LC +R
Sbjct: 89 -ERAVRQVFQRA-------KNSAPCVIFFDEVDALCPRR 119
>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta
domain, C-terminal helix, ATP-binding, E
nucleotide-binding; 2.90A {Saccharomyces cerevisiae}
PDB: 2qpa_A*
Length = 355
Score = 29.8 bits (67), Expect = 2.1
Identities = 7/22 (31%), Positives = 13/22 (59%)
Query: 240 RPHGPCVLLIDELDYLCNKRQD 261
R + P ++ ID++D L R +
Sbjct: 140 RENKPSIIFIDQVDALTGTRGE 161
>2jgq_A Triosephosphate isomerase; glycolysis, pentose shunt,
gluconeogenesis, lipid synthesis, fatty acid
biosynthesis; HET: QGA; 2.3A {Helicobacter pylori}
Length = 233
Score = 29.4 bits (67), Expect = 2.1
Identities = 5/21 (23%), Positives = 11/21 (52%), Gaps = 6/21 (28%)
Query: 174 GTGKTAT------VHAVMRKL 188
GT K+A+ H ++++
Sbjct: 164 GTKKSASLEDIYLTHGFLKQI 184
Score = 29.4 bits (67), Expect = 2.1
Identities = 5/21 (23%), Positives = 11/21 (52%), Gaps = 6/21 (28%)
Query: 498 GTGKTAT------VHAVMRKL 512
GT K+A+ H ++++
Sbjct: 164 GTKKSASLEDIYLTHGFLKQI 184
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 29.5 bits (67), Expect = 2.2
Identities = 25/100 (25%), Positives = 36/100 (36%), Gaps = 36/100 (36%)
Query: 171 GVPGTGKTATVHAV--------MRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLN 222
G PGTGKT AV +R + E+ KF I E + ++
Sbjct: 58 GPPGTGKTLLAKAVATETNATFIRVVGSELVKKF---------IGEGAS---LVKDIF-- 103
Query: 223 VDAPPEQAKAMLERHFTRPHGPCVLLIDELDYLCNKRQDV 262
+ AK P ++ IDE+D + KR D
Sbjct: 104 -----KLAKE---------KAPSIIFIDEIDAIAAKRTDA 129
>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA
ATPase, ATP-binding, coiled coil, membrane,
nucleotide-binding, phosphorylation; HET: ATP; 3.00A
{Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A
2jq9_A 2k3w_A 1yxr_A
Length = 444
Score = 29.9 bits (67), Expect = 2.4
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 240 RPHGPCVLLIDELDYLCNKRQD 261
R + P ++ IDE+D LC R +
Sbjct: 224 RENKPSIIFIDEIDSLCGSRSE 245
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 29.7 bits (67), Expect = 2.9
Identities = 13/95 (13%), Positives = 27/95 (28%), Gaps = 7/95 (7%)
Query: 167 MYISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNVDAP 226
+ + G PGTGK+ A+ L E + + P P+ ++ +
Sbjct: 63 VLLIGEPGTGKSMLGQAMAELLPTETLEDILVF-------PNPEDENMPRIKTVPACQGR 115
Query: 227 PEQAKAMLERHFTRPHGPCVLLIDELDYLCNKRQD 261
K + + + + D
Sbjct: 116 RIVEKYREKAKSQESVKSSNMRLKSTVLVPKLLVD 150
Score = 28.1 bits (63), Expect = 8.7
Identities = 9/25 (36%), Positives = 13/25 (52%)
Query: 491 MYISGVPGTGKTATVHAVMRKLKQE 515
+ + G PGTGK+ A+ L E
Sbjct: 63 VLLIGEPGTGKSMLGQAMAELLPTE 87
>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and
beta protein; HET: GSP; 1.90A {Methanocaldococcus
jannaschii} PDB: 2hf8_A*
Length = 226
Score = 28.8 bits (65), Expect = 3.3
Identities = 7/24 (29%), Positives = 12/24 (50%)
Query: 169 ISGVPGTGKTATVHAVMRKLKQEI 192
G G+GKT + ++ LK +
Sbjct: 43 FMGAIGSGKTLLIEKLIDNLKDKY 66
Score = 28.8 bits (65), Expect = 3.3
Identities = 7/24 (29%), Positives = 12/24 (50%)
Query: 493 ISGVPGTGKTATVHAVMRKLKQEI 516
G G+GKT + ++ LK +
Sbjct: 43 FMGAIGSGKTLLIEKLIDNLKDKY 66
>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding
protein; 2.30A {Archaeoglobus fulgidus}
Length = 221
Score = 28.7 bits (65), Expect = 3.4
Identities = 7/24 (29%), Positives = 13/24 (54%)
Query: 169 ISGVPGTGKTATVHAVMRKLKQEI 192
I G G+GKT + + ++ E+
Sbjct: 35 IMGAIGSGKTLLIERTIERIGNEV 58
Score = 28.7 bits (65), Expect = 3.4
Identities = 7/24 (29%), Positives = 13/24 (54%)
Query: 493 ISGVPGTGKTATVHAVMRKLKQEI 516
I G G+GKT + + ++ E+
Sbjct: 35 IMGAIGSGKTLLIERTIERIGNEV 58
>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD,
CDC48, ATP-binding, lipid-binding, nucle binding,
nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus
musculus}
Length = 301
Score = 29.1 bits (66), Expect = 3.5
Identities = 10/20 (50%), Positives = 11/20 (55%)
Query: 240 RPHGPCVLLIDELDYLCNKR 259
R PCVL DELD + R
Sbjct: 105 RQAAPCVLFFDELDSIAKAR 124
>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A
{Sulfolobus acidocaldarius} SCOP: c.37.1.1
Length = 194
Score = 28.5 bits (63), Expect = 4.4
Identities = 7/24 (29%), Positives = 13/24 (54%)
Query: 168 YISGVPGTGKTATVHAVMRKLKQE 191
++G+PG GK+ + V L +
Sbjct: 5 IVTGIPGVGKSTVLAKVKEILDNQ 28
Score = 28.5 bits (63), Expect = 4.4
Identities = 7/24 (29%), Positives = 13/24 (54%)
Query: 492 YISGVPGTGKTATVHAVMRKLKQE 515
++G+PG GK+ + V L +
Sbjct: 5 IVTGIPGVGKSTVLAKVKEILDNQ 28
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.0 bits (61), Expect = 4.6
Identities = 13/52 (25%), Positives = 18/52 (34%), Gaps = 23/52 (44%)
Query: 54 EKEENHVIGKLDTAPVENLRPRSLKSTKKSQHATPSSHKPNVSTPSSIKKTV 105
EK+ + KL SLK +A S P +IK T+
Sbjct: 18 EKQA---LKKLQA---------SLK-----LYA-DDS-AP----ALAIKATM 46
Score = 28.0 bits (61), Expect = 4.6
Identities = 13/52 (25%), Positives = 18/52 (34%), Gaps = 23/52 (44%)
Query: 378 EKEENHVIGKLDTAPVENLRPRSLKSTKKSQHATPSSHKPNVSTPSSIKKTV 429
EK+ + KL SLK +A S P +IK T+
Sbjct: 18 EKQA---LKKLQA---------SLK-----LYA-DDS-AP----ALAIKATM 46
>3bos_A Putative DNA replication factor; P-loop containing nucleoside
triphosphate hydrolases, struct genomics; HET: MSE CDP;
1.75A {Shewanella amazonensis} PDB: 3sc3_A
Length = 242
Score = 28.3 bits (64), Expect = 4.7
Identities = 27/149 (18%), Positives = 48/149 (32%), Gaps = 48/149 (32%)
Query: 168 YISGVPGTGKTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYS--RILELLLNVDA 225
Y+ G +G+T +HA + +E + IP A +LE L D
Sbjct: 56 YLWGPVKSGRTHLIHA--------ACARANELERRSFYIPLGIHASISTALLEGLEQFD- 106
Query: 226 PPEQAKAMLERHFTRPHGPCVLLIDELDYLCNKR--QDVI---YNILEYLNKPKSRLIIL 280
++ ID++D + ++ I YN + + + LI+
Sbjct: 107 --------------------LICIDDVDAVAGHPLWEEAIFDLYNRV--AEQKRGSLIV- 143
Query: 281 CIANTMDLPERTLKGK---VSSR--MGLT 304
+ + SR GLT
Sbjct: 144 ----SASASPMEAGFVLPDLVSRMHWGLT 168
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}
Length = 235
Score = 28.4 bits (64), Expect = 5.0
Identities = 24/113 (21%), Positives = 47/113 (41%), Gaps = 13/113 (11%)
Query: 169 ISGVPGTGKTA-TVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRA-YSRILELLLNVDAP 226
++G PGTGKT ++H + + L+ GD +YV + E + + + + + +
Sbjct: 28 LTGEPGTGKTIFSLHFIAKGLRD--GDPCIYV-----TTEESRDSIIRQAKQFNWDFEEY 80
Query: 227 PEQAKAMLERHFTRPHGPCVLLIDELDYLCNKRQDVIYNILEYLNKPKSRLII 279
E+ +++ L+ + L NK VI + RL+I
Sbjct: 81 IEKKLIIIDALMKEKEDQWSLVNLTPEELVNK---VIEAKQKLGYGKA-RLVI 129
>3q8k_A Flap endonuclease 1; helix-3 turn-helix, hydrophobic wedge, 3' flap
binding site, hydrolase-DNA complex, DNA repair,
replication; HET: DNA; 2.20A {Homo sapiens} PDB: 3q8l_A*
3q8m_A*
Length = 341
Score = 28.6 bits (64), Expect = 5.1
Identities = 32/179 (17%), Positives = 62/179 (34%), Gaps = 47/179 (26%)
Query: 112 PKRLTAPLTPSTPLQLARESLHLSRVPESLPCREAEFQSIHRFLLSKISQSTTGCMYISG 171
L LT S +L + HLSR+ + L + +F + +L G Y
Sbjct: 186 SPVLMRHLTASEAKKLPIQEFHLSRILQELGLNQEQF--VDLCILL-------GSDYCES 236
Query: 172 VPGTG-KTA--------TVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLN 222
+ G G K A ++ ++R+L + +L L
Sbjct: 237 IRGIGPKRAVDLIQKHKSIEEIVRRLDPNKYPVPENWL------------HKEAHQLFLE 284
Query: 223 --VDAPPEQAKAMLERHFTRPHGPCVLLIDEL-DYLCNKR---QDVIYNILEYLNKPKS 275
V P E ++ P +EL ++C ++ ++ I + ++ L+K +
Sbjct: 285 PEVLDPESV-----ELKWSEP------NEEELIKFMCGEKQFSEERIRSGVKRLSKSRQ 332
>3sm3_A SAM-dependent methyltransferases; NESG, structural genomics,
PSI-biology, protein structure in northeast structural
genomics; 2.20A {Methanosarcina mazei}
Length = 235
Score = 28.2 bits (63), Expect = 5.4
Identities = 14/61 (22%), Positives = 26/61 (42%), Gaps = 2/61 (3%)
Query: 177 KTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSR--ILELLLNVDAPPEQAKAML 234
+ A A L Q+ G K + NA S+ ++ + L +V P E+++ +
Sbjct: 66 RLAETAARSPGLNQKTGGKAEFKVENASSLSFHDSSFDFAVMQAFLTSVPDPKERSRIIK 125
Query: 235 E 235
E
Sbjct: 126 E 126
>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins
(A/B), protein binding, transferase, phosphotransferase;
HET: ADP; 1.76A {Homo sapiens} PDB: 3iik_A 3iil_A*
3iim_A* 1rkb_A
Length = 180
Score = 28.1 bits (62), Expect = 5.9
Identities = 14/60 (23%), Positives = 24/60 (40%), Gaps = 8/60 (13%)
Query: 169 ISGVPGTGKTATVHAVMRKLKQEIGDKFV----YVEMNALSIPEPKRAYSRILELLLNVD 224
++G PG GKT + ++L + G K++ L + IL+ VD
Sbjct: 16 LTGTPGVGKT----TLGKELASKSGLKYINVGDLAREEQLYDGYDEEYDCPILDEDRVVD 71
>1y63_A LMAJ004144AAA protein; structural genomics, protein structure
initiative, PSI, SGPP structural genomics of pathogenic
protozoa consortium; HET: ADP; 1.70A {Leishmania major}
SCOP: c.37.1.1
Length = 184
Score = 27.8 bits (61), Expect = 6.0
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 169 ISGVPGTGKTATVHAVMRKLKQ 190
I+G PGTGKT+ + +L
Sbjct: 15 ITGTPGTGKTSMAEMIAAELDG 36
Score = 27.8 bits (61), Expect = 6.0
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 493 ISGVPGTGKTATVHAVMRKLKQ 514
I+G PGTGKT+ + +L
Sbjct: 15 ITGTPGTGKTSMAEMIAAELDG 36
>2v0c_A Aminoacyl-tRNA synthetase; ligase, nucleotide-binding, protein
biosynthesis; HET: LMS ANZ; 1.85A {Thermus thermophilus}
PDB: 1h3n_A* 1obc_A* 1obh_A* 2bte_A* 2byt_A 2v0g_A*
Length = 878
Score = 28.7 bits (65), Expect = 6.1
Identities = 10/74 (13%), Positives = 18/74 (24%)
Query: 352 CANHYTNEKKSKSKYWDWVSSSSDEEEKEENHVIGKLDTAPVENLRPRSLKSTKKSQHAT 411
A + + + E E+ + + LRP + + A
Sbjct: 578 LAWTDFGPVEVEGSVVRLPEPTRIRLEIPESALSLEDVRKMGAELRPHEDGTLHLWKPAV 637
Query: 412 PSSHKPNVSTPSSI 425
S K N
Sbjct: 638 MSKSKGNGVMVGPF 651
>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A
{Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*
Length = 287
Score = 28.0 bits (61), Expect = 7.6
Identities = 10/60 (16%), Positives = 24/60 (40%), Gaps = 9/60 (15%)
Query: 145 EAEFQSIHRFLLSKISQSTTG-----CMYISGVPGTGKTATVHAVMRKLKQEIGDKFVYV 199
+ +F++ L ++ Q + G PG+GKT ++ + +E + +
Sbjct: 9 DKQFENRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKT----SLRSAIFEETQGNVIVI 64
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding,
hydrolase; 2.70A {Drosophila melanogaster}
Length = 297
Score = 28.0 bits (63), Expect = 8.2
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 240 RPHGPCVLLIDELDYLCNKRQD 261
R P ++ IDE+D L ++R
Sbjct: 110 RHMQPSIIFIDEVDSLLSERSS 131
>1rxw_A Flap structure-specific endonuclease; helical clamp, helix-3
turn-helix, hydrophobic wedge, 3' FLA site,
hydrolase-DNA complex; 2.00A {Archaeoglobus fulgidus}
SCOP: a.60.7.1 c.120.1.2 PDB: 1rxv_A
Length = 336
Score = 27.9 bits (62), Expect = 8.5
Identities = 23/117 (19%), Positives = 37/117 (31%), Gaps = 26/117 (22%)
Query: 165 GCMYISGVPGTG-KTATVHAVMRKLKQEIGDKFVYVEMNALSIPEPKRAYSRILELLLNV 223
G Y GV G G K A + GD F ++ ++ I LN
Sbjct: 233 GTDYNEGVKGVGVKKAL------NYIKTYGDIFRALK----ALKVNIDHVEEIRNFFLNP 282
Query: 224 DAPPEQAKAMLERHFTRPHGPCVLLIDEL-DYLCNKR---QDVIYNILEYLNKPKSR 276
+ F P ++ ++LC + ++ + LE L KS
Sbjct: 283 PVTDD-----YRIEFREPD------FEKAIEFLCEEHDFSRERVEKALEKLKALKST 328
>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural
genomics consortium, ATP- hydrolase, magnesium,
metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo
sapiens}
Length = 357
Score = 27.8 bits (62), Expect = 9.5
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 240 RPHGPCVLLIDELDYLCNKRQD 261
R P V+ IDE+D L ++R D
Sbjct: 173 RCQQPAVIFIDEIDSLLSQRGD 194
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 27.9 bits (62), Expect = 9.8
Identities = 7/22 (31%), Positives = 14/22 (63%)
Query: 240 RPHGPCVLLIDELDYLCNKRQD 261
R P ++ ID++D L +R++
Sbjct: 204 RELQPSIIFIDQVDSLLCERRE 225
>2vli_A Antibiotic resistance protein; transferase, tunicamycin,
phosphotransferase; 1.95A {Deinococcus radiodurans}
Length = 183
Score = 27.2 bits (60), Expect = 9.8
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 169 ISGVPGTGKTATVHAVMRKL 188
I+G G GKT T H + +L
Sbjct: 10 INGPFGVGKTHTAHTLHERL 29
Score = 27.2 bits (60), Expect = 9.8
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 493 ISGVPGTGKTATVHAVMRKL 512
I+G G GKT T H + +L
Sbjct: 10 INGPFGVGKTHTAHTLHERL 29
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.313 0.128 0.369
Gapped
Lambda K H
0.267 0.0792 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,355,316
Number of extensions: 415842
Number of successful extensions: 1114
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1081
Number of HSP's successfully gapped: 182
Length of query: 520
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 422
Effective length of database: 3,965,535
Effective search space: 1673455770
Effective search space used: 1673455770
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 59 (26.4 bits)