RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy879
(317 letters)
>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 = 446 bits (1149), Expect = e-159
Identities = 126/313 (40%), Positives = 201/313 (64%), Gaps = 2/313 (0%)
Query: 1 IEKYRPQTFSDIVGNEDTVERLKVFSSSGNVPNIIISGPPGVGKTTTILCLARILLGPSF 60
+EKYRP+T ++VG ++ ++RLK + N+P+++ SGPPG GKT T + LAR L G ++
Sbjct: 8 VEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENW 67
Query: 61 KDAVLELNASNDRGIDTVRNKIKMFAQQKVTLPPGRHKIVILDEADSMTDGAQQALRRTM 120
+D +E+NAS++RGID VR+KIK FA+ + KI+ LDEAD++T AQ ALRRTM
Sbjct: 68 RDNFIEMNASDERGIDVVRHKIKEFAR-TAPIGGAPFKIIFLDEADALTADAQAALRRTM 126
Query: 121 EIYSNTTRFALACNNSEKIIEPIQSRCAMLRYNKLTDAQLLSKVIEICEKENISHTNDGL 180
E+YS + RF L+CN +IIEPIQSRCA+ R+ + + +++EICEKE + T DGL
Sbjct: 127 EMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKITEDGL 186
Query: 181 EAIVFTAQGDMRQALNNLQSTHNGFGHVTAEYVFKVCDEPHPLAVKEMLLNCVEGNMKDS 240
EA+++ + GD R+A+N LQ V A+ ++++ P + E++ ++GN ++
Sbjct: 187 EALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITATARPEEMTELIQTALKGNFMEA 246
Query: 241 YKIIHHL-YKLGYAPEDIIGNIFRVAKTLDIPEPLKLSIIQEIGNVHLRISEGVNSLLQL 299
+++ L + G + EDI+ +FR ++ I + LK+ +I ++G V R++EG N +QL
Sbjct: 247 RELLDRLMVEYGMSGEDIVAQLFREIISMPIKDSLKVQLIDKLGEVDFRLTEGANERIQL 306
Query: 300 SGLLARLCIVGSK 312
LA L + K
Sbjct: 307 DAYLAYLSTLAKK 319
>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 = 445 bits (1146), Expect = e-159
Identities = 187/314 (59%), Positives = 248/314 (78%), Gaps = 5/314 (1%)
Query: 1 IEKYRPQTFSDIVGNEDTVERLKVFSSSGNVPNIIISGPPGVGKTTTILCLARILLGPSF 60
+EKYRPQ SDIVGN++T++RL+ + GN+P++IISG PG+GKTT++ CLA LLG S+
Sbjct: 12 VEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGRSY 71
Query: 61 KDAVLELNASNDRGIDTVRNKIKMFAQQKVTLPPGRHKIVILDEADSMTDGAQQALRRTM 120
D VLELNAS+DRGID VRN+IK FAQ+K+ LPPG+HKIVILDEADSMT GAQQALRRTM
Sbjct: 72 ADGVLELNASDDRGIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRRTM 131
Query: 121 EIYSNTTRFALACNNSEKIIEPIQSRCAMLRYNKLTDAQLLSKVIEICEKENISHTNDGL 180
E+YSN+TRFA ACN S KIIEP+QS+CA+LRY+KL+D +L ++++I + E++ +TNDGL
Sbjct: 132 ELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQIIKLEDVKYTNDGL 191
Query: 181 EAIVFTAQGDMRQALNNLQSTHNGFGHVTAEYVFKVCDEPHPLAVKEMLLNCVEGNMKDS 240
EAI+FTA+GDMRQA+NNLQST G G V A+ VFK+ D PHPL VK+MLL N++DS
Sbjct: 192 EAIIFTAEGDMRQAINNLQSTVAGHGLVNADNVFKIVDSPHPLIVKKMLLAS---NLEDS 248
Query: 241 YKIIH-HLYKLGYAPEDIIGNIFRVAKTL-DIPEPLKLSIIQEIGNVHLRISEGVNSLLQ 298
+I+ L+K GY+ DI+ FRV K L + E ++L +I+EIG H+RI EGV + LQ
Sbjct: 249 IQILRTDLWKKGYSSIDIVTTSFRVTKNLAQVKESVRLEMIKEIGLTHMRILEGVGTYLQ 308
Query: 299 LSGLLARLCIVGSK 312
L+ +LA++ + +K
Sbjct: 309 LASMLAKIHKLNNK 322
>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 = 440 bits (1133), Expect = e-157
Identities = 137/313 (43%), Positives = 202/313 (64%), Gaps = 2/313 (0%)
Query: 1 IEKYRPQTFSDIVGNEDTVERLKVFSSSGNVPNIIISGPPGVGKTTTILCLARILLGPSF 60
+EKYRPQ DIVG E V+RLK + +G++P+++ +GPPGVGKTT L LAR L G ++
Sbjct: 16 VEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGENW 75
Query: 61 KDAVLELNASNDRGIDTVRNKIKMFAQQKVTLPPGRHKIVILDEADSMTDGAQQALRRTM 120
+ LELNAS++RGI+ +R K+K FA+ K + KI+ LDEAD++T AQQALRRTM
Sbjct: 76 RHNFLELNASDERGINVIREKVKEFARTK-PIGGASFKIIFLDEADALTQDAQQALRRTM 134
Query: 121 EIYSNTTRFALACNNSEKIIEPIQSRCAMLRYNKLTDAQLLSKVIEICEKENISHTNDGL 180
E++S+ RF L+CN S KIIEPIQSRCA+ R+ L D + ++ I E E + T +GL
Sbjct: 135 EMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELTEEGL 194
Query: 181 EAIVFTAQGDMRQALNNLQSTHNGFGHVTAEYVFKVCDEPHPLAVKEMLLNCVEGNMKDS 240
+AI++ A+GDMR+A+N LQ+ +T E VF V P ++EM+L ++GN +
Sbjct: 195 QAILYIAEGDMRRAINILQAAAALDKKITDENVFMVASRARPEDIREMMLLALKGNFLKA 254
Query: 241 YKII-HHLYKLGYAPEDIIGNIFRVAKTLDIPEPLKLSIIQEIGNVHLRISEGVNSLLQL 299
+ + L K G + ED++ + + L I EP K+ + +IG + R+ EG N ++QL
Sbjct: 255 REKLREILLKQGLSGEDVLVQMHKEVFNLPIEEPKKVLLADKIGEYNFRLVEGANEIIQL 314
Query: 300 SGLLARLCIVGSK 312
LLA+ ++G K
Sbjct: 315 EALLAQFTLIGKK 327
>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 = 421 bits (1085), Expect = e-149
Identities = 98/316 (31%), Positives = 178/316 (56%), Gaps = 8/316 (2%)
Query: 1 IEKYRPQTFSDIVGNEDTVERLKVFSSSGNVPNIIISGPPGVGKTTTILCLARILLGPSF 60
+EKYRP+T ++ G + + ++ F G +P+++ GPPG GKT+TI+ LAR + G ++
Sbjct: 16 VEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGKNY 75
Query: 61 KDAVLELNASNDRGIDTVRNKIKMFAQQKVTLPPGRHKIVILDEADSMTDGAQQALRRTM 120
+ VLELNAS+DRGID VRN+IK FA + G K++ILDEAD+MT+ AQ ALRR +
Sbjct: 76 SNMVLELNASDDRGIDVVRNQIKDFASTRQIFSKG-FKLIILDEADAMTNAAQNALRRVI 134
Query: 121 EIYSNTTRFALACNNSEKIIEPIQSRCAMLRYNKLTDAQLLSKVIEICEKENISHTNDGL 180
E Y+ TRF + N + K+ + S+C R+ L + ++ + E + + +
Sbjct: 135 ERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLVHEKLKLSPNAE 194
Query: 181 EAIVFTAQGDMRQALNNLQSTHNGFG-----HVTAEYVFKVCDEPHPLAVKEMLLNCVEG 235
+A++ + GDMR+ LN LQS ++ + +++ C P P +K +L + +E
Sbjct: 195 KALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGAPRPSDLKAVLKSILED 254
Query: 236 NMKDSYKIIHHLYKL-GYAPEDIIGNIFRVAKTLDIP-EPLKLSIIQEIGNVHLRISEGV 293
+ ++ ++ + G A D+I I ++ + ++ E ++ ++ ++ ++ IS+G
Sbjct: 255 DWGTAHYTLNKVRSAKGLALIDLIEGIVKILEDYELQNEETRVHLLTKLADIEYSISKGG 314
Query: 294 NSLLQLSGLLARLCIV 309
N +Q S ++ +
Sbjct: 315 NDQIQGSAVIGAIKAS 330
>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 = 402 bits (1035), Expect = e-141
Identities = 110/326 (33%), Positives = 171/326 (52%), Gaps = 17/326 (5%)
Query: 1 IEKYRPQTFSDIVGNEDTVERLKVFSSSGNVPNIIISGPPGVGKTTTILCLARILLGPS- 59
+EKYRP+ ++ + V LK S N+P+++ GPPG GKT+TIL L + L GP
Sbjct: 28 VEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGPDL 87
Query: 60 FKDAVLELNASNDRGIDTVRNKIKMFAQQKVTLPPGR---------HKIVILDEADSMTD 110
K +LELNAS++RGI VR K+K FA+ V+ P +KI+ILDEADSMT
Sbjct: 88 MKSRILELNASDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSMTA 147
Query: 111 GAQQALRRTMEIYSNTTRFALACNNSEKIIEPIQSRCAMLRYNKLTDAQLLSKVIEICEK 170
AQ ALRRTME YS TRF L CN +II+P+ S+C+ R+ L + + ++ I E+
Sbjct: 148 DAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDASNAIDRLRFISEQ 207
Query: 171 ENISHTNDGLEAIVFTAQGDMRQALNNLQSTHNGFGH------VTAEYVFKVCDEPHPLA 224
EN+ + LE I+ + GD+R+ + LQS G + +T+ V ++
Sbjct: 208 ENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLGDGKNITSTQVEELAGVVPHDI 267
Query: 225 VKEMLLNCVEGNMKDSYKIIHHLYKLGYAPEDIIGNIFRVAKTLD-IPEPLKLSIIQEIG 283
+ E++ G+ + K ++ K G++ ++ + T D K I +
Sbjct: 268 LIEIVEKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLHEYYITNDNFDTNFKNQISWLLF 327
Query: 284 NVHLRISEGVNSLLQLSGLLARLCIV 309
R++ G N +QL LL ++ +
Sbjct: 328 TTDSRLNNGTNEHIQLLNLLVKISQL 353
>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 = 354 bits (912), Expect = e-124
Identities = 99/218 (45%), Positives = 149/218 (68%), Gaps = 1/218 (0%)
Query: 1 IEKYRPQTFSDIVGNEDTVERLKVFSSSGNVPNIIISGPPGVGKTTTILCLARILLGPSF 60
+EKYRP+T ++VG ++ ++RLK + N+P+++ SGPPG GKT T + LAR L G ++
Sbjct: 8 VEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGENW 67
Query: 61 KDAVLELNASNDRGIDTVRNKIKMFAQQKVTLPPGRHKIVILDEADSMTDGAQQALRRTM 120
+D +E+NAS++RGID VR+KIK FA+ + KI+ LDEAD++T AQ ALRRTM
Sbjct: 68 RDNFIEMNASDERGIDVVRHKIKEFAR-TAPIGGAPFKIIFLDEADALTADAQAALRRTM 126
Query: 121 EIYSNTTRFALACNNSEKIIEPIQSRCAMLRYNKLTDAQLLSKVIEICEKENISHTNDGL 180
E+YS + RF L+CN +IIEPIQSRCA+ R+ + + +++EICEKE + T DGL
Sbjct: 127 EMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKITEDGL 186
Query: 181 EAIVFTAQGDMRQALNNLQSTHNGFGHVTAEYVFKVCD 218
EA+++ + GD R+A+N LQ V A+ ++++
Sbjct: 187 EALIYISGGDFRKAINALQGAAAIGEVVDADTIYQITA 224
>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp
loader, sliding clamp, primer-TEM DNA, DNA binding
protein-DNA complex; HET: DNA ADP 08T; 3.20A
{Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*
Length = 324
Score = 342 bits (878), Expect = e-118
Identities = 79/316 (25%), Positives = 140/316 (44%), Gaps = 25/316 (7%)
Query: 1 IEKYRPQTFSDIVGNEDTVERLKVFSSSGNVPNIIISGP-PGVGKTTTILCLARILLGPS 59
+KYRP T + + E K +S G +P+II+ P PG GKTT L +
Sbjct: 17 EQKYRPSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVNAD- 75
Query: 60 FKDAVLELNASNDRGIDTVRNKIKMFAQQKVTLPPGRHKIVILDEAD-SMTDGAQQALRR 118
++ +N S D ID VR + FA GR K++++DE D S +Q+ LR
Sbjct: 76 ----MMFVNGS-DCKIDFVRGPLTNFASAAS--FDGRQKVIVIDEFDRSGLAESQRHLRS 128
Query: 119 TMEIYSNTTRFALACNNSEKIIEPIQSRCAMLRYNKLTD-------AQLLSKVIEICEKE 171
ME YS+ + NN + II+P+QSRC ++ + + TD Q++ ++ EIC+ E
Sbjct: 129 FMEAYSSNCSIIITANNIDGIIKPLQSRCRVITFGQPTDEDKIEMMKQMIRRLTEICKHE 188
Query: 172 NISHTN-DGLEAIVFTAQGDMRQALNNLQSTHNGFGHVTAEYVFKVCDEPHPLAVKEMLL 230
I+ + + A+V D R+ + L S G + A + V ++ + ++L
Sbjct: 189 GIAIADMKVVAALVKKNFPDFRKTIGELDSYS-SKGVLDAGILSLVTNDRGA--IDDVLE 245
Query: 231 NCVEGNMKDSYKIIHHLYKLGYAPEDIIGNIFRVAKTLDIPEPLKLSIIQEIGNVHLRIS 290
+ ++K + K +G + + + + + + +G +
Sbjct: 246 SLKNKDVKQLRALAP---KYAADYSWFVGKLAEEIYS-RVTPQSIIRMYEIVGENNQYHG 301
Query: 291 EGVNSLLQLSGLLARL 306
N+ L L+ L +L
Sbjct: 302 IAANTELHLAYLFIQL 317
>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 = 340 bits (873), Expect = e-117
Identities = 80/345 (23%), Positives = 152/345 (44%), Gaps = 39/345 (11%)
Query: 1 IEKYRPQTFSDIVGNEDTVERLKVFSS-SGNVPNIIISGPPGVGKTTTILCLARILLGPS 59
++KYRP++ + + NE+ LK S ++P++++ GP G GK T + L + GP
Sbjct: 5 VDKYRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPG 64
Query: 60 F------------------------KDAVLELNASNDRGID--TVRNKIKMFAQQKV--- 90
LE+ S+ D ++ +K AQ +
Sbjct: 65 VYRLKIDVRQFVTASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDF 124
Query: 91 ----TLPPGRHKIVILDEADSMTDGAQQALRRTMEIYSNTTRFALACNNSEKIIEPIQSR 146
R+K VI++EA+S+T AQ ALRRTME YS R + C++ II PI+S+
Sbjct: 125 QDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIAPIKSQ 184
Query: 147 CAMLRYNKLTDAQLLSKVIEICEKENIS-HTNDGLEAIVFTAQGDMRQALNNLQSTH--N 203
C ++R +D+++ + + ++ E I T D L+ I + G++R +L L+S N
Sbjct: 185 CLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLESMALNN 244
Query: 204 GFGHVTAEYVFKVCDEPHPLA-VKEMLLNCVEGNMKDSYKIIHHLYKLGYAPEDIIGNIF 262
++ + K ++++ ++ + +++ L I+ +
Sbjct: 245 ELALKSSSPIIKPDWIIVIHKLTRKIVKERSVNSLIECRAVLYDLLAHCIPANIILKELT 304
Query: 263 RVAKTLD-IPEPLKLSIIQEIGNVHLRISEGVNSLLQLSGLLARL 306
++ + K SII+ R+S G ++ L G +A++
Sbjct: 305 FSLLDVETLNTTNKSSIIEYSSVFDERLSLGNKAIFHLEGFIAKV 349
>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 = 317 bits (814), Expect = e-106
Identities = 67/358 (18%), Positives = 132/358 (36%), Gaps = 56/358 (15%)
Query: 1 IEKYRPQTFSDIVGNEDTVERLKVF-----------------SSSGNVPNIIISGPPGVG 43
KY P + GN+ +V +LK + SG ++ GPPG+G
Sbjct: 30 TVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIG 89
Query: 44 KTTTILCLARILLGPSFKDAVLELNASNDRGIDTVRNKIKMFAQ-----------QKVTL 92
KTT +A+ +LE NAS+ R + +K ++
Sbjct: 90 KTTAAHLVAQ-----ELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQN 144
Query: 93 PPGRHKIVILDEADSMTDGAQQALRRTMEIYSNTTR-FALACNN-SEKIIEPIQSRCAML 150
G+H ++I+DE D M+ G + + + + T+ L CN + + P C +
Sbjct: 145 LNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNLPKMRPFDRVCLDI 204
Query: 151 RYNKLTDAQLLSKVIEICEKENISHTNDGLEAIVFTAQGDMRQALNNLQSTHNGFGHVTA 210
++ + + S+++ I +E + ++ ++ T +GD+RQ +N L + +
Sbjct: 205 QFRRPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLLSTISTTTKTINH 264
Query: 211 EYVFKVCDEPHPL-------AVKEMLLNCVEGNMKDSYKIIHHLYKLGYAPEDIIG---- 259
E + ++ +ML + ++ ++ L + D
Sbjct: 265 ENINEISKAWEKNIALKPFDIAHKMLDGQIYSDIGSRNFTLNDKIALYFDDFDFTPLMIQ 324
Query: 260 -NIFRVAKTLDIPEPLKLSIIQEIG---------NVHLRISEGVNSLLQLSGLLARLC 307
N ++ P L + E +R SE + SLL L +L+ +
Sbjct: 325 ENYLSTRPSVLKPGQSHLEAVAEAANCISLGDIVEKKIRSSEQLWSLLPLHAVLSSVY 382
>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase
domains, sensor 1, sensor 2, transferase; HET: DNA;
2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*
Length = 250
Score = 106 bits (266), Expect = 3e-27
Identities = 66/244 (27%), Positives = 116/244 (47%), Gaps = 42/244 (17%)
Query: 3 KYRPQTFSDIVGNEDTVERLKVFSSSGNVPN-IIISGPPGVGKTTTILCLARIL------ 55
K+RPQTF+D+VG E + L S G + + + SG GVGKT+ AR+L
Sbjct: 16 KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSI----ARLLAKGLNC 71
Query: 56 -LGP-----------------SFKDAVLELNASNDRGIDTVRNKIKMFAQQKVTLPP--G 95
G F D ++E++A++ ++ R+ + V P G
Sbjct: 72 ETGITATPCGVCDNCREIEQGRFVD-LIEIDAASRTKVEDTRDLL-----DNVQYAPARG 125
Query: 96 RHKIVILDEADSMTDGAQQALRRTMEIYSNTTRFALACNNSEKIIEPIQSRCAMLRYN-- 153
R K+ ++DE ++ + AL +T+E +F LA + +K+ I SRC L+++
Sbjct: 126 RFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRC--LQFHLK 183
Query: 154 KLTDAQLLSKVIEICEKENISHTNDGLEAIVFTAQGDMRQALNNL-QSTHNGFGHVTAEY 212
L Q+ ++ I +E+I+H L+ + A+G +R AL+ Q+ +G G V+ +
Sbjct: 184 ALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDGQVSTQA 243
Query: 213 VFKV 216
V +
Sbjct: 244 VSAM 247
>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp,
clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A
{Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B*
3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*
Length = 373
Score = 106 bits (267), Expect = 2e-26
Identities = 72/295 (24%), Positives = 129/295 (43%), Gaps = 54/295 (18%)
Query: 3 KYRPQTFSDIVGNEDTVERLKVFSSSGNVPN-IIISGPPGVGKTTTILCLARIL------ 55
K+RPQTF+D+VG E + L S G + + + SG GVGKT+ AR+L
Sbjct: 9 KWRPQTFADVVGQEHVLTALANGLSLGRIHHAYLFSGTRGVGKTSI----ARLLAKGLNC 64
Query: 56 -LGP-----------------SFKDAVLELNASNDRGIDTVRNKIKMFAQQKVTLPP--G 95
G F D ++E++A++ ++ R+ + V P G
Sbjct: 65 ETGITATPCGVCDNCREIEQGRFVD-LIEIDAASRTKVEDTRDLL-----DNVQYAPARG 118
Query: 96 RHKIVILDEADSMTDGAQQALRRTME------IYSNTTRFALACNNSEKIIEPIQSRCAM 149
R K+ ++DE ++ + AL +T+E F LA + +K+ I SRC
Sbjct: 119 RFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVK------FLLATTDPQKLPVTILSRC-- 170
Query: 150 LRYN--KLTDAQLLSKVIEICEKENISHTNDGLEAIVFTAQGDMRQALNNL-QSTHNGFG 206
L+++ L Q+ ++ I +E+I+H L+ + A+G +R AL+ Q+ +G G
Sbjct: 171 LQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLARAAEGSLRDALSLTDQAIASGDG 230
Query: 207 HVTAEYVFKVCDEPHPLAVKEMLLNCVEGNMKDSYKIIHHLYKLGYAPEDIIGNI 261
V+ + V + ++ VE N + +I+ G E ++ +
Sbjct: 231 QVSTQAVSAMLGTLDDDQALSLVEAMVEANGERVMALINEAAARGIEWEALLVEM 285
>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia
coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E*
1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*
Length = 334
Score = 90.2 bits (224), Expect = 7e-21
Identities = 62/325 (19%), Positives = 118/325 (36%), Gaps = 47/325 (14%)
Query: 16 EDTVERLKVFSSSGNVPN-IIISGPPGVGKTTTILCLARILL--GPSFKDA--------- 63
E+L +G + ++I PG+G I L+R LL P +
Sbjct: 8 RPDFEKLVASYQAGRGHHALLIQALPGMGDDALIYALSRYLLCQQPQGHKSCGHCRGCQL 67
Query: 64 --------VLELNASNDR---GIDTVR---NKIKMFAQQKVTLPPGRHKIVILDEADSMT 109
L + G+D VR K+ A+ G K+V + +A +T
Sbjct: 68 MQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNEHARL------GGAKVVWVTDAALLT 121
Query: 110 DGAQQALRRTMEIYSNTTRFALACNNSEKIIEPIQSRCAMLRYNKLTDAQLLSKVIEICE 169
D A AL +T+E T F LA E+++ ++SRC + + ++ +
Sbjct: 122 DAAANALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAVTWL----- 176
Query: 170 KENISHTNDGLEAIVFTAQGDMRQALNNLQSTHNGFGHVTAEYVFKVCDEPHPLAVKEML 229
++ + D L A + + G AL Q + + + ++ L
Sbjct: 177 SREVTMSQDALLAALRLSAGSPGAALALFQGDNWQARETLCQALAYSVPSGDWYSLLAAL 236
Query: 230 LNC-VEGNMKDSYKIIHHLYKLGYAPE-----DIIGNIFRVAKTLDIPEPLKLSIIQEIG 283
+ + ++ K + D+ G + +A L P L +I+ ++
Sbjct: 237 NHEQAPARLHWLATLLMDALKRHHGAAQVTNVDVPGLVAELANHLS-PSRL-QAILGDVC 294
Query: 284 NV--HLRISEGVNSLLQLSGLLARL 306
++ L G+N L ++ LL R+
Sbjct: 295 HIREQLMSVTGINRELLITDLLLRI 319
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 71.4 bits (176), Expect = 4e-14
Identities = 51/238 (21%), Positives = 94/238 (39%), Gaps = 50/238 (21%)
Query: 5 RPQTFSDIVGNEDTVER---LKVFSSSGNVPNIIISGPPGVGKTTTILCLARILLGPSFK 61
RP+ + +G + + L +G++ ++I+ GPPG GKTT LA ++
Sbjct: 21 RPENLAQYIGQQHLLAAGKPLPRAIEAGHLHSMILWGPPGTGKTT----LAEVIAR-YAN 75
Query: 62 DAVLELNASNDRGIDTVRNKIKMFAQQKVTLPPGRHKIVILDEADSMTDG------AQQ- 114
V ++A G+ +R + + + GR I+ +DE +QQ
Sbjct: 76 ADVERISAVTS-GVKEIR---EAIERARQNRNAGRRTILFVDE-------VHRFNKSQQD 124
Query: 115 AL-----RRTMEIYSNTTRFALACNNSEKIIEPIQSRCAMLRYNKLTDA---QLLSKVIE 166
A T+ TT N S ++ + SR + L+ Q+L++ +E
Sbjct: 125 AFLPHIEDGTITFIGATTE-----NPSFELNSALLSRARVYLLKSLSTEDIEQVLTQAME 179
Query: 167 ICEK----ENISHTNDGLEAIVFTAQGDMRQALNNL-------QSTHNGFGHVTAEYV 213
+ ++I ++ AI GD R+ALN L + +G + E +
Sbjct: 180 DKTRGYGGQDIVLPDETRRAIAELVNGDARRALNTLEMMADMAEVDDSGKRVLKPELL 237
>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 = 69.5 bits (169), Expect = 3e-13
Identities = 66/369 (17%), Positives = 118/369 (31%), Gaps = 127/369 (34%)
Query: 2 EKYRPQTFSDI-VGNEDTVERLKVFSSSGNV-------PNIIISGPPGVGKTTTILCLA- 52
+ R + ++D V + V RL+ + N++I G G GKT +A
Sbjct: 113 IEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKT----WVAL 168
Query: 53 ------RILLGPSFKDAVLELNASNDRGIDTVRNKIKMFAQQKVTLPPGRHKIV--ILDE 104
++ FK + LN N +TV ++M QK+ ++I
Sbjct: 169 DVCLSYKVQCKMDFK--IFWLNLKNCNSPETV---LEM--LQKL-----LYQIDPNWTSR 216
Query: 105 ADSM------TDGAQQALRRTM--EIYSNTTRFAL-----ACNNSEKIIEPIQSRCAML- 150
+D Q LRR + + Y N L N K C +L
Sbjct: 217 SDHSSNIKLRIHSIQAELRRLLKSKPYEN----CLLVLLNVQN--AKAWNAFNLSCKILL 270
Query: 151 --RYNKLTDAQLLSKVIEICEKENISHTNDGLEAIVFTAQGDMRQALNNLQSTHNGFGHV 208
R+ ++TD + I + H + L + + L
Sbjct: 271 TTRFKQVTDFLSAATTTHIS----LDHHSMTLTP---------DEVKSLL---------- 307
Query: 209 TAEYV-FKVCDEP------HPLAVK---EML------------LNC--VEGNMKDSYKII 244
+Y+ + D P +P + E + +NC + ++ S ++
Sbjct: 308 -LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVL 366
Query: 245 H-----HLYK-LGYAPEDIIGNIFRVAKTLDIPEPLKLSII--QEIGNVHLRISEGVNSL 296
++ L P IP L LS+I I + + + VN L
Sbjct: 367 EPAEYRKMFDRLSVFPPSA-----------HIPTIL-LSLIWFDVIKSDVMVV---VNKL 411
Query: 297 LQLSGLLAR 305
+ S L+ +
Sbjct: 412 HKYS-LVEK 419
Score = 45.6 bits (107), Expect = 2e-05
Identities = 29/279 (10%), Positives = 70/279 (25%), Gaps = 77/279 (27%)
Query: 5 RPQTFSDIVGNEDT-----VERLKVFSSS------GNVPNIIISGPPGVGKTTTILCLAR 53
R + +D + T + + P TT L+
Sbjct: 273 RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS- 331
Query: 54 ILLGPSFKDAVLELNASNDRGIDTVRNKIKMFAQQKVTLPPGRHK-----IVILDEADSM 108
++ S +D + + D + I+ L P ++ + + + +
Sbjct: 332 -IIAESIRDGLATWDNWKHVNCDKLTTIIESSLNV---LEPAEYRKMFDRLSVFPPSAHI 387
Query: 109 TDGAQQALRRTMEIY-SNTTRFALACNNSEKIIEPIQSRCAMLRYNKLTDAQLLSKVIEI 167
+ + + + ++ ++ + + + K I I
Sbjct: 388 P-------TILLSLIWFDVIK-----SDVMVVVNKLHKYSLVEKQPK-------ESTISI 428
Query: 168 CEKENISHTNDGLEAIVFTAQGDMRQALNNLQSTHNGFGHVTAEYVFKVCDEPHPLAVKE 227
+ +++ L N + H + Y + L
Sbjct: 429 -------P---SI-------YLELKVKLENEYALHR---SIVDHYNIPKTFDSDDLIPPY 468
Query: 228 MLLNCVEGNMKDSY---KIIHHLYKLGYAPEDIIGNIFR 263
+ D Y I HHL + + +FR
Sbjct: 469 L----------DQYFYSHIGHHLKNIEHPERM---TLFR 494
>2gno_A DNA polymerase III, gamma subunit-related protein; structural
genomics, joint center for structural genomics, J
protein structure initiative; HET: DNA; 2.00A
{Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20
Length = 305
Score = 65.1 bits (159), Expect = 3e-12
Identities = 44/293 (15%), Positives = 85/293 (29%), Gaps = 45/293 (15%)
Query: 36 ISGPPGVGKTTT--ILCLARILLGPSFKDAVLELN-ASNDRGIDTVRNKIKMFAQQKVTL 92
I+G L P D VLE++ + GID +R +
Sbjct: 23 INGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDIRTIK-----DFLNY 76
Query: 93 PP--GRHKIVILDEADSMTDGAQQALRRTME------IYSNTTRFALACNNSEKIIEPIQ 144
P K VI+ + + MT A A + +E + L ++ I+
Sbjct: 77 SPELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAV------IVLNTRRWHYLLPTIK 130
Query: 145 SRC------AMLRYNKLTDAQLLSKVIEICE-KENISHTNDGLEAIVFTAQGDMRQ---- 193
SR + L ++ E+ + + + + G M
Sbjct: 131 SRVFRVVVNVPKEFRDLVKEKIGDLWEELPLLERDFKTALEAYKLGAEKLSGLMESLKVL 190
Query: 194 ---ALNNLQSTHNGFGHVTAEYV---FKVCDEPHPLAVKEMLLNCVEGN-----MKDSYK 242
L + G++ + F + A+ + + N + G ++ +
Sbjct: 191 ETEKLLKKVLSKGLEGYLACRELLERFSKVESKEFFALFDQVTNTITGKDAFLLIQRLTR 250
Query: 243 IIHHLYKLGYAPEDIIGNIFRVAKTLDIPEPLKLSIIQEIGNVHLRISEGVNS 295
II H + + + I + I +H GVN+
Sbjct: 251 IILHENTWESVEDQKSVSFLDSILRVKIANLNNKLTLMNILAIHRERKRGVNA 303
>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 = 60.2 bits (145), Expect = 2e-10
Identities = 45/313 (14%), Positives = 89/313 (28%), Gaps = 53/313 (16%)
Query: 4 YRPQTFSDIVGNEDTVERLKVF------SSSGNVPNIIISGPPGVGKTTTILCLARILLG 57
Y P+ + E +++L + + + P + G PG GKT T+ L L
Sbjct: 14 YVPKR---LPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWE-LYK 69
Query: 58 PSFKDAVLELNASNDRGIDTVRNKIKMFAQQKVTLP-----------------PGRHKIV 100
+ +N R + +I + +
Sbjct: 70 DKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFL 129
Query: 101 ILDEADSMTDGAQQALRRTMEIYSNTTRFALAC-------NNSEKIIEPIQSRCAMLRYN 153
+LD+A ++ R + F +A + +
Sbjct: 130 VLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIR 189
Query: 154 KLT-DAQLLSKVIEICEKENISHTNDGLEAIVFTAQ------------GDMRQALNNLQS 200
+ ++ K ++ + + + A GD R A++ L
Sbjct: 190 FSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPLDTNRGDARLAIDILYR 249
Query: 201 T-----HNGFGHVTAEYVFKVCDEPHPLAVKEMLLNCVEGNMKDSYKIIHHLYKLGYAPE 255
+ NG H+ E V K E +E+L+ + K I K+ + P
Sbjct: 250 SAYAAQQNGRKHIAPEDVRKSSKEVLFGISEEVLIGLPL-HEKLFLLAIVRSLKISHTPY 308
Query: 256 DIIGNIFRVAKTL 268
G+ K +
Sbjct: 309 ITFGDAEESYKIV 321
>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 = 57.1 bits (137), Expect = 2e-09
Identities = 41/268 (15%), Positives = 82/268 (30%), Gaps = 42/268 (15%)
Query: 8 TFSDIVGNEDTVERLKVF----SSSGNVPNIIISGPPGVGKTTTILCLARILLGPSFKDA 63
F +I ED + + + + + G G GKT + + +D
Sbjct: 18 VFKEIPFREDILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDE 77
Query: 64 ------VLELNASNDRGIDTVR-----------------NKIKMFAQQKVTLPPGRHKIV 100
+N G + + + I+
Sbjct: 78 EYKDVKQAYVNCREVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAII 137
Query: 101 ILDEADSM--TDGAQQALRRTMEIYSNTTRFALACNNS--EKIIEPIQSRC-AMLRYNKL 155
LDE D++ G L + + +N + ++ + + + + + S + +
Sbjct: 138 YLDEVDTLVKRRGGDIVLYQLLRSDANISVIMISNDINVRDYMEPRVLSSLGPSVIFKPY 197
Query: 156 TDAQLLSKVIEICEKENISHTNDGLEAIVFTAQ------GDMRQALNNLQS---THNGFG 206
QL + + E I T D E + + A GD R+A+N L +G G
Sbjct: 198 DAEQLKFILSKYAEYGLIKGTYDD-EILSYIAAISAKEHGDARKAVNLLFRAAQLASGGG 256
Query: 207 HVTAEYVFKVCDEPHPLAVKEMLLNCVE 234
+ E+V K + + E +
Sbjct: 257 IIRKEHVDKAIVDYEQERLIEAVKALPF 284
>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET:
ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*
Length = 368
Score = 54.6 bits (131), Expect = 1e-08
Identities = 42/289 (14%), Positives = 83/289 (28%), Gaps = 82/289 (28%)
Query: 7 QTFSDIVGNEDTVERLKVFSS---SGNVPN--IIISGPPGVGKTTTILCLAR-------- 53
Q +VG V G + ++I+G PG GKT + +A+
Sbjct: 41 QASQGMVGQLAARRAAGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPF 100
Query: 54 ------------------------------ILLGPSFKDAVLELNASNDRGIDT------ 77
I G ++ E++ N R
Sbjct: 101 TAIAGSEIFSLEMSKTEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINSRTQGFLALFSG 160
Query: 78 --------VRNKIKMF-----AQQKVTLPPGRHKIVILDEADSMTDGAQQALRRTME--- 121
VR +I + K + PG ++ +DE + + L R +E
Sbjct: 161 DTGEIKSEVREQINAKVAEWREEGKAEIIPG---VLFIDEVHMLDIESFSFLNRALESDM 217
Query: 122 ---IYSNTTRFALACNNSE-----KIIEPIQSRCAMLRYNKLTDAQLLSKVIEICEKENI 173
+ T R + I + R ++ ++ + CE+E++
Sbjct: 218 APVLIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQILRIRCEEEDV 277
Query: 174 SHTNDGLEAIVFTA-QGDMRQALN-----NLQSTHNGFGHVTAEYVFKV 216
+ D + + +R A+ +L V + + +V
Sbjct: 278 EMSEDAYTVLTRIGLETSLRYAIQLITAASLVCRKRKGTEVQVDDIKRV 326
>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 = 51.0 bits (122), Expect = 2e-07
Identities = 25/182 (13%), Positives = 58/182 (31%), Gaps = 11/182 (6%)
Query: 97 HKIVILDEADS-MTDGAQQALRRTMEIYSNTTRFALACNNSE------KIIEPIQSRCAM 149
+ ++L ++ + L + + + N + +R
Sbjct: 77 RQTLLLLLPENGPNAAINEQLLTLTGLLHDDLLLIVRGNKLSKAQENAAWFTALANRSVQ 136
Query: 150 LRYNKLTDAQLLSKVIEICEKENISHTNDGLEAIVFTAQGDM---RQALNNLQSTHNGFG 206
+ AQL V ++ N+ + + + + +G++ QAL L G
Sbjct: 137 VTCQTPEQAQLPRWVAARAKQLNLELDDAANQVLCYCYEGNLLALAQALERLSLLWPD-G 195
Query: 207 HVTAEYVFKVCDEPHPLAVKEMLLNCVEGNMKDSYKIIHHLYKLGYAPEDIIGNIFRVAK 266
+T V + ++ + + G K + I+ L G P ++ + R
Sbjct: 196 KLTLPRVEQAVNDAAHFTPFHWVDALLMGKSKRALHILQQLRLEGSEPVILLRTLQRELL 255
Query: 267 TL 268
L
Sbjct: 256 LL 257
>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase,
winged-helix domain, ATP hydrolysis, walker A, walker
B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga
maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A*
1in8_A* 1in7_A* 1j7k_A*
Length = 334
Score = 46.0 bits (110), Expect = 8e-06
Identities = 17/65 (26%), Positives = 34/65 (52%), Gaps = 12/65 (18%)
Query: 5 RPQTFSDIVGNEDTVERLKVFSSSGNVPN-----IIISGPPGVGKTTTILCLARIL---L 56
RP++ + +G E+ ++L + + + ++++GPPG+GKTT LA I+ L
Sbjct: 20 RPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTT----LAHIIASEL 75
Query: 57 GPSFK 61
+
Sbjct: 76 QTNIH 80
>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide,
hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP:
a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*
Length = 324
Score = 45.6 bits (109), Expect = 8e-06
Identities = 19/65 (29%), Positives = 35/65 (53%), Gaps = 12/65 (18%)
Query: 5 RPQTFSDIVGNEDTVERLKVFSSSGNVPN-----IIISGPPGVGKTTTILCLARIL---L 56
RP+T + +G E ++L+V+ + +++ GPPG+GKTT LA ++ L
Sbjct: 7 RPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTT----LAHVIAHEL 62
Query: 57 GPSFK 61
G + +
Sbjct: 63 GVNLR 67
>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable
holliday junction DNA helicase; HET: ADP; 2.69A
{Campylobacter jejuni subsp}
Length = 338
Score = 45.6 bits (109), Expect = 9e-06
Identities = 22/65 (33%), Positives = 31/65 (47%), Gaps = 12/65 (18%)
Query: 5 RPQTFSDIVGNEDTVERLKVFSSSGNVPN-----IIISGPPGVGKTTTILCLARIL---L 56
RP F +G E + L VF ++ N I+ SGP G+GKTT LA I+ +
Sbjct: 24 RPSNFDGYIGQESIKKNLNVFIAAAKKRNECLDHILFSGPAGLGKTT----LANIISYEM 79
Query: 57 GPSFK 61
+ K
Sbjct: 80 SANIK 84
>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 = 43.9 bits (103), Expect = 4e-05
Identities = 44/272 (16%), Positives = 80/272 (29%), Gaps = 47/272 (17%)
Query: 4 YRPQTFSDIVGNEDTVERLKVF----SSSGNVPNIIISGPPGVGKTTTILCLARILLGPS 59
Y P + ED + ++ NI I G G GKT + + L
Sbjct: 17 YIPDE---LPHREDQIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKF 73
Query: 60 FKD-AVLELNASNDRGIDTVRNKI-----------------KMFAQQKVTLPPGRHKIVI 101
+ +N V + K G +++
Sbjct: 74 LGKFKHVYINTRQIDTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIV 133
Query: 102 LDEADSMTDGAQQA----LRRTMEIYSNTTRFALACNNSEKIIEP----IQSRCAMLRY- 152
LDE D+ L R + + + N K ++ ++S +
Sbjct: 134 LDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKFVDLLDPRVKSSLSEEEII 193
Query: 153 ------NKLTDAQLLSKVIEICEKENISHTNDGLEA-IVFTAQGDMRQALNNLQST---- 201
+L D L + + + L A + GD R+AL+ L+ +
Sbjct: 194 FPPYNAEELED-ILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEIA 252
Query: 202 -HNGFGHVTAEYVFKVCDEPHPLAVKEMLLNC 232
V EYV+ +E V++++L
Sbjct: 253 ERMKDTKVKEEYVYMAKEEIERDRVRDIILTL 284
>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 = 41.6 bits (97), Expect = 1e-04
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 32 PNIIISGPPGVGKTTTILCLARILLGPSFKD 62
NI+I+G PG GKT+ +A L G +
Sbjct: 11 INILITGTPGTGKTSMAEMIAAELDGFQHLE 41
>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 = 42.7 bits (100), Expect = 1e-04
Identities = 54/289 (18%), Positives = 85/289 (29%), Gaps = 111/289 (38%)
Query: 103 DEADSMTDGAQQALR-------RTMEIYSNTTRFALACNNSEKIIE--PIQSRCAMLRYN 153
D +S ++A+ R E Y NT+ +S + E P ML +
Sbjct: 287 DSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVP----SPMLSIS 342
Query: 154 KLTDAQLLSKVIEICEKEN----------ISHTNDGLEAIVFTAQGDMRQALNNL----- 198
LT Q+ V K N IS N G + +V + G Q+L L
Sbjct: 343 NLTQEQVQDYV----NKTNSHLPAGKQVEISLVN-GAKNLVVS--GP-PQSLYGLNLTLR 394
Query: 199 ---------QS----------THNGFGHVTAEYVFKVCDEPH-PLAVKEMLLNCVEGNMK 238
QS N F V + + H L L+ + K
Sbjct: 395 KAKAPSGLDQSRIPFSERKLKFSNRFLPVASPF--------HSHL-----LVPASDLINK 441
Query: 239 D--SYKIIHHLYKLG---YAPEDIIGNIFRVAKTLDIPEPLKLSIIQE------------ 281
D + + + Y D G+ RV I E + II+
Sbjct: 442 DLVKNNVSFNAKDIQIPVYDTFD--GSDLRVLSG-SISERIVDCIIRLPVKWETTTQFKA 498
Query: 282 -------------IGNVHLRISEGVNSLLQLSGLLARLCIVGSKNKKTD 317
+G + R +G +G R+ + G+ + D
Sbjct: 499 THILDFGPGGASGLGVLTHRNKDG-------TG--VRVIVAGTLDINPD 538
Score = 37.7 bits (87), Expect = 0.005
Identities = 29/172 (16%), Positives = 55/172 (31%), Gaps = 71/172 (41%)
Query: 30 NVP-NIIISGPPGVGKTTTILCLARILLGPSFKDAVLELNASNDRGIDTVRNKIKMFAQQ 88
N N+++SGPP + L G + + A + G+D +++I F+++
Sbjct: 372 NGAKNLVVSGPP------------QSLYG--LNLTLRKAKAPS--GLD--QSRIP-FSER 412
Query: 89 KVTLPPGRHKIVILDEADSMTDGAQQALRRTMEIYSNTTRFALACNNSEKIIEPIQSRCA 148
K+ + RF L + P S
Sbjct: 413 KLKF---------------------------------SNRF-LP------VASPFHS--- 429
Query: 149 MLRYNKLTDAQLLSKVIEICEKENISHTNDGLEAIVF-TAQG-DMRQALNNL 198
L A + + K N+S ++ V+ T G D+R ++
Sbjct: 430 --HL--LVPAS--DLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSI 475
Score = 31.9 bits (72), Expect = 0.33
Identities = 21/143 (14%), Positives = 38/143 (26%), Gaps = 42/143 (29%)
Query: 172 NISHTNDGLEAIVFTAQGD--MRQALNNLQSTHNGFGHVTAEYVFKVCDEP-------HP 222
+I N I F + +R+ + + G + E +FK +E
Sbjct: 1663 DIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSE 1722
Query: 223 LAVKEMLLNCVEGN-----MKDSYKIIHHLYKLGYAPEDIIGNIF------------RVA 265
+ LL+ + L G P D F +A
Sbjct: 1723 ----KGLLSATQ-FTQPALTLMEKAAFEDLKSKGLIPAD---ATFAGHSLGEYAALASLA 1774
Query: 266 KTLDIPEPLKLSIIQEIGNVHLR 288
+ I +++ V R
Sbjct: 1775 DVMSIESLVEV--------VFYR 1789
>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 = 42.1 bits (99), Expect = 2e-04
Identities = 26/160 (16%), Positives = 50/160 (31%), Gaps = 36/160 (22%)
Query: 8 TFSDIVGNEDTVERLK-----------VFSSSGNVPN--IIISGPPGVGKTTTILCLARI 54
+ D+ G + ++K +F + G P I++ GPPG GKT +A
Sbjct: 202 GYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANE 261
Query: 55 LLGPSFKDAVLELNASN--DRGIDTVRNKIKMFAQQKVTLPPGRHKIVILDEADSMT--- 109
+N + + ++ ++ P I+ +DE D++
Sbjct: 262 TGAF-----FFLINGPEIMSKLAGESESNLRKAFEEAEKNAPA---IIFIDELDAIAPKR 313
Query: 110 DGAQ--------QALRRTMEIYSNTTRFAL--ACNNSEKI 139
+ L M+ + A N I
Sbjct: 314 EKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSI 353
Score = 30.1 bits (68), Expect = 0.96
Identities = 19/59 (32%), Positives = 24/59 (40%), Gaps = 17/59 (28%)
Query: 8 TFSDIVGNEDTVERLK-----------VFSSSGNVP--NIIISGPPGVGKTTTILCLAR 53
T+ DI G ED L+ F G P ++ GPPG GKT LA+
Sbjct: 475 TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTL----LAK 529
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 41.6 bits (98), Expect = 3e-04
Identities = 14/67 (20%), Positives = 33/67 (49%), Gaps = 2/67 (2%)
Query: 2 EKYRPQTFSDIVGNEDTVERLKVFSSSGNVPNIIISGPPGVGKTTTILCLARILLGPSFK 61
+ + ++G E VE +K +++ ++++ G PG GK+ +A +L + +
Sbjct: 33 IEVPEKLIDQVIGQEHAVEVIK--TAANQKRHVLLIGEPGTGKSMLGQAMAELLPTETLE 90
Query: 62 DAVLELN 68
D ++ N
Sbjct: 91 DILVFPN 97
>2v1u_A Cell division control protein 6 homolog; DNA replication,
nucleotide-binding, replication, archaea; HET: ADP;
3.10A {Aeropyrum pernix}
Length = 387
Score = 41.0 bits (95), Expect = 3e-04
Identities = 55/313 (17%), Positives = 89/313 (28%), Gaps = 55/313 (17%)
Query: 4 YRPQTFSDIVGNEDTVERLKVF----SSSGNVPNIIISGPPGVGKTTTILCLARILLGPS 59
Y P + E + RL N ++ G G GKT + R L +
Sbjct: 16 YVPDV---LPHREAELRRLAEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARA 72
Query: 60 FKDA----VLELNASNDRGIDTVRNKI-----------------KMFAQQKVTLPPGRHK 98
+ +NA + V + I K
Sbjct: 73 SSLGVLVKPIYVNARHRETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIY 132
Query: 99 IVILDEADSMT-----DGAQQALRRTMEIYSNTTRFAL-ACNNSEKIIEP----IQSRCA 148
I++LDE D + + R + + +L NS +E ++S
Sbjct: 133 IIVLDEIDFLPKRPGGQDLLYRITRINQELGDRVWVSLVGITNSLGFVENLEPRVKSSLG 192
Query: 149 MLRY--NKLTDAQLLSKVIEICEKENISHTNDGLEAIVFTAQ------GDMRQALNNLQS 200
+ T QL + E+ D + + A GD R+AL+ L+
Sbjct: 193 EVELVFPPYTAPQLRDILETRAEEAFNPGVLDP-DVVPLCAALAAREHGDARRALDLLRV 251
Query: 201 T-----HNGFGHVTAEYVFKVCDEPHPLAVKEMLLNCVEGNMKDSYKIIHHLYKLGYAPE 255
V E+V+ E V E++ + K I L G
Sbjct: 252 AGEIAERRREERVRREHVYSARAEIERDRVSEVVRTLPL-HAKLVLLSIMMLEDGG--RP 308
Query: 256 DIIGNIFRVAKTL 268
G I+ K L
Sbjct: 309 ASTGEIYERYKEL 321
>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET:
MSE; 1.70A {Methylobacterium extorquens} SCOP:
c.37.1.10 PDB: 2qm7_A*
Length = 337
Score = 40.1 bits (94), Expect = 6e-04
Identities = 18/43 (41%), Positives = 23/43 (53%)
Query: 23 KVFSSSGNVPNIIISGPPGVGKTTTILCLARILLGPSFKDAVL 65
V +G + I+G PGVGK+TTI L +L K AVL
Sbjct: 47 AVLPQTGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVL 89
>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 = 40.1 bits (94), Expect = 6e-04
Identities = 27/98 (27%), Positives = 37/98 (37%), Gaps = 19/98 (19%)
Query: 9 FSDIVGNEDTVERLK-------VFSSSGNVPNIIISGPPGVGKTTTILCLARILLGPSFK 61
FS IVG ED +K V G V ++ G G GK+T + LA LL
Sbjct: 23 FSAIVGQED----MKLALLLTAVDPGIGGV---LVFGDRGTGKSTAVRALAA-LLPEIEA 74
Query: 62 DAVLELNASNDRGIDTVRNKIKMFAQQK----VTLPPG 95
+++ N I + +K V LP G
Sbjct: 75 VEGCPVSSPNVEMIPDWATVLSTNVIRKPTPVVDLPLG 112
>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2,
protein structure initiative, NEW YORK SGX research for
structural genomics; 1.80A {Escherichia coli} SCOP:
c.37.1.10
Length = 341
Score = 39.8 bits (93), Expect = 7e-04
Identities = 12/43 (27%), Positives = 21/43 (48%)
Query: 23 KVFSSSGNVPNIIISGPPGVGKTTTILCLARILLGPSFKDAVL 65
+ GN + ++G PG GK+T + +L+ K AV+
Sbjct: 48 AIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVI 90
>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 = 38.5 bits (89), Expect = 0.001
Identities = 13/25 (52%), Positives = 17/25 (68%)
Query: 31 VPNIIISGPPGVGKTTTILCLARIL 55
+PNI+++G PGVGKTT LA
Sbjct: 11 LPNILLTGTPGVGKTTLGKELASKS 35
>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium
tuberculosis} PDB: 3md0_A* 3nxs_A* 3tk1_A*
Length = 355
Score = 39.1 bits (91), Expect = 0.001
Identities = 17/43 (39%), Positives = 24/43 (55%)
Query: 23 KVFSSSGNVPNIIISGPPGVGKTTTILCLARILLGPSFKDAVL 65
++ SGN + I+G PGVGK+T I L L+ + AVL
Sbjct: 71 RLLPDSGNAHRVGITGVPGVGKSTAIEALGMHLIERGHRVAVL 113
>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase;
1.90A {Tomato mosaic virus}
Length = 446
Score = 39.4 bits (91), Expect = 0.001
Identities = 20/95 (21%), Positives = 34/95 (35%), Gaps = 8/95 (8%)
Query: 30 NVPNIIISGPPGVGKTTTILCLAR----ILLGPSFKDAVLELNASNDRGIDTVRN----K 81
+ +++ G PG GKT IL ++L P + A + +N GI
Sbjct: 160 SAKVVLVDGVPGCGKTKEILSRVNFEEDLILVPGRQAAEMIRRRANASGIIVATKDNVRT 219
Query: 82 IKMFAQQKVTLPPGRHKIVILDEADSMTDGAQQAL 116
+ F + K + +DE + G L
Sbjct: 220 VDSFLMNYGKGARCQFKRLFIDEGLMLHTGCVNFL 254
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman
fold, hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 38.6 bits (90), Expect = 0.002
Identities = 8/52 (15%), Positives = 16/52 (30%), Gaps = 4/52 (7%)
Query: 12 IVGNEDTVERLKV-FSSSGNVPNIIISGPPGVGKTTTILCLARILLGPSFKD 62
+ + + S +V + GPPG+ K+ L +
Sbjct: 24 LYERSHAIRLCLLAALSGESV---FLLGPPGIAKSLIARRLKFAFQNARAFE 72
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 38.2 bits (88), Expect = 0.003
Identities = 31/164 (18%), Positives = 58/164 (35%), Gaps = 13/164 (7%)
Query: 33 NIIISGPPGVGKTTTILCLARIL--LGPSFKDAVLELNASNDRGI---DTVRNKIKMF-- 85
++ +G PG GKTT L +A +L LG K ++ + + G T ++
Sbjct: 69 HMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKR 128
Query: 86 AQQKVTLPPGRHKIVILDEADSMTDGAQQALRRTMEIYSNTTRFALACNNSE-----KII 140
A V + + D A + L + ME + LA +
Sbjct: 129 AMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILAGYADRMENFFQSN 188
Query: 141 EPIQSR-CAMLRYNKLTDAQLLSKVIEICEKENISHTNDGLEAI 183
+SR + + +D +L + + +N T + A+
Sbjct: 189 PGFRSRIAHHIEFPDYSDEELFEIAGHMLDDQNYQMTPEAETAL 232
>2r44_A Uncharacterized protein; putative ATPase, structural genomics,
joint center for struc genomics, JCSG; HET: MSE PG4;
2.00A {Cytophaga hutchinsonii atcc 33406}
Length = 331
Score = 37.9 bits (89), Expect = 0.003
Identities = 13/51 (25%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 12 IVGNEDTVERLKV-FSSSGNVPNIIISGPPGVGKTTTILCLARILLGPSFK 61
+VG + + RL + + G++ ++ G PG+ KT ++ LA+ + F
Sbjct: 29 VVGQKYMINRLLIGICTGGHI---LLEGVPGLAKTLSVNTLAKT-MDLDFH 75
>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 = 38.2 bits (89), Expect = 0.003
Identities = 21/86 (24%), Positives = 34/86 (39%), Gaps = 11/86 (12%)
Query: 35 IISGPPGVGKTTTILCLARILLGPSFK--------DAVLELNASNDRGIDTVRNKIKMFA 86
+++G PG GK+TT +A + + A L R TV +
Sbjct: 208 VLTGGPGTGKSTTTKAVADLAESLGLEVGLCAPTGKAARRLGEVTGRTASTVHRLLGYGP 267
Query: 87 Q--QKVTLPPGRHKIVILDEADSMTD 110
Q + L P + ++I+DE SM
Sbjct: 268 QGFRHNHLEPAPYDLLIVDEV-SMMG 292
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 37.0 bits (86), Expect = 0.004
Identities = 12/63 (19%), Positives = 23/63 (36%), Gaps = 8/63 (12%)
Query: 2 EKYRPQTFSDIVGNEDT--------VERLKVFSSSGNVPNIIISGPPGVGKTTTILCLAR 53
+ + SD+ N+D + + + + + G GVGKT + +A
Sbjct: 17 REILRASLSDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLLAAIAN 76
Query: 54 ILL 56
L
Sbjct: 77 ELA 79
>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein
struct initiative, northeast structural genomics
consortium, NESG, function; 2.40A {Bacillus halodurans}
SCOP: c.37.1.25
Length = 189
Score = 36.8 bits (85), Expect = 0.004
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 34 IIISGPPGVGKTTTILCLARIL 55
II+GP GVGK+TT LA L
Sbjct: 5 YIITGPAGVGKSTTCKRLAAQL 26
>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 = 37.3 bits (86), Expect = 0.005
Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 5/54 (9%)
Query: 5 RPQTFSDIVGNEDTVERLKVFSSSGNVPN-----IIISGPPGVGKTTTILCLAR 53
Q S +VG E+ E V ++++GPPG GKT L +A+
Sbjct: 32 AKQAASGLVGQENAREACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQ 85
>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase,
antibiotic resistance, phosphorylation, mononucleoti
binding fold; HET: ATP; 2.50A {Streptomyces venezuelae}
SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A*
1qhy_A*
Length = 178
Score = 36.3 bits (83), Expect = 0.005
Identities = 15/66 (22%), Positives = 27/66 (40%)
Query: 34 IIISGPPGVGKTTTILCLARILLGPSFKDAVLELNASNDRGIDTVRNKIKMFAQQKVTLP 93
II++G GK+ + CL +L P V L + + + I+ A V++
Sbjct: 6 IILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSLIEAMPLKMQSAEGGIEFDADGGVSIG 65
Query: 94 PGRHKI 99
P +
Sbjct: 66 PEFRAL 71
>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 = 36.6 bits (84), Expect = 0.005
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 34 IIISGPPGVGKTTTILCLARILLGPSF 60
+++SG PG GK+T LA + P
Sbjct: 12 LLLSGHPGSGKSTIAEALANLPGVPKV 38
>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 = 36.9 bits (85), Expect = 0.007
Identities = 21/112 (18%), Positives = 36/112 (32%), Gaps = 24/112 (21%)
Query: 19 VERLKVFSSSGNVPNIIISGPPGVGKTTTILCLARILLGPSFKDAVLELNASNDR----- 73
+ ++ I+GP G G TT + L S + + L A
Sbjct: 34 FNIVMKAIKEKK-HHVTINGPAGTGATTLTKFIIEAL--ISTGETGIILAAPTHAAKKIL 90
Query: 74 ---------------GIDTVRNKIKMFAQQKVTLPPGRHKIVILDEADSMTD 110
I+ V + + +QK + +++I DE SM D
Sbjct: 91 SKLSGKEASTIHSILKINPVTYEENVLFEQKEVPDLAKCRVLICDEV-SMYD 141
>2vli_A Antibiotic resistance protein; transferase, tunicamycin,
phosphotransferase; 1.95A {Deinococcus radiodurans}
Length = 183
Score = 36.1 bits (83), Expect = 0.007
Identities = 13/30 (43%), Positives = 15/30 (50%)
Query: 34 IIISGPPGVGKTTTILCLARILLGPSFKDA 63
I I+GP GVGKT T L L G +
Sbjct: 8 IWINGPFGVGKTHTAHTLHERLPGSFVFEP 37
>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport
protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo
sapiens}
Length = 349
Score = 36.0 bits (83), Expect = 0.011
Identities = 14/48 (29%), Positives = 22/48 (45%)
Query: 18 TVERLKVFSSSGNVPNIIISGPPGVGKTTTILCLARILLGPSFKDAVL 65
E+ + + +SGPPG GK+T I ++L K +VL
Sbjct: 61 HREQEQSNKGKPLAFRVGLSGPPGAGKSTFIEYFGKMLTERGHKLSVL 108
>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 = 35.4 bits (81), Expect = 0.012
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 33 NIIISGPPGVGKTTTILCLARIL 55
III+G PGVGKTT + + L
Sbjct: 2 KIIITGEPGVGKTTLVKKIVERL 24
>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 = 35.4 bits (81), Expect = 0.021
Identities = 33/161 (20%), Positives = 54/161 (33%), Gaps = 29/161 (18%)
Query: 30 NVP---NIIISGPPGVGKTTTILCLARILLGPSFKDAVLELNASNDRG-------IDT-- 77
N+P + GP GKTT L + G L +N DR ID
Sbjct: 165 NIPKKRYWLFKGPIDSGKTTLAAALLELCGG-----KALNVNLPLDRLNFELGVAIDQFL 219
Query: 78 -VRNKIKMFAQQKVTLPPGRHKIVILDEADSMTDGAQQALRRTMEIY---SNTTRF--AL 131
V +K + LP G ++ D++ D +++ +E T F +
Sbjct: 220 VVFEDVKGTGGESRDLPSG----QGINNLDNLRDYLDGSVKVNLEKKHLNKRTQIFPPGI 275
Query: 132 ACNNSEKIIEPIQSRCAMLRY--NKLTDAQLLSKVIEICEK 170
N + + +Q+R K L + + EK
Sbjct: 276 VTMNEYSVPKTLQARFVKQIDFRPKDYLKHCLERSEFLLEK 316
>3cio_A ETK, tyrosine-protein kinase ETK; WZC, escherichia coli tyrosine
kinase domain, signaling protein, transferase, inner
membrane, membrane; 2.50A {Escherichia coli}
Length = 299
Score = 35.0 bits (81), Expect = 0.024
Identities = 11/33 (33%), Positives = 16/33 (48%), Gaps = 2/33 (6%)
Query: 25 FSSSGNVPNII-ISGP-PGVGKTTTILCLARIL 55
F+ NI+ I+G P GKT LA ++
Sbjct: 97 FAMMETENNILMITGATPDSGKTFVSSTLAAVI 129
>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 = 34.3 bits (79), Expect = 0.025
Identities = 18/132 (13%), Positives = 40/132 (30%), Gaps = 28/132 (21%)
Query: 2 EKYRPQTFSDIVGNEDTVERLKVFS-------SSGNVPNIIISGPPGVGKTTTILCLARI 54
++Y + R + + + G PGVGKT + +
Sbjct: 2 KRYWNANLDTYHPKNVSQNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKA 61
Query: 55 LLGP--------SFKDAVLELNASNDRGIDTVRNKIKMFAQQKVTLPPGRHKIVILDE-- 104
+ KD + L D G +K +++LD+
Sbjct: 62 IYEKKGIRGYFFDTKDLIFRLKHLMDEG--KDTKFLKTVL---------NSPVLVLDDLG 110
Query: 105 ADSMTDGAQQAL 116
++ ++D ++ +
Sbjct: 111 SERLSDWQRELI 122
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 34.8 bits (80), Expect = 0.030
Identities = 15/64 (23%), Positives = 26/64 (40%), Gaps = 11/64 (17%)
Query: 2 EKYRPQTFSDIVGNEDTVERLKVFS---------SSGNVPNIIISGPPGVGKTTTILCLA 52
+ YR SDI + + R++ FS S + + G G+GK+ + +A
Sbjct: 116 KSYRHIHLSDI--DVNNASRMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMA 173
Query: 53 RILL 56
L
Sbjct: 174 HELS 177
>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 = 34.5 bits (78), Expect = 0.031
Identities = 13/106 (12%), Positives = 30/106 (28%), Gaps = 22/106 (20%)
Query: 27 SSGNVPNIIISGPPGVGKTTTILCLARILLGPSFKD-----AVLELNASNDRGIDTVRNK 81
S I+ K + + L+ S + + ++A G+D + K
Sbjct: 41 MSSQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEK 100
Query: 82 I-----------------KMFAQQKVTLPPGRHKIVILDEADSMTD 110
I F V R ++++ +++
Sbjct: 101 IWFAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLLS 146
>3la6_A Tyrosine-protein kinase WZC; P-loop protein, nucleotide binding
domain, walker A motif, B protein kinase,
oligomerization; HET: ADP; 3.20A {Escherichia coli}
Length = 286
Score = 34.2 bits (79), Expect = 0.036
Identities = 8/33 (24%), Positives = 16/33 (48%), Gaps = 2/33 (6%)
Query: 25 FSSSGNVPNII-ISGP-PGVGKTTTILCLARIL 55
F+ N++ ++G P +G T LA ++
Sbjct: 85 FAMMQAQNNVLMMTGVSPSIGMTFVCANLAAVI 117
>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann,
hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11
Length = 189
Score = 33.9 bits (77), Expect = 0.036
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 33 NIIISGPPGVGKTTTILCLARIL 55
++ ++GPPGVGKTT I + +L
Sbjct: 3 HVFLTGPPGVGKTTLIHKASEVL 25
>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding
motif, ATP- binding, nucleotide-binding, transferase;
HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB:
3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*
Length = 260
Score = 34.1 bits (78), Expect = 0.037
Identities = 18/77 (23%), Positives = 32/77 (41%), Gaps = 12/77 (15%)
Query: 34 IIISGPPGVGKTTTILCLARILLGPSFKDAVL-------ELNASNDRGIDTVRNKIKMFA 86
II++G PGVGK+T LA+IL + VL ++ + ++
Sbjct: 7 IILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLIRESFPVWKEKYEEFIKKSTYRLI 66
Query: 87 QQKVTLPPGRHKIVILD 103
+ ++ VI+D
Sbjct: 67 DSAL-----KNYWVIVD 78
>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 = 33.4 bits (75), Expect = 0.046
Identities = 8/32 (25%), Positives = 20/32 (62%), Gaps = 6/32 (18%)
Query: 113 QQALRR---TMEIYSNTTRFALACNNSEKIIE 141
+QAL++ ++++Y++ + ALA + +E
Sbjct: 19 KQALKKLQASLKLYADDSAPALAIKAT---ME 47
Score = 31.8 bits (71), Expect = 0.14
Identities = 13/61 (21%), Positives = 22/61 (36%), Gaps = 32/61 (52%)
Query: 61 KDAVLELNASNDRGIDTVRNKIKMFAQQKVTLPPGRHKIVILDEADSMTDGAQQALRRTM 120
K A+ +L AS +K++A D A ++ A++ TM
Sbjct: 19 KQALKKLQAS-----------LKLYA------D---------DSAPAL------AIKATM 46
Query: 121 E 121
E
Sbjct: 47 E 47
Score = 29.1 bits (64), Expect = 1.0
Identities = 11/37 (29%), Positives = 17/37 (45%), Gaps = 14/37 (37%)
Query: 192 RQALNNLQSTHNGFGHVTAEYVFKV-CDEPHP-LAVK 226
+QAL LQ++ K+ D+ P LA+K
Sbjct: 19 KQALKKLQAS------------LKLYADDSAPALAIK 43
Score = 28.8 bits (63), Expect = 1.3
Identities = 10/41 (24%), Positives = 15/41 (36%), Gaps = 13/41 (31%)
Query: 238 KDSYKIIHHLYKLGYAPEDIIGNIFRVAKTLDIPEPLKLSI 278
K + K + KL YA + A L I K ++
Sbjct: 19 KQALKKLQASLKL-YADDS--------APALAI----KATM 46
>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate
hydrolases fold, S genomics, joint center for
structural genomics, JCSG; HET: MSE; 1.70A
{Chloroflexus aurantiacus}
Length = 193
Score = 33.8 bits (77), Expect = 0.047
Identities = 10/22 (45%), Positives = 14/22 (63%), Gaps = 4/22 (18%)
Query: 34 IIISGPPGVGKTTTILCLARIL 55
II++G P GKTT L++ L
Sbjct: 8 IIVTGHPATGKTT----LSQAL 25
>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta
protein., structural genomics, PSI-2, protein structure
initiative; HET: G3D; 2.20A {Bacillus subtilis} PDB:
2axp_A*
Length = 173
Score = 32.8 bits (75), Expect = 0.067
Identities = 11/56 (19%), Positives = 15/56 (26%), Gaps = 15/56 (26%)
Query: 34 IIISGPPGVGKTTTILCLARIL---LGPSFKDAVLELNASNDRGIDTVRNKIKMFA 86
II+ GP K+T +A L L K+F
Sbjct: 4 IILEGPDCCFKST----VAAKLSKELKYPIIKG--------SSFELAKSGNEKLFE 47
>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system
kinase, STRU genomics, joint center for structural
genomics, JCSG; 1.95A {Silicibacter SP}
Length = 208
Score = 33.2 bits (76), Expect = 0.071
Identities = 12/45 (26%), Positives = 18/45 (40%), Gaps = 1/45 (2%)
Query: 22 LKVFSSSGNVPNII-ISGPPGVGKTTTILCLARILLGPSFKDAVL 65
L+ ++ +SG PG GK+T LA L V+
Sbjct: 12 LERLDPRQPGRQLVALSGAPGSGKSTLSNPLAAALSAQGLPAEVV 56
>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid
biosynthesis, P-loop kinase, metal- binding, shikimate
pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis}
SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A*
2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A*
1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A*
3baf_A*
Length = 184
Score = 33.0 bits (76), Expect = 0.072
Identities = 12/32 (37%), Positives = 16/32 (50%), Gaps = 1/32 (3%)
Query: 32 PNIIISGPPGVGKTTTILCLARILLGPSFKDA 63
P ++ G PG GK+T LA+ LG D
Sbjct: 3 PKAVLVGLPGSGKSTIGRRLAK-ALGVGLLDT 33
>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase,
HEL helix motif, transcription regulator; 3.20A
{Streptococcus pneumoniae}
Length = 253
Score = 33.3 bits (75), Expect = 0.073
Identities = 16/65 (24%), Positives = 23/65 (35%), Gaps = 7/65 (10%)
Query: 1 IEKYRPQTFSDIVGNEDTVERLKVFSSSGNVPN-IIISGPPGVGKTTTILCLARILLGPS 59
I+ Y F + + L S P I++ G G GKTT + RI
Sbjct: 3 IQDYTDSEFKHAL--ARNLRSLTRGKKSSKQPIAILLGGQSGAGKTT----IHRIKQKEF 56
Query: 60 FKDAV 64
+ V
Sbjct: 57 QGNIV 61
>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 = 33.6 bits (77), Expect = 0.083
Identities = 27/122 (22%), Positives = 46/122 (37%), Gaps = 33/122 (27%)
Query: 8 TFSDIVGNEDTVERLK-----------VFSSSGNVP--NIIISGPPGVGKTTTILCLAR- 53
+ DI G + ++K +F + G P I++ GPPG GKT +A
Sbjct: 202 GYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANE 261
Query: 54 ------ILLGPSFKDAVLELNASNDRGIDTVRNKIKMFAQQKVTLPPGRHKIVILDEADS 107
++ GP + + SN R F + + P I+ +DE D+
Sbjct: 262 TGAFFFLINGPEIMSKLAGESESNLRKA---------FEEAEKNAP----AIIFIDELDA 308
Query: 108 MT 109
+
Sbjct: 309 IA 310
>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway,
P-loop protein, transferase; 1.8A {Erwinia
chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*
Length = 173
Score = 32.5 bits (75), Expect = 0.086
Identities = 13/32 (40%), Positives = 14/32 (43%), Gaps = 1/32 (3%)
Query: 32 PNIIISGPPGVGKTTTILCLARILLGPSFKDA 63
I + G G G TT LAR LG F D
Sbjct: 3 EPIFMVGARGCGMTTVGRELAR-ALGYEFVDT 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 = 33.5 bits (77), Expect = 0.088
Identities = 12/22 (54%), Positives = 15/22 (68%)
Query: 35 IISGPPGVGKTTTILCLARILL 56
+ISG PG GKTTT+ L L+
Sbjct: 168 VISGGPGTGKTTTVAKLLAALI 189
>3bfv_A CAPA1, CAPB2, membrane protein CAPA1, protein tyrosine kinase;
chimerical protein, P-loop protein, capsule
biogenesis/degradation; HET: ADP; 1.80A {Staphylococcus
aureus} PDB: 2ved_A*
Length = 271
Score = 32.6 bits (75), Expect = 0.13
Identities = 10/33 (30%), Positives = 15/33 (45%), Gaps = 2/33 (6%)
Query: 25 FSSSGNVPNII-ISGP-PGVGKTTTILCLARIL 55
F++ + I I+ PG GK+T LA
Sbjct: 75 FANPDSAVQSIVITSEAPGAGKSTIAANLAVAY 107
>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation,
ADP, nucleotide binding, CARD, apoptosis; HET: ADP;
2.21A {Homo sapiens}
Length = 591
Score = 32.9 bits (75), Expect = 0.14
Identities = 13/50 (26%), Positives = 18/50 (36%), Gaps = 6/50 (12%)
Query: 6 PQTFSDIVGNEDTVERL--KVFSSSGNVPNIIISGPPGVGKTTTILCLAR 53
PQ V + V + K+ G + I G G GK+ LA
Sbjct: 120 PQRPVVFVTRKKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSV----LAA 165
>1nlf_A Regulatory protein REPA; replicative DNA helicase structural
changes, replication; 1.95A {Escherichia coli} SCOP:
c.37.1.11 PDB: 1g8y_A 1olo_A
Length = 279
Score = 32.4 bits (73), Expect = 0.17
Identities = 10/28 (35%), Positives = 13/28 (46%), Gaps = 1/28 (3%)
Query: 34 IIISGPPGVGKTTTILCLA-RILLGPSF 60
+ P G GK+ L LA +I GP
Sbjct: 33 GALVSPGGAGKSMLALQLAAQIAGGPDL 60
>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and
beta protein; HET: GSP; 1.90A {Methanocaldococcus
jannaschii} PDB: 2hf8_A*
Length = 226
Score = 31.8 bits (73), Expect = 0.19
Identities = 13/63 (20%), Positives = 21/63 (33%), Gaps = 7/63 (11%)
Query: 15 NEDTVERLKVFSSSGNVPNIIISGPPGVGKTTTILCLARILLGPSFKDAVLELNASNDRG 74
N+ ++ + + V G G GKT I L L +K A + D
Sbjct: 22 NKRLADKNRKLLNKHGVVAFDFMGAIGSGKTLLIEKLID-NLKDKYKIACIA----GD-- 74
Query: 75 IDT 77
+
Sbjct: 75 VIA 77
>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase
like domain, protein binding; 1.31A {Homo sapiens}
SCOP: c.37.1.1
Length = 180
Score = 31.7 bits (73), Expect = 0.19
Identities = 4/13 (30%), Positives = 8/13 (61%)
Query: 34 IIISGPPGVGKTT 46
+++ G GVG+
Sbjct: 8 LVLLGAHGVGRRH 20
>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A
{Coxiella burnetii}
Length = 185
Score = 31.4 bits (72), Expect = 0.21
Identities = 11/31 (35%), Positives = 15/31 (48%), Gaps = 1/31 (3%)
Query: 33 NIIISGPPGVGKTTTILCLARILLGPSFKDA 63
NI + G G GKT+ LA+ L D+
Sbjct: 7 NIYLIGLMGAGKTSVGSQLAK-LTKRILYDS 36
>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET:
AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1
Length = 222
Score = 31.8 bits (73), Expect = 0.21
Identities = 7/20 (35%), Positives = 11/20 (55%)
Query: 27 SSGNVPNIIISGPPGVGKTT 46
+ + ++ISG P GK T
Sbjct: 1 ALADPLKVMISGAPASGKGT 20
>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop,
transferase; HET: ADP; 2.33A {Enterobacteria phage T4}
SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A*
2ia5_A
Length = 301
Score = 32.0 bits (72), Expect = 0.22
Identities = 22/175 (12%), Positives = 46/175 (26%), Gaps = 22/175 (12%)
Query: 34 IIISGPPGVGKTTTILCLARILLGPSFKDAVLELNASNDRGIDTVRNKIKMFAQQKVTLP 93
I+ G PG GK+T AR + + + D R I ++
Sbjct: 5 ILTIGCPGSGKST----WAREFIAKNPGFYNINR--------DDYRQSIMAHEER----- 47
Query: 94 PGRHKIVILDEADSMTDGAQQALRRTMEIYSNTTRFAL-ACNNSEKIIEPIQSRCAMLRY 152
+K E +T + + + + N + + ++ Y
Sbjct: 48 -DEYKYTKKKEGI-VTGMQFDTAKSILYGGDSVKGVIISDTNLNPERRLAWETFAK--EY 103
Query: 153 NKLTDAQLLSKVIEICEKENISHTNDGLEAIVFTAQGDMRQALNNLQSTHNGFGH 207
+ ++ K N + V + + L + G
Sbjct: 104 GWKVEHKVFDVPWTELVKRNSKRGTKAVPIDVLRSMYKSMREYLGLPVYNGTPGK 158
>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding
protein; 2.30A {Archaeoglobus fulgidus}
Length = 221
Score = 31.4 bits (72), Expect = 0.23
Identities = 12/63 (19%), Positives = 20/63 (31%), Gaps = 7/63 (11%)
Query: 15 NEDTVERLKVFSSSGNVPNIIISGPPGVGKTTTILCLARILLGPSFKDAVLELNASNDRG 74
N+ E+ + + I G G GKT I +G K + D
Sbjct: 14 NKRLAEKNREALRESGTVAVNIMGAIGSGKTLLIERTIE-RIGNEVKIGAML----GD-- 66
Query: 75 IDT 77
+ +
Sbjct: 67 VVS 69
>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase,
hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB:
2oaq_1
Length = 511
Score = 32.0 bits (73), Expect = 0.26
Identities = 7/20 (35%), Positives = 11/20 (55%)
Query: 33 NIIISGPPGVGKTTTILCLA 52
+ I+ G GKTTT+ +
Sbjct: 262 SAIVVGETASGKTTTLNAIM 281
>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA
degradation, allosteric REGU; HET: ADP 1PE; 2.40A
{Saccharomyces cerevisiae}
Length = 802
Score = 32.2 bits (73), Expect = 0.26
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 2/52 (3%)
Query: 32 PNIIISGPPGVGKTTTILCLARILLGPSFKDAVLELNASNDRGIDTVRNKIK 83
P +I GPPG GKT T + L KD +L SN +D + K++
Sbjct: 376 PLSLIQGPPGTGKTVTSATIVYHLS-KIHKDRILVCAPSN-VAVDHLAAKLR 425
>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A
{Sulfolobus acidocaldarius} SCOP: c.37.1.1
Length = 194
Score = 31.2 bits (70), Expect = 0.26
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 34 IIISGPPGVGKTTTILCLARIL 55
I++G PGVGK+T + + IL
Sbjct: 4 GIVTGIPGVGKSTVLAKVKEIL 25
>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein
COOC; Zn-bound dimer, nickel binding protein, ATPase;
1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A*
3kje_A 3kji_A*
Length = 254
Score = 31.7 bits (72), Expect = 0.26
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 34 IIISGPPGVGKTTTILCLARIL 55
+ ++G GVGKTT L +I+
Sbjct: 3 LAVAGKGGVGKTTVAAGLIKIM 24
>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR;
2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB:
1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A
Length = 207
Score = 31.4 bits (72), Expect = 0.28
Identities = 9/23 (39%), Positives = 14/23 (60%), Gaps = 4/23 (17%)
Query: 34 IIISGPPGVGKTTTILCLARILL 56
+++SGP VGK+T + R L
Sbjct: 23 VVLSGPSAVGKST----VVRCLR 41
>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for
structural genomics of infec diseases, csgid, putative
guanylate kinase; HET: MSE; 2.05A {Listeria
monocytogenes}
Length = 208
Score = 31.3 bits (72), Expect = 0.29
Identities = 9/23 (39%), Positives = 13/23 (56%), Gaps = 4/23 (17%)
Query: 34 IIISGPPGVGKTTTILCLARILL 56
I++SGP GVGK T + +
Sbjct: 11 IVLSGPSGVGKGT----VREAVF 29
>3ney_A 55 kDa erythrocyte membrane protein; structural genomics
consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A
{Homo sapiens}
Length = 197
Score = 31.0 bits (71), Expect = 0.30
Identities = 4/13 (30%), Positives = 9/13 (69%)
Query: 34 IIISGPPGVGKTT 46
+++ G GVG++
Sbjct: 22 LVLIGASGVGRSH 34
>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A
{Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*
Length = 287
Score = 31.5 bits (70), Expect = 0.30
Identities = 13/59 (22%), Positives = 23/59 (38%), Gaps = 3/59 (5%)
Query: 1 IEKYRPQTFSDIVGNEDTVERLKVFSSSGNVPN-IIISGPPGVGKTTTILCLARILLGP 58
I + + F + + D +E L + P ++ G PG GKT+ + G
Sbjct: 4 IVNFTDKQFENRL--NDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEETQGN 60
>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial
GTPase, bacterial POL motility, POLE localisation,
alpha/beta protein; HET: GDP; 1.90A {Thermus
thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*
Length = 198
Score = 31.3 bits (71), Expect = 0.31
Identities = 19/109 (17%), Positives = 35/109 (32%), Gaps = 22/109 (20%)
Query: 34 IIISGPPGVGKTTTILCLARILLGPSFKDAVLELNASNDR--GIDTVRNKIKMFAQQKVT 91
I+ GP GKTT + + + K ++ L ++R D + I K
Sbjct: 17 IVYYGPGLSGKTTNLKWIYSKVP-EGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTR 75
Query: 92 LP----PGRHK---------------IVILDEADSMTDGAQQALRRTME 121
PG+ + + D A + +++R E
Sbjct: 76 FHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRE 124
>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom
consortium, transferase; HET: EPE; 2.18A {Plasmodium
falciparum}
Length = 218
Score = 31.0 bits (71), Expect = 0.34
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 34 IIISGPPGVGKTT 46
++I GP GVGK T
Sbjct: 26 LVICGPSGVGKGT 38
>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP
phosphotransferase, myokinase, structural genomics,
structural genomics consortium, SGC; 1.48A {Homo
sapiens} PDB: 2ak3_A*
Length = 227
Score = 31.0 bits (71), Expect = 0.34
Identities = 8/21 (38%), Positives = 11/21 (52%)
Query: 26 SSSGNVPNIIISGPPGVGKTT 46
+S + +I G PG GK T
Sbjct: 2 GASARLLRAVIMGAPGSGKGT 22
>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 = 31.7 bits (72), Expect = 0.35
Identities = 15/65 (23%), Positives = 23/65 (35%), Gaps = 7/65 (10%)
Query: 5 RPQTFSDIVGNEDTVERLK--VFSSSGNVPNIIISGPPGVGKTT--TILCLARILLGPSF 60
RP F V + V ++ ++ +G + I G G GK+ LL F
Sbjct: 122 RPVIF---VTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCF 178
Query: 61 KDAVL 65
V
Sbjct: 179 SGGVH 183
>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding,
human, structura genomics, structural genomics
consortium, SGC, transferase; HET: GP5; 2.05A {Homo
sapiens} PDB: 2ar7_A* 3ndp_A
Length = 246
Score = 31.1 bits (71), Expect = 0.37
Identities = 12/35 (34%), Positives = 16/35 (45%)
Query: 12 IVGNEDTVERLKVFSSSGNVPNIIISGPPGVGKTT 46
G + E L S + + +I GPPG GK T
Sbjct: 8 SSGVDLGTENLYFQSMASKLLRAVILGPPGSGKGT 42
>2qor_A Guanylate kinase; phosphotransferase, purine metabolism,
structural genomics, structural genomics of pathogenic
protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium
vivax}
Length = 204
Score = 31.0 bits (71), Expect = 0.38
Identities = 8/15 (53%), Positives = 11/15 (73%)
Query: 34 IIISGPPGVGKTTTI 48
+++ GP GVGK T I
Sbjct: 15 LVVCGPSGVGKGTLI 29
>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE;
1.57A {Campylobacter jejuni} SCOP: c.37.1.2
Length = 175
Score = 30.6 bits (70), Expect = 0.38
Identities = 12/30 (40%), Positives = 15/30 (50%), Gaps = 1/30 (3%)
Query: 33 NIIISGPPGVGKTTTILCLARILLGPSFKD 62
NI+ G G GK+T LA+ L F D
Sbjct: 6 NIVFIGFMGSGKSTLARALAKD-LDLVFLD 34
>3a00_A Guanylate kinase, GMP kinase; domain movement, dimerization,
acetylation, ATP-binding, nucleotide-binding,
phosphoprotein, transferase; 1.80A {Saccharomyces
cerevisiae} PDB: 1ex6_A* 1ex7_A 1gky_A* 2zzz_A 3sqk_A
2zzy_A
Length = 186
Score = 30.5 bits (70), Expect = 0.39
Identities = 9/15 (60%), Positives = 12/15 (80%)
Query: 34 IIISGPPGVGKTTTI 48
I+ISGP G GK+T +
Sbjct: 4 IVISGPSGTGKSTLL 18
>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A
{Mus musculus} SCOP: c.37.1.1
Length = 198
Score = 30.5 bits (70), Expect = 0.46
Identities = 9/23 (39%), Positives = 14/23 (60%), Gaps = 4/23 (17%)
Query: 34 IIISGPPGVGKTTTILCLARILL 56
+++SGP G GK+T L + L
Sbjct: 7 VVLSGPSGAGKST----LLKKLF 25
>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A
{Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A*
3mrs_A 3n2e_A*
Length = 168
Score = 30.2 bits (69), Expect = 0.47
Identities = 7/30 (23%), Positives = 13/30 (43%), Gaps = 1/30 (3%)
Query: 33 NIIISGPPGVGKTTTILCLARILLGPSFKD 62
++++ G G GK++ L L D
Sbjct: 9 HLVLIGFMGSGKSSLAQELGLA-LKLEVLD 37
>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide-
binding; HET: 5GP; 1.9A {Staphylococcus aureus}
Length = 207
Score = 30.5 bits (70), Expect = 0.47
Identities = 9/23 (39%), Positives = 14/23 (60%), Gaps = 4/23 (17%)
Query: 34 IIISGPPGVGKTTTILCLARILL 56
I++SGP GVGK T + + +
Sbjct: 9 IVLSGPSGVGKGT----VRKRIF 27
>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI,
protein structure initiative; 2.05A {Escherichia coli}
SCOP: c.37.1.2
Length = 173
Score = 30.2 bits (69), Expect = 0.49
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 32 PNIIISGPPGVGKTTTILCLARILLGPSFKDA 63
NI + GP G GK+T LA+ L F D+
Sbjct: 5 RNIFLVGPMGAGKSTIGRQLAQ-QLNMEFYDS 35
>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides,
nucleotides, transferase; HET: 5GP; 1.85A {Coxiella
burnetii}
Length = 205
Score = 30.5 bits (70), Expect = 0.50
Identities = 11/23 (47%), Positives = 13/23 (56%), Gaps = 4/23 (17%)
Query: 34 IIISGPPGVGKTTTILCLARILL 56
IIS P G GKT+ L R L+
Sbjct: 10 FIISAPSGAGKTS----LVRALV 28
>2z83_A Helicase/nucleoside triphosphatase; hydrolase, membrane,
nucleotide-binding, RNA replication, transmembrane,
viral protein; 1.80A {Japanese encephalitis virus} PDB:
2v8o_A 2qeq_A
Length = 459
Score = 31.0 bits (70), Expect = 0.50
Identities = 8/40 (20%), Positives = 14/40 (35%), Gaps = 2/40 (5%)
Query: 10 SDIVGNEDTVERLKVFSSSGNVPNIIISGPPGVGKTTTIL 49
+ + G + + ++ PG GKT IL
Sbjct: 2 ASMTGGQQMGRGSPNMLRKRQM--TVLDLHPGSGKTRKIL 39
>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR;
HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10
PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*
Length = 262
Score = 30.8 bits (69), Expect = 0.55
Identities = 8/22 (36%), Positives = 10/22 (45%)
Query: 34 IIISGPPGVGKTTTILCLARIL 55
++ G G GKTT R L
Sbjct: 17 VVFVGTAGSGKTTLTGEFGRYL 38
>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase;
2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A*
2anb_A* 2anc_A 2f3r_A* 2f3t_A*
Length = 219
Score = 30.6 bits (70), Expect = 0.56
Identities = 9/23 (39%), Positives = 13/23 (56%), Gaps = 4/23 (17%)
Query: 34 IIISGPPGVGKTTTILCLARILL 56
I+S P G GK++ L + LL
Sbjct: 19 YIVSAPSGAGKSS----LIQALL 37
>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 = 30.7 bits (69), Expect = 0.57
Identities = 13/90 (14%), Positives = 28/90 (31%)
Query: 32 PNIIISGPPGVGKTTTILCLARILLGPSFKDAVLELNASNDRGIDTVRNKIKMFAQQKVT 91
N I PG GK+ T L + +++ + +
Sbjct: 36 SNWTILAKPGAGKSFTAKMLLLREYMQGSRVIIIDPEREYKEMCRKLGGVWINCTGGEGK 95
Query: 92 LPPGRHKIVILDEADSMTDGAQQALRRTME 121
+ P + ++ ++E D Q L ++
Sbjct: 96 INPLQVRLRPVEEEDEENAVFQSPLALHIQ 125
>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 = 30.0 bits (67), Expect = 0.60
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 34 IIISGPPGVGKTTTILCLARIL 55
++++G PGVG TT+ L
Sbjct: 6 VVVTGVPGVGSTTSSQLAMDNL 27
>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay,
zinc-finger, ATP-binding, metal-BIN UPF2, UPF1,
helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A
2iyk_A
Length = 800
Score = 31.1 bits (70), Expect = 0.61
Identities = 15/40 (37%), Positives = 17/40 (42%), Gaps = 1/40 (2%)
Query: 32 PNIIISGPPGVGKTTTILCLARILLGPSFKDAVLELNASN 71
P +I GPPG GKT T + L VL SN
Sbjct: 372 PLSLIQGPPGTGKTVTSATIVYHLARQ-GNGPVLVCAPSN 410
>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography,
emerald biostructures, ATP-binding, cytoplasm,
nucleotide-binding; HET: 5GP; 1.95A {Anaplasma
phagocytophilum}
Length = 231
Score = 30.2 bits (69), Expect = 0.61
Identities = 10/23 (43%), Positives = 14/23 (60%), Gaps = 4/23 (17%)
Query: 34 IIISGPPGVGKTTTILCLARILL 56
+++S P G GKTT +A LL
Sbjct: 30 LVLSSPSGCGKTT----VANKLL 48
>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 = 30.6 bits (68), Expect = 0.66
Identities = 50/344 (14%), Positives = 96/344 (27%), Gaps = 69/344 (20%)
Query: 4 YRPQTFSDIVGNEDTVERLKVF---------SSSGNVPNIIISGPPGVGKTTTILCLARI 54
Y P + E L S G G+GKTT +
Sbjct: 19 YIPPE---LRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKR 75
Query: 55 LLGPSFKD----AVLELNASNDRGIDTVRNKIK-----------------MFAQQKVTLP 93
+ + K+ +NA N + T+ + I + A
Sbjct: 76 VSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYV 135
Query: 94 PGRHKIVILDEADSMTDGAQQA------LRRTMEIYSNTTRFA----LACNNSEKIIEPI 143
+ +VILDE SM + A L R E + L + + + +
Sbjct: 136 ENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYM 195
Query: 144 QSR--------CAMLRYNKLTDAQL---LSKVIEICEKENISHTNDGLEAIV-FTAQ--- 188
+ + L +L L + E+ ++ + LE I +
Sbjct: 196 REKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTV-WEPRHLELISDVYGEDKG 254
Query: 189 --GDMRQALNNLQST-----HNGFGHVTAEYVFKVCDEPHPLAVKEMLLNCVEGNMKDSY 241
G R+A+ L+ G ++ + V K E +++ L + +
Sbjct: 255 GDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSENEAASIQTHELEALSIHELIIL 314
Query: 242 KIIHHLYKLGYAP---EDIIGNIFRVAKTLDIPEPLKLSIIQEI 282
++I G + + T+ +P +
Sbjct: 315 RLIAEATLGGMEWINAGLLRQRYEDASLTMYNVKPRGYTQYHIY 358
>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein
transport, biosynthetic protein; HET: GNP; 3.00A
{Bacillus subtilis} PDB: 2px3_A* 3syn_A*
Length = 296
Score = 30.4 bits (69), Expect = 0.68
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 34 IIISGPPGVGKTTTILCLA 52
I++ G G GKTTT+ LA
Sbjct: 108 IVLFGSTGAGKTTTLAKLA 126
>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 = 0.72
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 34 IIISGPPGVGKTTTILCLARIL 55
+I+ G G GKT T + +
Sbjct: 926 LILVGKAGCGKTATWKTVIDAM 947
>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein
transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A
Length = 320
Score = 30.2 bits (69), Expect = 0.73
Identities = 10/39 (25%), Positives = 15/39 (38%), Gaps = 1/39 (2%)
Query: 11 DIVGNEDTVERLKVFSSSGNVPNII-ISGPPGVGKTTTI 48
+ D + N NI + G G GKTT++
Sbjct: 84 QAYTDNDWTNKKYRIDFKENRLNIFMLVGVNGTGKTTSL 122
>1xjc_A MOBB protein homolog; structural genomics, midwest center for
structural GEN PSI, protein structure initiative, MCSG;
2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10
Length = 169
Score = 29.6 bits (66), Expect = 0.77
Identities = 6/28 (21%), Positives = 9/28 (32%)
Query: 28 SGNVPNIIISGPPGVGKTTTILCLARIL 55
S + + G GKTT +
Sbjct: 1 SNAMNVWQVVGYKHSGKTTLMEKWVAAA 28
>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus
abyssi}
Length = 350
Score = 30.5 bits (68), Expect = 0.77
Identities = 8/43 (18%), Positives = 17/43 (39%), Gaps = 2/43 (4%)
Query: 11 DIVGNEDTVERLKVFSSSGNVPNIIISGPPGVGKTTTILCLAR 53
DI E+ +L+ + ++ G VGK++ +
Sbjct: 13 DIFDREEESRKLEESLENYP--LTLLLGIRRVGKSSLLRAFLN 53
>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase,
translation; HET: ADP; 2.05A {Sulfolobus solfataricus}
Length = 538
Score = 30.4 bits (69), Expect = 0.86
Identities = 24/123 (19%), Positives = 44/123 (35%), Gaps = 18/123 (14%)
Query: 3 KYRPQTFSDIVGNEDTVERLKVFSSSGNVPNIIISGPPGVGKTTTILCLARILLGPSFKD 62
+Y+ F T + + + + G GVGKTT + LA ++ P+F D
Sbjct: 8 RYKVNGFKLF--GLPTPKN-------NTI--LGVLGKNGVGKTTVLKILAGEII-PNFGD 55
Query: 63 AVLELNASNDRGIDTVR-NKIKMFAQQ--KVTLPPGRHKIVILDEADSMTDGAQQALRRT 119
D + R +I + ++ L HKI ++ A G +
Sbjct: 56 --PNSKVGKDEVLKRFRGKEIYNYFKELYSNELKI-VHKIQYVEYASKFLKGTVNEILTK 112
Query: 120 MEI 122
++
Sbjct: 113 IDE 115
Score = 27.3 bits (61), Expect = 7.4
Identities = 9/20 (45%), Positives = 11/20 (55%)
Query: 36 ISGPPGVGKTTTILCLARIL 55
I GP G+GKTT L +
Sbjct: 299 ILGPNGIGKTTFARILVGEI 318
>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces
cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*
Length = 203
Score = 29.9 bits (68), Expect = 0.86
Identities = 9/20 (45%), Positives = 10/20 (50%)
Query: 27 SSGNVPNIIISGPPGVGKTT 46
S V I + G PG GK T
Sbjct: 11 SPDQVSVIFVLGGPGAGKGT 30
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 30.6 bits (69), Expect = 0.91
Identities = 10/67 (14%), Positives = 22/67 (32%), Gaps = 18/67 (26%)
Query: 172 NISHTN-----DGLEAIVFTAQ----GDMRQALNNLQSTHNGFGHVTAEYVFKVCDEPHP 222
N + N + E +++ ++ +R S GFG + + HP
Sbjct: 1409 NRNADNVDKILEQFEYVLYPSKTLKTDGVRAVSIT--SF--GFGQKGGQAIVV-----HP 1459
Query: 223 LAVKEML 229
+ +
Sbjct: 1460 DYLYGAI 1466
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding,
nucleotide-binding, hydrolase; 2.70A {Drosophila
melanogaster}
Length = 297
Score = 30.0 bits (68), Expect = 0.91
Identities = 12/50 (24%), Positives = 22/50 (44%), Gaps = 12/50 (24%)
Query: 8 TFSDIVGNEDTVERLK-----------VFSSSGNVPN-IIISGPPGVGKT 45
++DI G + + L+ +F+ +++ GPPG GKT
Sbjct: 19 EWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFGPPGNGKT 68
>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 = 30.1 bits (68), Expect = 0.98
Identities = 15/50 (30%), Positives = 21/50 (42%), Gaps = 12/50 (24%)
Query: 8 TFSDIVGNEDTVERLK-----------VFSSSGNVPN-IIISGPPGVGKT 45
+ DI G E +K +F+ P I++ GPPG GKT
Sbjct: 82 NWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKT 131
>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 = 30.3 bits (68), Expect = 1.0
Identities = 34/164 (20%), Positives = 60/164 (36%), Gaps = 35/164 (21%)
Query: 8 TFSDI-VGNEDTVERLKVFSS---SGNVPNIIISGPPGVGKTTTILCLARILLGPSFKDA 63
D+ + DT R S + P +I+ GPPG GKT T+ L
Sbjct: 1279 ASPDVVIPTVDTT-RHVDVLHAWLSEHRP-LILCGPPGSGKTMTL----TSTLRAFPDFE 1332
Query: 64 VLELNASNDRGIDTVRNKI------KMFAQQKVTLPP---GRHKIVILDEADSMTD---G 111
V+ LN S+ + + K + L P G+ +V DE + + G
Sbjct: 1333 VVSLNFSSATTPELLLKTFDHHCEYKRTPSGETVLRPTQLGKWLVVFCDEINLPSTDKYG 1392
Query: 112 AQQA---LRRTME---IYSNTTRFALACNNSEKIIEPIQSRCAM 149
Q+ +R+ +E + + +++ ++ IQ A
Sbjct: 1393 TQRVITFIRQMVEKGGFWRTS-------DHTWIKLDKIQFVGAC 1429
>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A
{Brucella suis}
Length = 361
Score = 30.0 bits (68), Expect = 1.1
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 33 NIIISGPPGVGKTTTILCLAR 53
I+++G G GKTT + L +
Sbjct: 177 VIVVAGETGSGKTTLMKALMQ 197
>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion,
hydrolas binding complex; 2.40A {Helicobacter pylori}
SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A
Length = 330
Score = 29.7 bits (67), Expect = 1.2
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 33 NIIISGPPGVGKTTTILCLAR 53
N+I+ G G GKTT I +
Sbjct: 173 NVIVCGGTGSGKTTYIKSIME 193
>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed
alpha-beta fold, elongated beta-sheet, walker A motif,
P-loop structural motif; 1.90A {Escherichia coli} SCOP:
c.37.1.10 PDB: 1p9n_A
Length = 174
Score = 29.1 bits (64), Expect = 1.2
Identities = 8/25 (32%), Positives = 12/25 (48%)
Query: 31 VPNIIISGPPGVGKTTTILCLARIL 55
+P + + G GKTT + L L
Sbjct: 6 IPLLAFAAWSGTGKTTLLKKLIPAL 30
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 29.8 bits (68), Expect = 1.2
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 91 TLPPGRHKIVILDEADSMTD 110
L K+ +LDEAD+M D
Sbjct: 254 QLDARDIKVFVLDEADNMLD 273
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 29.8 bits (67), Expect = 1.3
Identities = 13/50 (26%), Positives = 21/50 (42%), Gaps = 12/50 (24%)
Query: 8 TFSDIVGNEDTVERLK-----------VFSSSGNVPN-IIISGPPGVGKT 45
F DI G + + L+ +F+ +++ GPPG GKT
Sbjct: 113 KFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKT 162
>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial
conjugation, F1-ATPase-like quaternary structure, ring
helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB:
1e9s_A 1gki_A* 1gl7_A* 1gl6_A*
Length = 437
Score = 29.9 bits (67), Expect = 1.3
Identities = 7/24 (29%), Positives = 14/24 (58%)
Query: 33 NIIISGPPGVGKTTTILCLARILL 56
+++++G G GK+ + LA L
Sbjct: 55 HLLVNGATGTGKSVLLRELAYTGL 78
>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function;
HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*
Length = 359
Score = 29.7 bits (66), Expect = 1.4
Identities = 10/46 (21%), Positives = 16/46 (34%), Gaps = 4/46 (8%)
Query: 12 IVGNEDTVER----LKVFSSSGNVPNIIISGPPGVGKTTTILCLAR 53
+V + L +I+ G PG GK+T L +
Sbjct: 1 MVDTHKLADDVLQLLDNRIEDNYRVCVILVGSPGSGKSTIAEELCQ 46
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 29.2 bits (66), Expect = 1.4
Identities = 20/62 (32%), Positives = 28/62 (45%), Gaps = 16/62 (25%)
Query: 8 TFSDIVGNEDTVERL-----------KVFSSSGNVPN-IIISGPPGVGKTTTILCLARIL 55
TF D+ G E+ E L + +P +++ GPPGVGKT LAR +
Sbjct: 38 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTH----LARAV 93
Query: 56 LG 57
G
Sbjct: 94 AG 95
>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic
region; yeast protein, ATP binding protein; 2.25A
{Saccharomyces cerevisiae} SCOP: c.37.1.6
Length = 290
Score = 29.6 bits (65), Expect = 1.4
Identities = 11/33 (33%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 25 FSSSGNVPNII-ISGPPGVGKTTTILCLARILL 56
F + P I SGP G GK+ T + + L+
Sbjct: 24 FETGNKCPLFIFFSGPQGSGKSFTSIQIYNHLM 56
>1p6x_A Thymidine kinase; P-loop, LID, transferase; HET: THM; 2.00A
{Equid herpesvirus 4} SCOP: c.37.1.1 PDB: 1p72_A*
1p73_A* 1p75_A*
Length = 334
Score = 29.3 bits (65), Expect = 1.5
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 34 IIISGPPGVGKTTTILCLAR 53
I + G G+GK+TT +A
Sbjct: 10 IYLDGVYGIGKSTTGRVMAS 29
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus
P2}
Length = 235
Score = 29.2 bits (66), Expect = 1.5
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 34 IIISGPPGVGKTT 46
I ++G PG GKT
Sbjct: 26 IALTGEPGTGKTI 38
>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A
{Enterobacteria phage T4} SCOP: c.37.1.1
Length = 181
Score = 29.0 bits (65), Expect = 1.5
Identities = 9/26 (34%), Positives = 13/26 (50%), Gaps = 4/26 (15%)
Query: 34 IIISGPPGVGKTTTILCLARILLGPS 59
I+ G PG GK+T AR + +
Sbjct: 5 ILTIGCPGSGKST----WAREFIAKN 26
>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 = 29.2 bits (66), Expect = 1.6
Identities = 20/62 (32%), Positives = 28/62 (45%), Gaps = 16/62 (25%)
Query: 8 TFSDIVGNEDTVERL-----------KVFSSSGNVPN-IIISGPPGVGKTTTILCLARIL 55
TF D+ G E+ E L + +P +++ GPPGVGKT LAR +
Sbjct: 14 TFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTH----LARAV 69
Query: 56 LG 57
G
Sbjct: 70 AG 71
>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate
kinase); nucleoside monophosphate kinase, NMP kinase;
HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP:
c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*
Length = 194
Score = 28.6 bits (65), Expect = 1.7
Identities = 6/20 (30%), Positives = 8/20 (40%)
Query: 27 SSGNVPNIIISGPPGVGKTT 46
+ + G PG GK T
Sbjct: 2 EKSKPNVVFVLGGPGSGKGT 21
>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP;
2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB:
3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A*
3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*
Length = 525
Score = 29.5 bits (66), Expect = 1.7
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 34 IIISGPPGVGKTTTIL 49
I+ +G G GKT +
Sbjct: 284 ILATGATGTGKTLLVS 299
Score = 29.1 bits (65), Expect = 2.2
Identities = 6/13 (46%), Positives = 8/13 (61%)
Query: 34 IIISGPPGVGKTT 46
++SG G GKT
Sbjct: 42 TLVSGTSGTGKTL 54
>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop
kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex
aeolicus}
Length = 168
Score = 28.6 bits (65), Expect = 1.7
Identities = 10/31 (32%), Positives = 13/31 (41%), Gaps = 1/31 (3%)
Query: 33 NIIISGPPGVGKTTTILCLARILLGPSFKDA 63
I + G GK+T L+R L F D
Sbjct: 2 RIYLIGFMCSGKSTVGSLLSRS-LNIPFYDV 31
>2fna_A Conserved hypothetical protein; structural genomics, joint center
for structural genomics, J protein structure
initiative, PSI-2; HET: MSE ADP; 2.00A {Sulfolobus
solfataricus} SCOP: a.4.5.11 c.37.1.20
Length = 357
Score = 29.3 bits (65), Expect = 1.8
Identities = 12/73 (16%), Positives = 24/73 (32%), Gaps = 4/73 (5%)
Query: 11 DIVGNEDTVERLKVFSSSGNVPNIIISGPPGVGKTTTILCLARILLGPSFKDAVLELNAS 70
D E +E+LK + ++ G GK++ I L P + +
Sbjct: 14 DFFDREKEIEKLKGLRAP----ITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEER 69
Query: 71 NDRGIDTVRNKIK 83
N +++
Sbjct: 70 NYISYKDFLLELQ 82
>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5;
1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB:
1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*
Length = 214
Score = 28.7 bits (65), Expect = 1.8
Identities = 7/14 (50%), Positives = 8/14 (57%)
Query: 33 NIIISGPPGVGKTT 46
II+ G P GK T
Sbjct: 2 RIILLGAPVAGKGT 15
>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative
iron chelatin ABC transporter, nucleotide binding
domain; 2.40A {Haemophilus influenzae}
Length = 253
Score = 29.1 bits (66), Expect = 1.9
Identities = 7/20 (35%), Positives = 10/20 (50%)
Query: 36 ISGPPGVGKTTTILCLARIL 55
+ G G GK+T + L I
Sbjct: 36 VLGQNGCGKSTLLDLLLGIH 55
>3t61_A Gluconokinase; PSI-biology, structural genomics, protein
structure initiati YORK structural genomics research
consortium, nysgrc; 2.20A {Sinorhizobium meliloti}
Length = 202
Score = 28.9 bits (64), Expect = 1.9
Identities = 10/44 (22%), Positives = 18/44 (40%), Gaps = 1/44 (2%)
Query: 32 PNIIISGPPGVGKTTTILCLARILLGPSFKDAVLELNASNDRGI 75
+I++ G G GK++ +A G F + N R +
Sbjct: 19 GSIVVMGVSGSGKSSVGEAIAE-ACGYPFIEGDALHPPENIRKM 61
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 28.8 bits (65), Expect = 2.0
Identities = 34/123 (27%), Positives = 52/123 (42%), Gaps = 40/123 (32%)
Query: 8 TFSDIVGNEDTVERL-----------KVFSSSGNVPN-IIISGPPGVGKTTTILCLARIL 55
TF+D+ G ++ E + + G +P +++ GPPG GKT LA+ +
Sbjct: 10 TFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTL----LAKAI 65
Query: 56 LG----PSFK----DAV---LELNASNDRGIDTVRNKIKMFAQQKVTLPPGRHKIVILDE 104
G P F D V + + AS VR+ MF Q K P I+ +DE
Sbjct: 66 AGEAKVPFFTISGSDFVEMFVGVGASR------VRD---MFEQAKKAAPC----IIFIDE 112
Query: 105 ADS 107
D+
Sbjct: 113 IDA 115
>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide
biosynthesis, nucleotide-BIND transferase, structural
genomics; 2.10A {Burkholderia pseudomallei 1710B}
Length = 230
Score = 28.7 bits (65), Expect = 2.0
Identities = 7/14 (50%), Positives = 9/14 (64%)
Query: 33 NIIISGPPGVGKTT 46
+I+ G PG GK T
Sbjct: 10 RLILLGAPGAGKGT 23
>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 = 29.0 bits (65), Expect = 2.1
Identities = 14/50 (28%), Positives = 21/50 (42%), Gaps = 12/50 (24%)
Query: 8 TFSDIVGNEDTVERLK-----------VFSSS-GNVPNIIISGPPGVGKT 45
+ D+ G E E LK +F + I++ GPPG GK+
Sbjct: 49 KWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKS 98
>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase;
HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A*
3l0p_A*
Length = 223
Score = 28.8 bits (65), Expect = 2.1
Identities = 9/14 (64%), Positives = 10/14 (71%)
Query: 33 NIIISGPPGVGKTT 46
NI+I GP G GK T
Sbjct: 2 NILIFGPNGSGKGT 15
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 28.9 bits (65), Expect = 2.2
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 34 IIISGPPGVGKTT 46
+++SG PG GKT
Sbjct: 26 VLLSGGPGTGKTI 38
>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 = 28.5 bits (63), Expect = 2.5
Identities = 20/96 (20%), Positives = 36/96 (37%), Gaps = 17/96 (17%)
Query: 27 SSGNVPNIIISGPPGVGKT-TTILCLARILLGPSFKDAVLELNASNDRGIDTVRNKIKMF 85
S+ +I+G PG GKT + +A + ++ + +N +G+ I+
Sbjct: 1 SNAMAEICLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIETD 60
Query: 86 AQQKV----------------TLPPGRHKIVILDEA 105
A++ P IVI+DEA
Sbjct: 61 AKKLPKSTDEQLSAHDMYEWIKKPENIGSIVIVDEA 96
>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer,
nucleotide twinning, protein complex, protein transport;
HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1
c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D
2iyl_D* 2cnw_D* 2j7p_D*
Length = 304
Score = 28.7 bits (65), Expect = 2.6
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 34 IIISGPPGVGKTTTILCLARIL 55
+++ G GVGKTTTI L R
Sbjct: 105 VLVVGVNGVGKTTTIAKLGRYY 126
>2jlq_A Serine protease subunit NS3; ribonucleoprotein,
nucleotide-binding, viral nucleoprotein, endoplasmic
reticulum, helicase, hydrolase; 1.67A {Dengue virus 4}
PDB: 2jly_A* 2jls_A* 2jlu_A 2jlv_A* 2jlw_A 2jlx_A*
2jlz_A* 2jlr_A* 2bmf_A 2bhr_A
Length = 451
Score = 28.7 bits (64), Expect = 2.7
Identities = 11/36 (30%), Positives = 15/36 (41%), Gaps = 1/36 (2%)
Query: 32 PNIIISGPPGVGKTTTIL-CLARILLGPSFKDAVLE 66
I+ PG GKT IL + R L + +L
Sbjct: 20 RLTIMDLHPGAGKTKRILPSIVREALLRRLRTLILA 55
>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase;
HET: AMP; 2.3A {Homo sapiens}
Length = 199
Score = 28.3 bits (64), Expect = 2.7
Identities = 8/17 (47%), Positives = 8/17 (47%)
Query: 30 NVPNIIISGPPGVGKTT 46
I I G PG GK T
Sbjct: 11 KCKIIFIIGGPGSGKGT 27
>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase,
phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1
g.41.2.1 PDB: 2ak2_A 2c9y_A*
Length = 233
Score = 28.3 bits (64), Expect = 2.7
Identities = 9/30 (30%), Positives = 12/30 (40%)
Query: 17 DTVERLKVFSSSGNVPNIIISGPPGVGKTT 46
V + S ++ GPPG GK T
Sbjct: 2 PNVPAAEPVPESPKGVRAVLLGPPGAGKGT 31
>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination,
ATP-binding, cytoplasm, metal-binding, nucleotide
biosynthesis, nucleotide-binding; HET: AP5; 1.58A
{Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A*
2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A*
1zip_A* 1s3g_A*
Length = 216
Score = 28.3 bits (64), Expect = 2.8
Identities = 7/14 (50%), Positives = 10/14 (71%)
Query: 33 NIIISGPPGVGKTT 46
N+++ G PG GK T
Sbjct: 2 NLVLMGLPGAGKGT 15
>3tlx_A Adenylate kinase 2; structural genomics, structural genomics
consortium, SGC, RO fold, transferase, ATP binding,
phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium
falciparum}
Length = 243
Score = 28.3 bits (64), Expect = 2.8
Identities = 8/24 (33%), Positives = 9/24 (37%)
Query: 23 KVFSSSGNVPNIIISGPPGVGKTT 46
+ S I G PG GK T
Sbjct: 21 RYACLSKPDGRYIFLGAPGSGKGT 44
>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide
biosynthesis, nucleotide-binding, transferase,
structural genomics; 1.80A {Thermus thermophilus}
Length = 186
Score = 28.3 bits (64), Expect = 2.8
Identities = 8/14 (57%), Positives = 9/14 (64%)
Query: 33 NIIISGPPGVGKTT 46
+I GPPG GK T
Sbjct: 6 AVIFLGPPGAGKGT 19
>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding,
nucleotide-binding, transferase; HET: AP5; 2.00A
{Marinibacillus marinus}
Length = 216
Score = 28.3 bits (64), Expect = 2.9
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 33 NIIISGPPGVGKTT 46
NI++ G PG GK T
Sbjct: 2 NIVLMGLPGAGKGT 15
>2rgx_A Adenylate kinase; transferase(phosphotransferase), ATP-binding,
nucleo binding, transferase; HET: AP5; 1.90A {Aquifex
aeolicus} PDB: 2rh5_A
Length = 206
Score = 28.3 bits (64), Expect = 2.9
Identities = 7/14 (50%), Positives = 9/14 (64%)
Query: 33 NIIISGPPGVGKTT 46
++ GPPG GK T
Sbjct: 2 ILVFLGPPGAGKGT 15
>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase;
HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A*
2jas_A*
Length = 205
Score = 28.0 bits (62), Expect = 2.9
Identities = 7/22 (31%), Positives = 11/22 (50%), Gaps = 4/22 (18%)
Query: 34 IIISGPPGVGKTTTILCLARIL 55
I I G G GK+T ++ +
Sbjct: 3 IAIFGTVGAGKST----ISAEI 20
>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism,
ATP-binding, nucleotide biosynthesis,
nucleotide-binding, transferase; HET: ADP; 1.9A
{Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A
Length = 201
Score = 27.9 bits (63), Expect = 3.2
Identities = 7/14 (50%), Positives = 10/14 (71%)
Query: 33 NIIISGPPGVGKTT 46
+++ GPPG GK T
Sbjct: 22 RVLLLGPPGAGKGT 35
>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase,
transferase (phosphotransferase); HET: AP5; 1.63A
{Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB:
2aky_A* 3aky_A* 1dvr_A*
Length = 220
Score = 27.9 bits (63), Expect = 3.3
Identities = 7/14 (50%), Positives = 10/14 (71%)
Query: 33 NIIISGPPGVGKTT 46
+++ GPPG GK T
Sbjct: 6 RMVLIGPPGAGKGT 19
>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase,
shikimat ATP binding, chloroplast, transferase; 2.35A
{Arabidopsis thaliana}
Length = 250
Score = 28.2 bits (63), Expect = 3.3
Identities = 12/31 (38%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 33 NIIISGPPGVGKTTTILCLARILLGPSFKDA 63
++ + G G GKTT +AR LG +F D
Sbjct: 50 SMYLVGMMGSGKTTVGKIMAR-SLGYTFFDC 79
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 28.5 bits (64), Expect = 3.3
Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 12/50 (24%)
Query: 8 TFSDIVGNEDTVERLK-----------VFSSSGNVPN-IIISGPPGVGKT 45
+SD+ G E E LK +F+ I++ GPPG GK+
Sbjct: 10 KWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKS 59
>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO
joint center for structural genomics, JCSG, protein
structu initiative, PSI; 2.10A {Thermotoga maritima}
SCOP: c.37.1.12
Length = 256
Score = 28.3 bits (64), Expect = 3.4
Identities = 10/20 (50%), Positives = 12/20 (60%), Gaps = 4/20 (20%)
Query: 38 GPPGVGKTTTILCLARILLG 57
GP G GKTTT+ RI+
Sbjct: 48 GPNGAGKTTTL----RIIST 63
>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET:
ATP; 2.37A {Humulus lupulus}
Length = 339
Score = 28.4 bits (63), Expect = 3.4
Identities = 6/26 (23%), Positives = 11/26 (42%)
Query: 32 PNIIISGPPGVGKTTTILCLARILLG 57
+++ G G GK+ + LA
Sbjct: 41 KLLVLMGATGTGKSRLSIDLAAHFPL 66
>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 = 28.4 bits (63), Expect = 3.5
Identities = 8/47 (17%), Positives = 15/47 (31%), Gaps = 7/47 (14%)
Query: 10 SDIVGNEDTVERLK---VFSSSGNVPNIIISGPPGVGKTTTILCLAR 53
E V+R+ + + + G G GK+ +A
Sbjct: 128 MTCYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSV----IAS 170
>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein
inhibitors, nucleotide-binding, transferase; HET: AP5;
1.60A {Cryptosporidium parvum iowa II}
Length = 217
Score = 27.9 bits (63), Expect = 3.5
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 28 SGNVPNIIISGPPGVGKTT 46
+ N+I+ G PG GK T
Sbjct: 2 NSKKHNLILIGAPGSGKGT 20
>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD,
hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A*
2gk7_A 2xzo_A* 2xzp_A
Length = 624
Score = 28.6 bits (64), Expect = 3.5
Identities = 15/40 (37%), Positives = 17/40 (42%), Gaps = 1/40 (2%)
Query: 32 PNIIISGPPGVGKTTTILCLARILLGPSFKDAVLELNASN 71
P +I GPPG GKT T + L VL SN
Sbjct: 196 PLSLIQGPPGTGKTVTSATIVYHLA-RQGNGPVLVCAPSN 234
>3vaa_A Shikimate kinase, SK; structural genomics, center for structural
genomics of infec diseases, csgid, metal binding,
transferase; 1.70A {Bacteroides thetaiotaomicron}
Length = 199
Score = 28.0 bits (63), Expect = 3.6
Identities = 12/31 (38%), Positives = 14/31 (45%), Gaps = 1/31 (3%)
Query: 33 NIIISGPPGVGKTTTILCLARILLGPSFKDA 63
I ++G G GKTT AR L F D
Sbjct: 27 RIFLTGYMGAGKTTLGKAFARK-LNVPFIDL 56
>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS
protein structure initiative, PSI, joint center for
structu genomics; HET: CIT; 1.60A {Thermotoga maritima}
SCOP: a.24.13.1 c.37.1.10
Length = 306
Score = 28.3 bits (64), Expect = 3.6
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 34 IIISGPPGVGKTTTILCLARIL 55
I++ G G GKTT+ LA++
Sbjct: 107 IMVVGVNGTGKTTSCGKLAKMF 128
>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A
{Rhodobacter sphaeroides} SCOP: c.37.1.6
Length = 290
Score = 28.1 bits (62), Expect = 3.6
Identities = 10/39 (25%), Positives = 15/39 (38%)
Query: 28 SGNVPNIIISGPPGVGKTTTILCLARILLGPSFKDAVLE 66
S P I ++G G G +T +I K +E
Sbjct: 2 SKKHPIISVTGSSGAGTSTVKHTFDQIFRREGVKAVSIE 40
>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC,
cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo
sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B*
2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A*
2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A*
2zi7_B* 2zia_A* 3kfx_A* ...
Length = 263
Score = 27.9 bits (61), Expect = 3.7
Identities = 9/38 (23%), Positives = 12/38 (31%), Gaps = 4/38 (10%)
Query: 18 TVERLKVFSSSGNVPNIIISGPPGVGKTTTILCLARIL 55
+ S + I I G GK+T IL
Sbjct: 11 SCPSFSASSEGTRIKKISIEGNIAAGKST----FVNIL 44
>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural
genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}
Length = 263
Score = 28.1 bits (63), Expect = 3.8
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 34 IIISGPPGVGKTTTILCLARIL 55
+II GP G GKTT + ++ +L
Sbjct: 33 VIILGPNGSGKTTLLRAISGLL 54
>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB);
structural genomics, PSI, protein structure initiative;
2.10A {Archaeoglobus fulgidus}
Length = 171
Score = 27.7 bits (61), Expect = 3.8
Identities = 15/54 (27%), Positives = 23/54 (42%), Gaps = 5/54 (9%)
Query: 31 VPNIIISGPPGVGKTTTILCLARILLGPSFKDAVLELNASNDR-----GIDTVR 79
+ I G GKTT I + IL + AV++ +A D G D+ +
Sbjct: 2 SLILSIVGTSDSGKTTLITRMMPILRERGLRVAVVKRHAHGDFEIDKEGKDSWK 55
>2og2_A Putative signal recognition particle receptor; nucleotide-binding,
protein transport; 2.00A {Arabidopsis thaliana}
Length = 359
Score = 28.0 bits (63), Expect = 3.8
Identities = 12/40 (30%), Positives = 15/40 (37%), Gaps = 1/40 (2%)
Query: 17 DTVERLKVFSSSGNVPNII-ISGPPGVGKTTTILCLARIL 55
P +I I G G GKTT++ LA L
Sbjct: 142 AKKNSKTELQLGFRKPAVIMIVGVNGGGKTTSLGKLAHRL 181
>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase,
protein-targeting, transport protein; HET: GDP; 1.97A
{Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*
Length = 328
Score = 28.0 bits (63), Expect = 3.8
Identities = 12/22 (54%), Positives = 13/22 (59%)
Query: 34 IIISGPPGVGKTTTILCLARIL 55
I+ G G GKTTTI LA L
Sbjct: 132 IMFVGFNGSGKTTTIAKLANWL 153
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 27.9 bits (62), Expect = 3.9
Identities = 6/13 (46%), Positives = 10/13 (76%)
Query: 34 IIISGPPGVGKTT 46
++++G G GKTT
Sbjct: 33 VLLTGGTGTGKTT 45
>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region,
conformational changes, transferase; 2.10A {Homo
sapiens} SCOP: c.37.1.1
Length = 196
Score = 27.5 bits (62), Expect = 4.1
Identities = 6/14 (42%), Positives = 8/14 (57%)
Query: 33 NIIISGPPGVGKTT 46
+ + G PG GK T
Sbjct: 5 VVFVLGGPGAGKGT 18
>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 = 28.0 bits (63), Expect = 4.2
Identities = 17/51 (33%), Positives = 22/51 (43%), Gaps = 13/51 (25%)
Query: 8 TFSDIVGNEDTVERLK-----------VFSSSGNVPN--IIISGPPGVGKT 45
T+ DI G ED L+ F G P+ ++ GPPG GKT
Sbjct: 13 TWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKT 63
>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone,
hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus
influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*
Length = 310
Score = 28.0 bits (63), Expect = 4.3
Identities = 25/101 (24%), Positives = 36/101 (35%), Gaps = 21/101 (20%)
Query: 33 NIIISGPPGVGKTTTILCLARILLGPSFKDAVLELNASNDRGIDTVR-----NKIKMFAQ 87
NI++ GP GVGKT LA++ P K + G + A
Sbjct: 52 NILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGAI 111
Query: 88 QKVTLPPGRHKIVILDE------------ADSMTDGAQQAL 116
V ++ IV +DE AD +G Q+ L
Sbjct: 112 DAVE----QNGIVFIDEIDKICKKGEYSGADVSREGVQRDL 148
>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis,
phosphoprotein, feedback inhibition,
deoxyribonucleoside kinase, salvage pathway; HET: DCP;
2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB:
1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A*
2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*
Length = 230
Score = 27.7 bits (61), Expect = 4.5
Identities = 10/41 (24%), Positives = 13/41 (31%), Gaps = 5/41 (12%)
Query: 16 EDTVERLKVFSSSGNVPNII-ISGPPGVGKTTTILCLARIL 55
+ R + G P + I G G GKTT
Sbjct: 4 AASCARKGTKYAEGTQPFTVLIEGNIGSGKTT----YLNHF 40
>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein
translocation, GTP-binding, nucleotide-binding, protein
transport; 1.75A {Arabidopsis thaliana}
Length = 302
Score = 27.9 bits (63), Expect = 4.5
Identities = 12/40 (30%), Positives = 15/40 (37%), Gaps = 1/40 (2%)
Query: 17 DTVERLKVFSSSGNVPNII-ISGPPGVGKTTTILCLARIL 55
P +I I G G GKTT++ LA L
Sbjct: 85 AKKNSKTELQLGFRKPAVIMIVGVNGGGKTTSLGKLAHRL 124
>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding,
cell CELL division, hydrolase, membrane, metal-binding;
3.30A {Helicobacter pylori} PDB: 2r65_A*
Length = 268
Score = 27.6 bits (62), Expect = 4.7
Identities = 17/62 (27%), Positives = 28/62 (45%), Gaps = 16/62 (25%)
Query: 8 TFSDIVGNEDTVERL-----------KVFSSSGNVPN-IIISGPPGVGKTTTILCLARIL 55
F D+ GNE+ E + + + +P +++ GPPG GKT LA+ +
Sbjct: 9 RFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTL----LAKAV 64
Query: 56 LG 57
G
Sbjct: 65 AG 66
>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding
loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori}
SCOP: c.37.1.20
Length = 376
Score = 28.0 bits (63), Expect = 4.9
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 33 NIIISGPPGVGKTTTILCLARIL 55
NI++ GP G GKT LA+ L
Sbjct: 74 NILLIGPTGSGKTLMAQTLAKHL 96
>2r6a_A DNAB helicase, replicative helicase; replication, DNAB; 2.90A
{Geobacillus stearothermophilus} PDB: 2r6c_A 2r6d_A
2r6e_A 2vyf_A 2vye_A
Length = 454
Score = 27.9 bits (63), Expect = 5.3
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 34 IIISGPPGVGKTTTILCLAR 53
II++ P VGKT L +A+
Sbjct: 206 IIVAARPSVGKTAFALNIAQ 225
>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+
molecular machine, hexamer, asymmetric,, ATP-BIN
chaperone, metal-binding; HET: ADP; 3.25A {Escherichia
coli} PDB: 3hte_A
Length = 363
Score = 27.5 bits (62), Expect = 5.4
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 33 NIIISGPPGVGKTTTILCLARIL 55
NI++ GP G GKT LAR+L
Sbjct: 53 NILLIGPTGSGKTLLAETLARLL 75
>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex,
transferase; HET: DTP; 2.80A {Homo sapiens} SCOP:
c.37.1.1
Length = 241
Score = 27.4 bits (60), Expect = 5.4
Identities = 7/27 (25%), Positives = 11/27 (40%)
Query: 34 IIISGPPGVGKTTTILCLARILLGPSF 60
+ I G VGK+T + L +
Sbjct: 5 LSIEGNIAVGKSTFVKLLTKTYPEWHV 31
>2q6t_A DNAB replication FORK helicase; hydrolase; 2.90A {Thermus
aquaticus}
Length = 444
Score = 27.9 bits (63), Expect = 5.6
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 34 IIISGPPGVGKTTTILCLAR 53
II+ P +GKT L +A+
Sbjct: 203 NIIAARPAMGKTAFALTIAQ 222
>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme
function initiative, EFI, STRU genomics, transferase;
1.60A {Janibacter SP}
Length = 200
Score = 27.4 bits (60), Expect = 5.7
Identities = 7/33 (21%), Positives = 13/33 (39%)
Query: 26 SSSGNVPNIIISGPPGVGKTTTILCLARILLGP 58
+ ++++ G G GKTT +A
Sbjct: 24 MTGEPTRHVVVMGVSGSGKTTIAHGVADETGLE 56
>1e2k_A Thymidine kinase; transferase, antiviral drug, enzyme-prodrug
gene therapy, sugar ring pucker; HET: TMC; 1.7A {Herpes
simplex virus} SCOP: c.37.1.1 PDB: 1e2i_A* 1e2h_A*
1e2m_A* 1e2n_A* 1e2p_A* 1ki2_A* 1ki3_A* 1ki4_A* 1ki6_B*
1ki7_A* 1ki8_A* 3rdp_A* 2ki5_A* 1kim_A* 1qhi_A* 1p7c_A*
1vtk_A* 2vtk_A* 3vtk_A* 3f0t_A* ...
Length = 331
Score = 27.4 bits (60), Expect = 5.7
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 34 IIISGPPGVGKTTTILCLARI 54
+ I GP G+GKTTT L +
Sbjct: 7 VYIDGPHGMGKTTTTQLLVAL 27
>3pey_A ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, ATPase, helicase,
mRNA-export, nuclear pore, hydrolase-RNA complex; HET:
ADP; 1.40A {Saccharomyces cerevisiae} PDB: 3pew_A*
3pex_A* 3pez_A* 3rrm_A* 3rrn_A* 2kbe_A 3gfp_A 2kbf_A
3pev_A* 3peu_A*
Length = 395
Score = 27.5 bits (62), Expect = 5.7
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 91 TLPPGRHKIVILDEADSMTD 110
+ + KI +LDEAD+M D
Sbjct: 140 LMQLQKIKIFVLDEADNMLD 159
>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 = 27.6 bits (61), Expect = 5.8
Identities = 16/57 (28%), Positives = 24/57 (42%), Gaps = 12/57 (21%)
Query: 8 TFSDIVGNEDTVERLK-----------VFSSSGNVPN-IIISGPPGVGKTTTILCLA 52
+SD+ G E E LK +F+ I++ GPPG GK+ +A
Sbjct: 132 KWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVA 188
>3bh0_A DNAB-like replicative helicase; ATPase, replication; 2.35A
{Bacillus phage SPP1}
Length = 315
Score = 27.5 bits (62), Expect = 5.9
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 34 IIISGPPGVGKTTTILCLAR 53
++I+ P +GKT L A+
Sbjct: 71 VLIAARPSMGKTAFALKQAK 90
>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase,
nucleotide-binding, Pro serine protease, stress
response; HET: ADP; 3.40A {Bacillus subtilis} PDB:
1x37_A
Length = 543
Score = 27.9 bits (63), Expect = 5.9
Identities = 8/8 (100%), Positives = 8/8 (100%)
Query: 38 GPPGVGKT 45
GPPGVGKT
Sbjct: 115 GPPGVGKT 122
>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell
division inhibitor, MINC, MINE, cell hydrolase; HET:
ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A*
Length = 260
Score = 27.2 bits (61), Expect = 5.9
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 35 IISGPPGVGKTTTILCLARIL 55
+ SG GVGKTT+ +A L
Sbjct: 7 VTSGKGGVGKTTSSAAIATGL 27
>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET:
ATP; NMR {Saccharomyces cerevisiae}
Length = 608
Score = 27.7 bits (62), Expect = 6.2
Identities = 13/55 (23%), Positives = 19/55 (34%), Gaps = 3/55 (5%)
Query: 36 ISGPPGVGKTTTILCLARIL---LGPSFKDAVLELNASNDRGIDTVRNKIKMFAQ 87
+ G G+GK+T + LA LG + RG + KM
Sbjct: 108 LVGTNGIGKSTALKILAGKQKPNLGRFDDPPEWQEIIKYFRGSELQNYFTKMLED 162
>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur
cluster, adenosine diphosphate, nucleotide-binding; HET:
ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*
Length = 607
Score = 27.7 bits (62), Expect = 6.5
Identities = 13/41 (31%), Positives = 18/41 (43%), Gaps = 3/41 (7%)
Query: 18 TVERLKVFSSSGNVPN---IIISGPPGVGKTTTILCLARIL 55
K+ G + I I GP G+GKTT + LA +
Sbjct: 366 DYGSFKLEVEPGEIRKGEVIGIVGPNGIGKTTFVKMLAGVE 406
>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics,
structural G consortium, SGC, ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo
sapiens}
Length = 262
Score = 27.2 bits (61), Expect = 6.7
Identities = 13/50 (26%), Positives = 20/50 (40%), Gaps = 12/50 (24%)
Query: 8 TFSDIVGNEDTVERLKVFSS-----------SGNVPN-IIISGPPGVGKT 45
+F D+ G + ++ F VP ++ GPPG GKT
Sbjct: 4 SFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKVPKGALLLGPPGCGKT 53
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA
replication, viral replication, nucleotide-binding;
2.10A {Kokobera virus} PDB: 2v6j_A
Length = 431
Score = 27.5 bits (61), Expect = 6.7
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 34 IIISGPPGVGKTTTIL 49
++ PG GKT +L
Sbjct: 5 TVLDLHPGAGKTRRVL 20
>1sgw_A Putative ABC transporter; structural genomics, P protein
structure initiative, southeast collaboratory for S
genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP:
c.37.1.12
Length = 214
Score = 27.1 bits (61), Expect = 6.8
Identities = 7/20 (35%), Positives = 11/20 (55%), Gaps = 4/20 (20%)
Query: 38 GPPGVGKTTTILCLARILLG 57
GP G+GKTT + + +
Sbjct: 42 GPNGIGKTTLL----KTIST 57
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 27.1 bits (61), Expect = 6.8
Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 13/51 (25%)
Query: 8 TFSDIVGNEDTVERLK-----------VFSSSGNVP--NIIISGPPGVGKT 45
T++DI ED E L F + G V ++++GPPG GKT
Sbjct: 8 TWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKT 58
>2cvh_A DNA repair and recombination protein RADB; filament formation,
homologous recombination, ATPase domain,
hyperthermophIle; HET: DNA; 2.20A {Thermococcus
kodakarensis} PDB: 2cvf_A*
Length = 220
Score = 27.1 bits (61), Expect = 6.9
Identities = 7/17 (41%), Positives = 8/17 (47%)
Query: 36 ISGPPGVGKTTTILCLA 52
+ GP GKTT L
Sbjct: 25 VYGPYASGKTTLALQTG 41
>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent
proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus
influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A*
1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E*
1hqy_E* 1ht1_E* 1ht2_E*
Length = 444
Score = 27.3 bits (61), Expect = 7.0
Identities = 9/13 (69%), Positives = 11/13 (84%)
Query: 33 NIIISGPPGVGKT 45
NI++ GP GVGKT
Sbjct: 52 NILMIGPTGVGKT 64
>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex,
transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}
Length = 460
Score = 27.5 bits (60), Expect = 7.1
Identities = 11/37 (29%), Positives = 20/37 (54%), Gaps = 6/37 (16%)
Query: 20 ERLKVFSSSGNVPNIIISGPPGVGKTTTILCLARILL 56
E++++ + G P ++I G GKT+ L+R L
Sbjct: 129 EKIRMSNFEG--PRVVIVGGSQTGKTS----LSRTLC 159
>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis,
hydrolyase/translation complex; HET: ADP; 1.90A
{Pyrococcus furiosus}
Length = 538
Score = 27.3 bits (61), Expect = 7.1
Identities = 10/20 (50%), Positives = 13/20 (65%)
Query: 36 ISGPPGVGKTTTILCLARIL 55
I GP G+GKTT + LA +
Sbjct: 317 IVGPNGIGKTTFVKMLAGVE 336
>1yks_A Genome polyprotein [contains: flavivirin protease NS3 catalytic
subunit]; helicase, flavivirus, DEAD-BOX, ATPase,
rtpase, hydrolase; 1.80A {Yellow fever virus} SCOP:
c.37.1.14 c.37.1.14 PDB: 1ymf_A*
Length = 440
Score = 27.5 bits (61), Expect = 7.4
Identities = 6/16 (37%), Positives = 8/16 (50%)
Query: 34 IIISGPPGVGKTTTIL 49
++ PG GKT L
Sbjct: 11 TVLDFHPGAGKTRRFL 26
>2dt9_A Aspartokinase; protein-ligand complex, regulatory subunit,
transferase; 2.15A {Thermus thermophilus} PDB: 2zho_A
Length = 167
Score = 26.7 bits (60), Expect = 7.5
Identities = 8/48 (16%), Positives = 18/48 (37%), Gaps = 3/48 (6%)
Query: 172 NISHTNDGLEAIVFT-AQGDMRQALNNLQST--HNGFGHVTAEYVFKV 216
+ + + + FT + ++AL L+ G + + KV
Sbjct: 51 GVPGHDPSRQQMAFTVKKDFAQEALEALEPVLAEIGGEAILRPDIAKV 98
>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase,
transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens}
PDB: 1z83_A* 3adk_A
Length = 196
Score = 26.7 bits (60), Expect = 7.6
Identities = 7/17 (41%), Positives = 8/17 (47%)
Query: 30 NVPNIIISGPPGVGKTT 46
I + G PG GK T
Sbjct: 8 KTNIIFVVGGPGSGKGT 24
>4a1f_A DNAB helicase, replicative DNA helicase; hydrolase, DNA
replication, ATPase; HET: FLC; 2.50A {Helicobacter
pylori}
Length = 338
Score = 27.3 bits (61), Expect = 7.7
Identities = 6/20 (30%), Positives = 12/20 (60%)
Query: 34 IIISGPPGVGKTTTILCLAR 53
+II P +GKT+ ++ +
Sbjct: 49 VIIGARPSMGKTSLMMNMVL 68
>1wrb_A DJVLGB; RNA helicase, DEAD BOX, VASA, structural genomics, NPPSFA,
N project on protein structural and functional analyses;
2.40A {Dugesia japonica} SCOP: c.37.1.19
Length = 253
Score = 27.1 bits (61), Expect = 7.8
Identities = 10/27 (37%), Positives = 15/27 (55%), Gaps = 2/27 (7%)
Query: 84 MFAQQKVTLPPGRHKIVILDEADSMTD 110
+ K++L K ++LDEAD M D
Sbjct: 164 FIEKNKISL--EFCKYIVLDEADRMLD 188
>3bgw_A DNAB-like replicative helicase; ATPase, replication; 3.91A
{Bacillus phage SPP1}
Length = 444
Score = 27.1 bits (61), Expect = 7.9
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 34 IIISGPPGVGKTTTILCLAR 53
++I+ P +GKT L A+
Sbjct: 200 VLIAARPSMGKTAFALKQAK 219
>3io3_A DEHA2D07832P; chaperone, membrane traffic, ATPase; HET: ADP;
1.80A {Debaryomyces hansenii}
Length = 348
Score = 27.2 bits (60), Expect = 8.0
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 34 IIISGPPGVGKTTTILCLARIL 55
I + G GVGKTTT +A L
Sbjct: 21 IFVGGKGGVGKTTTSSSVAVQL 42
>3ez2_A Plasmid partition protein A; type IA, DNA binding, winged-HTH, DNA
bindin; HET: ADP EPE; 2.05A {Escherichia coli} PDB:
3ez6_A* 3ez7_A
Length = 398
Score = 27.0 bits (60), Expect = 8.4
Identities = 6/12 (50%), Positives = 8/12 (66%)
Query: 41 GVGKTTTILCLA 52
GV KT + + LA
Sbjct: 119 GVSKTVSTVSLA 130
>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting,
simibi class GTPase, GTP-BIND membrane,
nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A
2xxa_B* 1fts_A
Length = 503
Score = 27.1 bits (60), Expect = 8.5
Identities = 11/13 (84%), Positives = 11/13 (84%)
Query: 41 GVGKTTTILCLAR 53
GVGKTTTI LAR
Sbjct: 303 GVGKTTTIGKLAR 315
>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET:
DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11
PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*
Length = 296
Score = 26.8 bits (60), Expect = 8.6
Identities = 6/20 (30%), Positives = 12/20 (60%)
Query: 34 IIISGPPGVGKTTTILCLAR 53
I+++ G+GK+T + A
Sbjct: 38 IMVTSGSGMGKSTFVRQQAL 57
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 26.8 bits (60), Expect = 8.9
Identities = 15/51 (29%), Positives = 23/51 (45%), Gaps = 13/51 (25%)
Query: 8 TFSDIVGNEDTVERLK-----------VFSSSGNVP--NIIISGPPGVGKT 45
+ DI G E ++ ++ +F G P I++ GPPG GKT
Sbjct: 15 RYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKT 65
>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET:
ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A*
2ouk_A 2q0h_A* 3c4j_A* 3c41_J*
Length = 263
Score = 26.8 bits (60), Expect = 9.2
Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 34 IIISGPPGVGKTTTILCLAR---ILLGPSFKDAVLELNASNDRGIDTVRNKIKMFAQQ 88
+++ GP G GK+T + CL G D + L + D ++ VR ++ M Q+
Sbjct: 53 VVVIGPSGSGKSTFLRCLNLLEDFDEGEIIIDGI-NLK-AKDTNLNKVREEVGMVFQR 108
>1p9r_A General secretion pathway protein E; bacterial type II secretion
system cytoplasmic protein - GSPE, putative ATPase/ ATP
binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11
PDB: 1p9w_A*
Length = 418
Score = 27.1 bits (61), Expect = 9.5
Identities = 10/30 (33%), Positives = 15/30 (50%), Gaps = 2/30 (6%)
Query: 20 ERLKVFSSSGNVPN--IIISGPPGVGKTTT 47
F P+ I+++GP G GK+TT
Sbjct: 154 HNHDNFRRLIKRPHGIILVTGPTGSGKSTT 183
>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 = 26.9 bits (60), Expect = 9.5
Identities = 14/50 (28%), Positives = 22/50 (44%), Gaps = 12/50 (24%)
Query: 8 TFSDIVGNEDTVERLK-----------VFSSSGNVPN-IIISGPPGVGKT 45
+ D+ G E E LK +F + + I++ GPPG GK+
Sbjct: 16 KWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKS 65
>3zq6_A Putative arsenical pump-driving ATPase; tail-anchored, membrane
protein; HET: ADP; 2.11A {Methanothermobacter
thermautotrophicusorganism_taxid}
Length = 324
Score = 26.8 bits (59), Expect = 9.9
Identities = 8/14 (57%), Positives = 9/14 (64%)
Query: 34 IIISGPPGVGKTTT 47
+ I G GVGKTT
Sbjct: 17 VFIGGKGGVGKTTI 30
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
0.318 0.136 0.386
Gapped
Lambda K H
0.267 0.0788 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,754,518
Number of extensions: 288666
Number of successful extensions: 1312
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1238
Number of HSP's successfully gapped: 289
Length of query: 317
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 223
Effective length of database: 4,077,219
Effective search space: 909219837
Effective search space used: 909219837
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 57 (25.6 bits)