RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13475
(468 letters)
>2qpt_A EH domain-containing protein-2; protein-nucleotide complex,
membrane protein, endocytosis; HET: ANP; 3.10A {Mus
musculus}
Length = 550
Score = 331 bits (849), Expect = e-108
Identities = 122/406 (30%), Positives = 188/406 (46%), Gaps = 18/406 (4%)
Query: 45 KEEEELLAKTIETTLKELKRLYDNAIKPLEITYKYRDLSNRHFADPEIFSKPLVLFMGPW 104
+ I T LK LY + PLE Y++ + D + KP+VL G +
Sbjct: 15 GGARGQRPEAIRTVTSSLKELYRTKLLPLEEHYRFGSFHSPALEDADFDGKPMVLVAGQY 74
Query: 105 SGGKSSIINYLLDNEYSQNSLRTGAEPSPAYFNILSWGESPTILDGTQLAAD--WTFSGL 162
S GK+S I YLL+ E R G EP+ F + GE+ + G L D F L
Sbjct: 75 STGKTSFIQYLLEQEVP--GSRVGPEPTTDCFVAVMHGETEGTVPGNALVVDPEKPFRKL 132
Query: 163 QKFGQGLLDRLRGLQLPHPLLEKINIVEIPGILEIRKQ-VERQFPFNDACQWFIDRADII 221
FG L+R QLP+ +LE I+I++ PGIL KQ V R + F +WF +R D+I
Sbjct: 133 NPFGNTFLNRFMCAQLPNQVLESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLI 192
Query: 222 FLVYDPSKLDVGPETEAILDQLKGREYQTRIILNKADQVKPEELMRVQGTLIWNISPLMS 281
L++D KL++ E + L+G E + R++LNKAD V+ ++LMRV G L+W + ++
Sbjct: 193 ILLFDAHKLEISDEFSEAIGALRGHEDKIRVVLNKADMVETQQLMRVYGALMWALGKVVG 252
Query: 282 SSEPPVMYSTSLWSNPYEVGAPIRLLQAQEHAFLRDLRNAIDKRVENKIASARRFAVRVR 341
+ E +Y S WS P V RL + +E RD++ K+ + A VR
Sbjct: 253 TPEVLRVYIGSFWSQPLLVPDNRRLFELEEQDLFRDIQGLPRHAALRKLNDLVKRARLVR 312
Query: 342 NHAKMVDCYLTTYYNHKTFFGNRKKVADDIIEHPQDYHIYAGLSTLTNISRYDLPDPEVY 401
HA ++ T FG K I++ P I+A + +IS D PD +
Sbjct: 313 VHAYIISYLKKE---MPTVFGKENKKKQLILKLPV---IFAKIQLEHHISPGDFPDCQKM 366
Query: 402 RDFFRLNPVFEFKKLSDTCTYFRGCPINRLDVAIAYDLPELVGKYK 447
++ + +F L + LD +A D+ +L+ +
Sbjct: 367 QELLMAHDFTKFHSLKP-------KLLEALDDMLAQDIAKLMPLLR 405
>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 = 76.4 bits (187), Expect = 6e-15
Identities = 78/588 (13%), Positives = 161/588 (27%), Gaps = 221/588 (37%)
Query: 8 KKIAQRLQTQKQEDI---EIPDNLRD---KRHVHGILKLDEE-----------FKEEEEL 50
K I + ++ ++ D + K + I+ + ++EE+
Sbjct: 19 KDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEM 78
Query: 51 LAKTIETTLKE-----LKRLYDNAIKPLEITYKYRDLSNRHFADPEIFSK---------- 95
+ K +E L+ + + +P +T Y + +R + D ++F+K
Sbjct: 79 VQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYL 138
Query: 96 ----------P---LVLF-MGPWSG-GKSSI--------------------IN------- 113
P +++ + G GK+ + +N
Sbjct: 139 KLRQALLELRPAKNVLIDGVL---GSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSP 195
Query: 114 -----------YLLDNEYSQNSLRTGAEPSPAYF------NILSWGESPT---ILDGTQL 153
Y +D ++ S + + +L +L
Sbjct: 196 ETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL---- 251
Query: 154 AAD-WTFSGLQKFG-----------QGLLDRLRGLQLPHPLLEKINIV----EIPGIL-- 195
+ F + + D L H L+ ++ E+ +L
Sbjct: 252 --NVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLK 309
Query: 196 -------EIRKQVERQFPF----------NDACQWFIDRADIIFLVYDPSKLDVGPET-E 237
++ ++V P + W D + + KL E
Sbjct: 310 YLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATW--DN----WKHVNCDKLT---TIIE 360
Query: 238 AILDQLKGREYQTR----IILNKADQVK-PEELMRVQGTLIWNISPLMSSSEPPVM---- 288
+ L+ L+ EY+ + P L+ +LIW + S+ V+
Sbjct: 361 SSLNVLEPAEYRKMFDRLSVFP--PSAHIPTILL----SLIWF---DVIKSDVMVVVNKL 411
Query: 289 YSTSL---WSNPYEVGAPIRLLQAQEHAFLRDLRNAIDKRVENKIASARRFAVRVRNHAK 345
+ SL I + + +L+ ++EN+ A H
Sbjct: 412 HKYSLVEKQPKEST----ISI-----PSIYLELK----VKLENEYAL----------HRS 448
Query: 346 MVDCY-LTTYYNHKTFFGNRKKVADDIIEHPQDYHIYAGLSTLTNISRYDLPD--PEVYR 402
+VD Y + ++ D +H L NI + V+
Sbjct: 449 IVDHYNIPKTFDSDDLI---PPYLDQYFYSHIGHH-------LKNIEHPERMTLFRMVFL 498
Query: 403 DFFRLNPVFEF--KKLSDTCTYFRGCPINRLDVAIAYDLPELVGKYKK 448
D F F +K+ T + L+ L YK
Sbjct: 499 D-------FRFLEQKIRHDSTA-WNASGSILNTLQ--QLK----FYKP 532
Score = 47.2 bits (111), Expect = 1e-05
Identities = 73/467 (15%), Positives = 142/467 (30%), Gaps = 137/467 (29%)
Query: 74 EITYKYRDLSNRHFADPEIFSKPLVLFMGPWSGGKSSIINYLLDNEYSQNSLR---TGAE 130
E Y+Y+D+ F D F D + Q+ + + E
Sbjct: 13 EHQYQYKDIL-SVFEDA--FVDN-------------------FDCKDVQDMPKSILSKEE 50
Query: 131 PSPAYFNILSWGESPTILDGTQLAADWTF-----SGLQKFGQGLLDRLRGLQLPHPLLEK 185
+I+ S + GT WT +QKF + +L L+
Sbjct: 51 ----IDHII---MSKDAVSGTLRLF-WTLLSKQEEMVQKFVEEVLRINYKF-----LMSP 97
Query: 186 INIVEI-PGILEIRKQVERQFPFNDA---CQWFIDRADIIFLVYDP-SKLDVGPETEAIL 240
I + P ++ +R +ND ++ + R + +L P ++
Sbjct: 98 IKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELR--PAKNVLI 155
Query: 241 DQLKG-----------REYQTRIILNKADQV---------KPEELMRVQGTLIWNISPLM 280
D + G Y ++ ++ PE ++ + L++ I P
Sbjct: 156 DGVLGSGKTWVALDVCLSY--KVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDP-N 212
Query: 281 SSSEPPVMYSTSLWSNPYEVGAPIRLLQAQEHA----FLRDLRNAIDKRVENKIASARRF 336
+S + L + + RLL+++ + L +++NA K +A F
Sbjct: 213 WTSRSDHSSNIKLRIHSIQ-AELRRLLKSKPYENCLLVLLNVQNA-------KAWNA--F 262
Query: 337 AVRVRNHAKMVDCYLTTYYNHKTFFGNRKKVADDIIEHPQDYHIYAGLS---TLT----- 388
+ K++ LTT + T F + ++H L+ +
Sbjct: 263 NLS----CKIL---LTTRFKQVTDFLSAATTTHISLDHHSM-----TLTPDEVKSLLLKY 310
Query: 389 -NISRYDLP------DP-------EVYRDFF------------RLNPVFE--FKKLS--D 418
+ DLP +P E RD +L + E L +
Sbjct: 311 LDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAE 370
Query: 419 TCTYFRGCPINRLDVAIAYDLPELVGKYKKSAETLLKAHKEAKEKAV 465
F + I L L+ ++ ++ +K K V
Sbjct: 371 YRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLV 417
>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A
{Nostoc punctiforme} PDB: 2j68_A 2w6d_A*
Length = 695
Score = 58.1 bits (139), Expect = 3e-09
Identities = 43/263 (16%), Positives = 91/263 (34%), Gaps = 40/263 (15%)
Query: 28 LRDKRHVHGILKLDEEF---KEEEELLAKTIETTLKELKRLYDNAIKPLEITYKYRDLSN 84
+ ++ ++ E + E + + T+ + + D++ L + D++
Sbjct: 1 MVNQVATDRFIQDLERVAQVRSEMSVCLNKLAETINKAELAGDSSSGKLSLERDIEDITI 60
Query: 85 --RHFADPEIFSKPLVLFMGPWSGGKSSIINYLLDNEYSQNSLRTGAEPSPAYFNILSWG 142
++ +L +G GKS+ +N L+ L + P A +L +G
Sbjct: 61 ASKNLQQG----VFRLLVLGDMKRGKSTFLNALIGENL----LPSDVNPCTAVLTVLRYG 112
Query: 143 ESPTI------------LDGTQLAADWTFSGL-------QKFGQGLLDRLRGLQLPHPLL 183
+ LD +T +K ++ P LL
Sbjct: 113 PEKKVTIHFNDGKSPQQLDFQNFKYKYTIDPAEAKKLEQEKKQAFPDVDYAVVEYPLTLL 172
Query: 184 EK-INIVEIPGILEIRKQVERQFPFNDACQWFIDRADIIFLVYDPSKLDVGPETEAILDQ 242
+K I IV+ PG+ + + N+ +++ I V S+ E + +
Sbjct: 173 QKGIEIVDSPGLNDTEAR-------NELSLGYVNNCHAILFVMRASQPCTLGERRYLENY 225
Query: 243 LKGREYQTRIILNKADQVKPEEL 265
+KGR ++N DQV+ +
Sbjct: 226 IKGRGLTVFFLVNAWDQVRESLI 248
>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 = 54.3 bits (130), Expect = 7e-08
Identities = 67/421 (15%), Positives = 124/421 (29%), Gaps = 127/421 (30%)
Query: 11 AQRLQTQKQEDIEIP-DNLRDKRHVHGILKLDEEFKEEEELLAKTI--------ETTLKE 61
A +LQ Q + + P + D+E EL+ K + + + +
Sbjct: 30 ASQLQEQFNKILPEPTEGFAA----------DDEPTTPAELVGKFLGYVSSLVEPSKVGQ 79
Query: 62 LKRLYDNAIKPLEITYKYRDLSNR--H-FAD--PEIFSKPLVLFMGPWSGGKSSII-NYL 115
++ + + E Y L H A + LV +I NY+
Sbjct: 80 FDQVLNLCLTEFENCY----LEGNDIHALAAKLLQENDTTLV--------KTKELIKNYI 127
Query: 116 LDNEYSQNSLRTGAEPSPAYFNILSWGESPTILDGTQLAADWTFSGLQKFGQGL----LD 171
++ + + A F + G QL A F G GQG +
Sbjct: 128 TARIMAKRPFDK--KSNSALFRAVGEGN-------AQLVA--IF-G----GQGNTDDYFE 171
Query: 172 RLRGL-QLPHPLLEKINIVEIPGILE----IRKQVERQFPFN-DACQWFIDRA---DIIF 222
LR L Q H L+ + I L E+ F + +W + + D +
Sbjct: 172 ELRDLYQTYHVLVGDL-IKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDY 230
Query: 223 LVYDP-SKLDVGPETEAI-LDQLKGREYQTRIILNKADQVKPEELM-RVQGTLIWN---I 276
L+ P S P I + QL Y ++ K P EL ++G + +
Sbjct: 231 LLSIPIS----CP---LIGVIQLA--HY---VVTAKLLGFTPGELRSYLKGATGHSQGLV 278
Query: 277 SPLMSSSEPPVMYSTSLWSNPYEVGAP-IRLL-----QAQEHAFLRDLR-NAIDKRVENK 329
+ + + + S W + + I +L + E L + ++ +EN
Sbjct: 279 TAVAIAE------TDS-WESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENN 331
Query: 330 IASARR-FAVRVRNHAKMVDCYLTTYYNHKTFFGNRKKVADDIIEH-----PQDYHIYAG 383
++ ++ D + P +
Sbjct: 332 EGVPSPMLSIS----------------------NLTQEQVQDYVNKTNSHLPAGKQVEIS 369
Query: 384 L 384
L
Sbjct: 370 L 370
Score = 49.3 bits (117), Expect = 3e-06
Identities = 72/415 (17%), Positives = 125/415 (30%), Gaps = 141/415 (33%)
Query: 54 TIETTLKELKRLYDNAIKPLEITYKY-------------RDLSNRHFADPEIFSKPLVLF 100
+ +EL+ LY TY +L ++F++ L +
Sbjct: 165 NTDDYFEELRDLYQ--------TYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNIL 216
Query: 101 MGPWSGGKSSI--INYLLDNEYS-------Q-----NSLRT-GAEPSPAYFNILSW--GE 143
W S+ +YLL S Q + + G P + L G
Sbjct: 217 --EWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPG-ELRSYLKGATGH 273
Query: 144 SPTILDGTQLAA--DW-TFSGLQK------FGQGLLDRLRGLQL-PHPLLEKINIVEIPG 193
S ++ +A W +F + F G +R + P+ L P
Sbjct: 274 SQGLVTAVAIAETDSWESFFVSVRKAITVLFFIG----VRCYEAYPNTSLP-------PS 322
Query: 194 ILEIRKQVERQFPFNDACQWFIDRADIIFLVYDPSKLDVGPETEAILDQLKGR---EYQT 250
ILE + P + + + ++ V + +++ Q
Sbjct: 323 ILEDSLENNEGVP---SPM---------LSISNLTQEQV----QDYVNKTNSHLPAGKQV 366
Query: 251 RIIL-NKADQV----KPEELMRVQGTL----------IWNISPLMSSSEPPVMYSTSLWS 295
I L N A + P+ L + TL I P S + L
Sbjct: 367 EISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRI-PF--SERKLKFSNRFL-- 421
Query: 296 NPYEVGAPI--RLLQAQEHAFLRDLRNAIDKRVENKIA-SARRFAVRVRNHAKMVDCYLT 352
P V +P LL +DL V+N ++ +A+ + V Y T
Sbjct: 422 -P--VASPFHSHLLVPASDLINKDL-------VKNNVSFNAKDIQIPV---------YDT 462
Query: 353 -TYYNHKTFFGN-RKKVADDIIEHPQDY---------HI-------YAGLSTLTN 389
+ + G+ +++ D II P + HI +GL LT+
Sbjct: 463 FDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTH 517
>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer,
immunology, signaling protein; HET: GDP; 1.95A {Mus
musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A*
1tq2_A*
Length = 413
Score = 43.9 bits (103), Expect = 8e-05
Identities = 37/259 (14%), Positives = 64/259 (24%), Gaps = 63/259 (24%)
Query: 94 SKPLVLFMGPWSGGKSSIINYLLDNEYSQNSLRTGAEPSPAYFNILSWGESPTILDGTQL 153
S V G GKSS IN L + GA + G ++
Sbjct: 68 SVLNVAVTGETGSGKSSFINTLRG----IGNEEEGAAKT---------GVVEVTMERHPY 114
Query: 154 AADWTFSGLQKFGQGLLDRLRGLQLPHPLLEKINIVEIPGILEIRKQVERQFPFNDACQW 213
HP + + ++PGI + +
Sbjct: 115 -------------------------KHPNIPNVVFWDLPGIGSTNFPPDTYL-----EKM 144
Query: 214 FIDRADIIFLVYDPSKLDVGPETEAILDQLKGREYQTRIILNKADQVKPEELMRVQGTL- 272
D ++ I + + + + K D E T
Sbjct: 145 KFYEYDFFIIISAT---RFKKNDIDIAKAISMMKKEFYFVRTKVDSDITNEADGEPQTFD 201
Query: 273 -----------IWNISPLMSSSEPPVMYSTSLWSNPYEVGAPIRLL-----QAQEHAFLR 316
N +EPP+ ++ Y+ + L + H F+
Sbjct: 202 KEKVLQDIRLNCVNTFRENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPIYKRHNFMV 261
Query: 317 DLRNAIDKRVENKIASARR 335
L N D +E K ++
Sbjct: 262 SLPNITDSVIEKKRQFLKQ 280
>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote
initiative, RSGI, structural genomics, hydrolase; HET:
GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8
d.52.3.1
Length = 301
Score = 40.1 bits (95), Expect = 0.001
Identities = 14/49 (28%), Positives = 19/49 (38%), Gaps = 3/49 (6%)
Query: 218 ADIIFLVYDPSKLDVGPETEAILDQLKGREYQTRIIL--NKADQVKPEE 264
+ + V D PE E + LK + I+L NK D K E
Sbjct: 87 VNAVVWVVDLRH-PPTPEDELVARALKPLVGKVPILLVGNKLDAAKYPE 134
>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding,
HYDR magnesium, metal-binding, nucleotide-binding,
potassium, TR processing; HET: GDP FON; 3.20A {Nostoc
SP}
Length = 462
Score = 38.6 bits (91), Expect = 0.004
Identities = 12/55 (21%), Positives = 27/55 (49%), Gaps = 3/55 (5%)
Query: 215 IDRADIIFLVYDPSKLDVGPETEAILDQLKGREYQTRIILNKADQVKPEELMRVQ 269
+ AD++ L D + + I +Q+K R +++NK D V+ + + ++
Sbjct: 301 ANTADLVLLTIDAAT-GWTTGDQEIYEQVKHR--PLILVMNKIDLVEKQLITSLE 352
>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding,
hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1
c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*
Length = 482
Score = 37.9 bits (89), Expect = 0.005
Identities = 17/68 (25%), Positives = 34/68 (50%), Gaps = 3/68 (4%)
Query: 215 IDRADIIFLVYDPSKLDVGPETEAILDQLKGREYQTRIILNKADQVKPEELMRVQGTLIW 274
I++ADI+ V D S + E IL+++K + + +++NK D V+ ++ L
Sbjct: 321 IEKADIVLFVLDASS-PLDEEDRKILERIKNK--RYLVVINKVDVVEKINEEEIKNKLGT 377
Query: 275 NISPLMSS 282
+ + S
Sbjct: 378 DRHMVKIS 385
>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like,
hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8
d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X
Length = 301
Score = 37.8 bits (89), Expect = 0.005
Identities = 9/47 (19%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 218 ADIIFLVYDPSKLDVGPETEAILDQLKGREYQTRIILNKADQVKPEE 264
+++ V + ++ P+ E +L++L+ + + +NK D V+ +
Sbjct: 89 VELVIFVVEGTRW--TPDDEMVLNKLREGKAPVILAVNKVDNVQEKA 133
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 36.3 bits (83), Expect = 0.010
Identities = 14/67 (20%), Positives = 24/67 (35%), Gaps = 4/67 (5%)
Query: 2 KIREERKKIAQRLQTQKQEDIEIPDNLRDKRHVHGILKLDEEFKEEEELLAKTIETTLKE 61
IR+ R++ +RLQ + R+K L+E + + E + K
Sbjct: 86 SIRKWREEQRKRLQELDAASKVMEQEWREKAKKD----LEEWNQRQSEQVEKNKINNRIA 141
Query: 62 LKRLYDN 68
K Y
Sbjct: 142 DKAFYQQ 148
Score = 34.7 bits (79), Expect = 0.036
Identities = 20/92 (21%), Positives = 35/92 (38%), Gaps = 24/92 (26%)
Query: 10 IAQRLQTQKQEDIEIPDNLR------DKRHVHGILKLDEEFKEEEELLAKTIETTLKELK 63
IAQ + QE P+++R KR + +LD K E+ + E K+L+
Sbjct: 74 IAQADRLT-QE----PESIRKWREEQRKR----LQELDAASKVMEQ---EWREKAKKDLE 121
Query: 64 RLYDNAIKPLEITYKYRDLSNRHFADPEIFSK 95
+ +E +NR + F +
Sbjct: 122 EWNQRQSEQVEKNKI----NNR--IADKAFYQ 147
Score = 30.9 bits (69), Expect = 0.52
Identities = 8/66 (12%), Positives = 25/66 (37%), Gaps = 8/66 (12%)
Query: 2 KIREERKK-IAQR---LQTQKQEDIEIPDNLRDKRHVHGILKLDEEFKE----EEELLAK 53
K REE++K + + + +QE E ++ + ++++ ++ +
Sbjct: 89 KWREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQ 148
Query: 54 TIETTL 59
+
Sbjct: 149 PDADII 154
Score = 29.7 bits (66), Expect = 1.3
Identities = 19/86 (22%), Positives = 29/86 (33%), Gaps = 18/86 (20%)
Query: 300 VGAPIRLLQAQEHAFLRDLRNAIDKRVENKIASARRFAVRVRNHAKMVDCYLTTYYNH-- 357
+ RL Q E +R R KR++ A+++ R AK L +
Sbjct: 74 IAQADRLTQEPES--IRKWREEQRKRLQELDAASKVMEQEWREKAKK---DLEEWNQRQS 128
Query: 358 ----KTFFGNR-------KKVADDII 372
K NR ++ DII
Sbjct: 129 EQVEKNKINNRIADKAFYQQPDADII 154
>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 = 35.7 bits (81), Expect = 0.012
Identities = 12/33 (36%), Positives = 18/33 (54%), Gaps = 11/33 (33%)
Query: 46 EEEELLAKTIETTLKELKRLY--DNAIKP-LEI 75
E++ L K ++ +LK LY D+A P L I
Sbjct: 18 EKQAL--KKLQASLK----LYADDSA--PALAI 42
Score = 26.8 bits (58), Expect = 9.6
Identities = 9/45 (20%), Positives = 18/45 (40%), Gaps = 19/45 (42%)
Query: 68 NAIKPLEITYKYRDLSNRHFADPEIFSKP-LVLFMGPWSGGKSSI 111
A+K L+ + K +A + S P L + K+++
Sbjct: 20 QALKKLQASLKL-------YA-DD--SAPALAI--------KATM 46
>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation,
GTP-binding domain, maturation enzyme, oxidoreductase;
2.99A {Thermotoga neapolitana}
Length = 423
Score = 36.9 bits (86), Expect = 0.013
Identities = 12/50 (24%), Positives = 22/50 (44%), Gaps = 3/50 (6%)
Query: 215 IDRADIIFLVYDPSKLDVGPETEAILDQLKGREYQTRIILNKADQVKPEE 264
RAD LV D + P + +++ K E +++NK D + +
Sbjct: 111 FYRADCGILVTDSAP---TPYEDDVVNLFKEMEIPFVVVVNKIDVLGEKA 157
>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer,
alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A
{Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A*
2gja_A* 1rfl_A
Length = 172
Score = 35.6 bits (83), Expect = 0.015
Identities = 12/56 (21%), Positives = 21/56 (37%), Gaps = 4/56 (7%)
Query: 215 IDRADIIFLVYDPSKLDVGPETEAILDQLKGREYQTR---IILNKADQVKPEELMR 267
I++AD + + D + D + I + R ++ NKAD M
Sbjct: 81 IEQADRVLFMVDGTTTD-AVDPAEIWPEFIARLPAKLPITVVRNKADITGETLGMS 135
>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding,
hydrolase, nucleotide-binding; HET: GDP; 2.25A
{Salmonella typhimurium} PDB: 2ykr_W 4a2i_V
Length = 358
Score = 35.3 bits (82), Expect = 0.034
Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 5/33 (15%)
Query: 98 VLFMGPWSG-GKSSIINYLLDNEYSQNSLRTGA 129
+F G SG GKSS++N LL + N + T
Sbjct: 218 SIFAGQ-SGVGKSSLLNALLGLQ---NEILTND 246
>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP-
binding, hydrolase, magnesium, metal-binding,
nucleotide- binding, potassium; HET: GDP FON; 2.95A
{Chlorobium tepidum} PDB: 3gei_A*
Length = 476
Score = 34.8 bits (81), Expect = 0.054
Identities = 10/70 (14%), Positives = 23/70 (32%), Gaps = 3/70 (4%)
Query: 215 IDRADIIFLVYDPSKLDVGPETEAILDQLKGREYQTR--IILNKADQVKPEELMRVQGTL 272
+ AD+I + D + + + +LK + + NK D+ + +
Sbjct: 310 MAEADLILYLLDLGT-ERLDDELTEIRELKAAHPAAKFLTVANKLDRAANADALIRAIAD 368
Query: 273 IWNISPLMSS 282
+ S
Sbjct: 369 GTGTEVIGIS 378
>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}
Length = 302
Score = 33.3 bits (77), Expect = 0.15
Identities = 14/40 (35%), Positives = 19/40 (47%), Gaps = 7/40 (17%)
Query: 91 EIFSKPLVLFMGPWSG-GKSSIINYLLDNEYSQNSLRTGA 129
+ + + GP SG GKSSI++ L E LRT
Sbjct: 161 DYLEGFICILAGP-SGVGKSSILSRLTGEE-----LRTQE 194
>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural
genomics, BSGC structure funded by NIH, protein
structure initiative, PSI; HET: GDP; 2.80A {Thermotoga
maritima} SCOP: b.40.4.5 c.37.1.8
Length = 301
Score = 33.3 bits (77), Expect = 0.15
Identities = 16/89 (17%), Positives = 29/89 (32%), Gaps = 25/89 (28%)
Query: 50 LLAKTIETTLKELKRLYDNAIKPLEITYKYRD--------LSNRHFADPEIFSKPLVLFM 101
L + ++EL+ +Y ++ + K L + +
Sbjct: 127 LYDEDDLRKVRELEEIYSGLYPIVKTSAKTGMGIEELKEYLKGK-----------ISTMA 175
Query: 102 GPWSG-GKSSIINYLLDNEYSQNSLRTGA 129
G SG GKSS++N + LR
Sbjct: 176 GL-SGVGKSSLLNAINPGL----KLRVSE 199
>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA,
national P protein structural and functional analyses;
HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8
Length = 190
Score = 32.7 bits (75), Expect = 0.16
Identities = 14/79 (17%), Positives = 25/79 (31%), Gaps = 16/79 (20%)
Query: 196 EIRKQVERQFPFNDACQWFIDRADIIFLVYD----------PSKLDVGPETEAILDQLKG 245
I+ ++ N D+ LV D K P L+
Sbjct: 67 RIKDEIVHFIEDN------AKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRE 120
Query: 246 REYQTRIILNKADQVKPEE 264
+ T + +NK D++K +
Sbjct: 121 LDIPTIVAVNKLDKIKNVQ 139
>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with
oligonucleotide binding fold, central GTP binding
domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5
c.37.1.8
Length = 307
Score = 32.5 bits (75), Expect = 0.24
Identities = 12/32 (37%), Positives = 16/32 (50%), Gaps = 6/32 (18%)
Query: 99 LFMGPWSG-GKSSIINYLLDNEYSQNSLRTGA 129
+F G SG GKSS++N + LRT
Sbjct: 177 VFAGQ-SGVGKSSLLNAISPEL----GLRTNE 203
>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA,
30S ribosome ASSE GTP-binding, nucleotide-binding; HET:
GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*
Length = 308
Score = 32.1 bits (74), Expect = 0.36
Identities = 12/51 (23%), Positives = 23/51 (45%), Gaps = 4/51 (7%)
Query: 218 ADIIFLVYDPSKLDVGPETEAILDQLKGREYQTRIIL--NKADQVKPEELM 266
AD+I + D ++ P E I + +I+ NK D++ P + +
Sbjct: 93 ADVILFMIDATE-GWRPRDEEIYQNFI-KPLNKPVIVVINKIDKIGPAKNV 141
>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels,
nucleotide-binding, nucleotide binding protein; 2.00A
{Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A
3kxk_A
Length = 364
Score = 30.7 bits (70), Expect = 0.99
Identities = 18/115 (15%), Positives = 36/115 (31%), Gaps = 24/115 (20%)
Query: 218 ADIIFLVYDPSKLDVGPE-----TEAILDQLKGREYQTRIILNKADQVKPEELMRVQGTL 272
+D + LV D + + + IL ++ + LNK D++ + ++ +
Sbjct: 258 SDALILVIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDKINGDLYKKLD-LV 316
Query: 273 IWNISPLMSSSEPPVMYSTSLWSNPYEVGAPIRLLQAQEHAFLRDLRNAIDKRVE 327
L S + S A + L LR+ I +
Sbjct: 317 EKLSKELYSPIFDVIPIS------------------ALKRTNLELLRDKIYQLAT 353
>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR,
protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 331
Score = 30.4 bits (68), Expect = 1.4
Identities = 11/33 (33%), Positives = 16/33 (48%)
Query: 97 LVLFMGPWSGGKSSIINYLLDNEYSQNSLRTGA 129
+VL MG GKSSI + N ++L +
Sbjct: 1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLES 33
>3llu_A RAS-related GTP-binding protein C; structural genomics consortium,
SGC, cytoplasm, nucleotide-binding, nucleus,
phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB:
2q3f_A*
Length = 196
Score = 29.6 bits (66), Expect = 1.4
Identities = 12/36 (33%), Positives = 16/36 (44%)
Query: 94 SKPLVLFMGPWSGGKSSIINYLLDNEYSQNSLRTGA 129
SKP +L MG GKSSI + +L +
Sbjct: 19 SKPRILLMGLRRSGKSSIQKVVFHKMSPNETLFLES 54
>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR,
protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 307
Score = 30.0 bits (67), Expect = 1.5
Identities = 11/35 (31%), Positives = 18/35 (51%)
Query: 95 KPLVLFMGPWSGGKSSIINYLLDNEYSQNSLRTGA 129
+L MG GKSS+ + + N + ++ R GA
Sbjct: 3 GSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGA 37
>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP;
1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A*
1svw_A*
Length = 195
Score = 29.1 bits (66), Expect = 2.0
Identities = 17/74 (22%), Positives = 29/74 (39%), Gaps = 15/74 (20%)
Query: 221 IFLVYD----PSKLDVGPETEAILDQLKGREYQTRIILNKADQVKPEELMR----VQGTL 272
+ + D PS DV + + LK +I KAD++ + + V+ TL
Sbjct: 109 VVQIVDLRHAPSNDDV-----QMYEFLKYYGIPVIVIATKADKIPKGKWDKHAKVVRQTL 163
Query: 273 --IWNISPLMSSSE 284
++ SSE
Sbjct: 164 NIDPEDELILFSSE 177
>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell
cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima}
PDB: 3pr1_A
Length = 195
Score = 29.1 bits (66), Expect = 2.5
Identities = 15/74 (20%), Positives = 29/74 (39%), Gaps = 15/74 (20%)
Query: 221 IFLVYD----PSKLDVGPETEAILDQLKGREYQTRIILNKADQVKPEELMR----VQGTL 272
+FL+ D P D+ +++ +K I+L K D+VK E + +
Sbjct: 108 VFLLVDGRIPPQDSDL-----MMVEWMKSLNIPFTIVLTKMDKVKMSERAKKLEEHRKVF 162
Query: 273 --IWNISPLMSSSE 284
+ + +SS
Sbjct: 163 SKYGEYTIIPTSSV 176
>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP,
complex, structural G NPPSFA; HET: GDP; 2.35A
{Pyrococcus horikoshii}
Length = 357
Score = 29.0 bits (65), Expect = 3.0
Identities = 20/89 (22%), Positives = 41/89 (46%), Gaps = 5/89 (5%)
Query: 188 IVEIPGILEIRKQVERQFPFNDACQWFIDRADIIFLVYDPSKLDVGP--ETEAILDQLKG 245
I++ PG+L+ R ER A ++I ++DPS+ P E + +++ G
Sbjct: 218 IIDTPGLLD-RPISERNEIEKQAILALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHG 276
Query: 246 R--EYQTRIILNKADQVKPEELMRVQGTL 272
+ +++NK D E + R++ +
Sbjct: 277 EFKDLPFLVVINKIDVADEENIKRLEKFV 305
>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria,
structural genomics, structural genomics consortium,
SGC, unknown function; HET: GDP; 2.01A {Plasmodium
falciparum}
Length = 228
Score = 28.2 bits (63), Expect = 5.5
Identities = 24/124 (19%), Positives = 41/124 (33%), Gaps = 29/124 (23%)
Query: 184 EKINIVEIPGILEIRKQVERQFPFNDACQWFIDRADIIFL---------VYDPSKLDVGP 234
K I++ PG+L+ R R N I+ I L + D S+ G
Sbjct: 76 NKYQIIDTPGLLD-RAFENR----NT-----IEMTTITALAHINGVILFIIDISEQC-GL 124
Query: 235 ETEAILDQLKGREYQTR-------IILNKADQVKPEELMRVQGTLIWNISPLMSSSEPPV 287
+ ++ ++ I NK D+ + L LI I + +
Sbjct: 125 TIKEQINLFY--SIKSVFSNKSIVIGFNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKFS 182
Query: 288 MYST 291
+ST
Sbjct: 183 SFST 186
>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural
genomics, PSI-2, prote structure initiative; HET: ATP;
2.20A {Chlorobium tepidum}
Length = 245
Score = 28.0 bits (63), Expect = 5.6
Identities = 19/100 (19%), Positives = 34/100 (34%), Gaps = 26/100 (26%)
Query: 178 LPHPL-LEKINIVEIPGILEIRKQVERQFPF---------NDACQWFIDRADIIFLVYDP 227
+P P EKI +E + ++ + + + W ++ D + +V
Sbjct: 91 IPSPATFEKIVNIEPERVSDLIHIAASFYDYIIVDFGASIDHVGVWVLEHLDELCIV--- 147
Query: 228 SKLDVGPE------TEAILDQLKGREY---QTRIILNKAD 258
P +L K E + IILN+AD
Sbjct: 148 ----TTPSLQSLRRAGQLLKLCKEFEKPISRIEIILNRAD 183
>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP;
1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A*
2j3e_A*
Length = 262
Score = 28.3 bits (63), Expect = 5.9
Identities = 22/89 (24%), Positives = 33/89 (37%), Gaps = 12/89 (13%)
Query: 185 KINIVEIPGILEIRKQVERQFPFNDACQWFIDRADIIFLVYDPSKLDVGPETE------A 238
INI++ PG++E V Q D++ V LDV E
Sbjct: 85 TINIIDTPGLVE-AGYVNHQALELIKGFLVNRTIDVLLYVDR---LDVYAVDELDKQVVI 140
Query: 239 ILDQLKGREYQTRII--LNKADQVKPEEL 265
+ Q G+E + + L A P+EL
Sbjct: 141 AITQTFGKEIWCKTLLVLTHAQFSPPDEL 169
>1q1a_A HST2 protein; ternary complex, histone deacetylase, 2'-O-ADP
ribose,, gene regulation; HET: ALY OAD; 1.50A
{Saccharomyces cerevisiae} SCOP: c.31.1.5 PDB: 1szd_A*
1szc_A* 2od7_A* 2od9_A* 2qqf_A* 2qqg_A* 1q17_A* 2od2_A*
Length = 289
Score = 28.2 bits (63), Expect = 6.3
Identities = 11/32 (34%), Positives = 16/32 (50%), Gaps = 4/32 (12%)
Query: 388 TNISRYDLPDPEVY--RDFFRLNP--VFEFKK 415
N++R LP PE DFF+ +P + K
Sbjct: 49 HNLARLKLPYPEAVFDVDFFQSDPLPFYTLAK 80
>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP,
signaling protein; HET: GNP; 2.00A {Thermotoga maritima}
PDB: 3cnn_A* 3cno_A*
Length = 262
Score = 28.0 bits (63), Expect = 7.0
Identities = 10/25 (40%), Positives = 14/25 (56%), Gaps = 4/25 (16%)
Query: 107 GKSSIINYLLDNEYSQNSLRTGAEP 131
GKS+IIN L + + GA+P
Sbjct: 111 GKSTIINKLK----GKRASSVGAQP 131
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 701
Score = 28.0 bits (62), Expect = 7.3
Identities = 20/146 (13%), Positives = 37/146 (25%), Gaps = 9/146 (6%)
Query: 5 EERKKIAQRLQTQKQEDIEIPDNLRDKRHVHGILKLDEEFKE------EEELLAKTIETT 58
E+ + L K+ + P H + E ++ EE + I
Sbjct: 35 EKAWIETKDLIKAKKINESYPRIKPVFGKTHPVNDTIENLRQAYLRMGFEEYINPVIVDE 94
Query: 59 LKELKRLYDNAIKPLEITYKYRDLSNRHFADPEIFSKPLVLFMGPWSGGKSSIINYLLDN 118
K+ A+ L+ + L + + S K S+ L
Sbjct: 95 RDIYKQFGPEAMAVLDRCFYLAGLPRPDVGLSDEKISQIEKLGIKVSEHKESLQKILHGY 154
Query: 119 EYSQNSLRTGAEPSPAYFNILSWGES 144
+ G + N L
Sbjct: 155 KK---GTLDGDDLVLEISNALEISSE 177
>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics,
nysgxrc T16, GTPase, PSI, protein structure initiative;
2.00A {Escherichia coli} SCOP: c.37.1.8
Length = 210
Score = 27.6 bits (62), Expect = 8.2
Identities = 11/75 (14%), Positives = 26/75 (34%), Gaps = 16/75 (21%)
Query: 221 IFLVYD----PSKLDVGPETEAILDQLKGREYQTRIILNKADQVKPEE----LMRVQGTL 272
+ ++ D LD +++ ++L KAD++ L V+ +
Sbjct: 112 LVVLMDIRHPLKDLDQ-----QMIEWAVDSNIAVLVLLTKADKLASGARKAQLNMVREAV 166
Query: 273 I---WNISPLMSSSE 284
+ ++ SS
Sbjct: 167 LAFNGDVQVETFSSL 181
>1q14_A HST2 protein; histone deacetylase, hydrolase; 2.50A {Saccharomyces
cerevisiae} SCOP: c.31.1.5
Length = 361
Score = 27.7 bits (61), Expect = 8.5
Identities = 11/32 (34%), Positives = 16/32 (50%), Gaps = 4/32 (12%)
Query: 388 TNISRYDLPDPEVY--RDFFRLNP--VFEFKK 415
N++R LP PE DFF+ +P + K
Sbjct: 57 HNLARLKLPYPEAVFDVDFFQSDPLPFYTLAK 88
>1s2d_A Purine trans deoxyribosylase; ribosylate intermediate, PTD, ARAA,
transferase; HET: AR4 ADE; 2.10A {Lactobacillus
helveticus} SCOP: c.23.14.1 PDB: 1s2g_A* 1s2i_A* 1s2l_A
1s3f_A*
Length = 167
Score = 27.3 bits (60), Expect = 8.6
Identities = 7/19 (36%), Positives = 9/19 (47%)
Query: 215 IDRADIIFLVYDPSKLDVG 233
I A +YD +LD G
Sbjct: 79 ISNATCGVFLYDMDQLDDG 97
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
0.319 0.137 0.406
Gapped
Lambda K H
0.267 0.0729 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,468,417
Number of extensions: 466635
Number of successful extensions: 1319
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1282
Number of HSP's successfully gapped: 67
Length of query: 468
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 371
Effective length of database: 3,993,456
Effective search space: 1481572176
Effective search space used: 1481572176
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: 59 (26.5 bits)