RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1366
(345 letters)
>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA
replication, MCM complex, AAA+ Pro ATP-binding,
DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}
Length = 595
Score = 328 bits (842), Expect = e-108
Identities = 124/329 (37%), Positives = 189/329 (57%), Gaps = 19/329 (5%)
Query: 14 NNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCK--QCFYVKADFEQFYSIANPLSCG 71
+ DIG L+ I G +V++T K ++ Y Q F D E + P C
Sbjct: 107 RSTDIGKLITIDGILVKVTPVKERIYKATYKHIHPDCMQEFEWPEDEEMPEVLEMPTIC- 165
Query: 72 SPSSCDGTNFSPVTSVDQDNYKDYQEIKIQERAAGV--GSVPKSIWVTLEDDLVDLARPG 129
P F + ++ D+Q+ IQER V G +P+ + + LEDDLVD ARPG
Sbjct: 166 -PKCGKPGQFRLIP--EKTKLIDWQKAVIQERPEEVPSGQLPRQLEIILEDDLVDSARPG 222
Query: 130 DDVIVCGAVLR--RWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITPELRAEVTQFWE 187
D V V G +L + PV +G R+ ++ + + + V ++I+ E ++ +
Sbjct: 223 DRVKVTG-ILDIKQDSPVKRGSRAVFDIYMKVSSIEVSQKVLDEVIISEEDEKKIKDLAK 281
Query: 188 DHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGD 247
D R+ I++SI P+IYG + +K LA+ L GGV + ED ++R + H+L++GD
Sbjct: 282 DPW-----IRDRIISSIAPSIYGHWELKEALALALFGGVPKVLEDT-RIRGDIHILIIGD 335
Query: 248 PGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALR--ENGEWHLEAGALVLSDGGVC 305
PGT KS++L+F R++PR+V TTG G+T AGLT + +R GE++LEAGALVL+DGG+
Sbjct: 336 PGTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAVVREKGTGEYYLEAGALVLADGGIA 395
Query: 306 CIDEFSSIKEHDRTSIHEAMEQQTISVAK 334
IDE +++ DR +IHEAMEQQT+S+AK
Sbjct: 396 VIDEIDKMRDEDRVAIHEAMEQQTVSIAK 424
>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family;
helicase, MCM homolog, DNA replication, ATP-binding,
DNA-binding; 1.90A {Methanopyrus kandleri AV19}
Length = 506
Score = 255 bits (654), Expect = 1e-81
Identities = 64/324 (19%), Positives = 101/324 (31%), Gaps = 43/324 (13%)
Query: 23 QISGTVVRIT-----VAKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLSCGS-PSSC 76
++ R+T V + E + V+ + P
Sbjct: 41 SFQRSLARVTSGKPVVLDLRELDSDLASWIATHARLVEPALRELVRTVAPDVEPRVRFRG 100
Query: 77 DGTNFSPVTSVDQDNYKDYQEIKIQERAAGV--GSVPKSIWVTLEDDLVDLARPGDDVIV 134
F V++ D I I+ V + V +LV + G
Sbjct: 101 LPHRF---RRVERIRPMDGALISIEGVVREVRGAERLEHAIVDTGSELVAVRLHGH---- 153
Query: 135 CGAVLRRWRPVVKGVRSDIELCLSANYLTVCN----DQSSSLVITPELRAEVTQFWEDHK 190
R P G+R +I + + L D + P E + +
Sbjct: 154 ------RLGP---GLRVEILGIVRSATLDALEVHKKDPIPEVHPDPAELEEFRELADKDP 204
Query: 191 YDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGT 250
A +I P + G V LA+ L V K H+LL G P
Sbjct: 205 LTTFAR------AIAP-LPGAEEVGKMLALQLFSCV-------GKNSERLHVLLAGYPVV 250
Query: 251 GKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDGGVCCIDEF 310
+ ++PR V T LT + W L AGA VL+DGG+ +D
Sbjct: 251 CSEILHHVLDHLAPRGVYVDLRRTELTDLTAVLKEDR-GWALRAGAAVLADGGILAVDHL 309
Query: 311 SSIKEHDRTSIHEAMEQQTISVAK 334
E R ++ EAM++ T++V
Sbjct: 310 EGAPEPHRWALMEAMDKGTVTVDG 333
>2vl6_A SSO MCM N-TER, minichromosome maintenance protein MCM; helicase,
hydrolase, zinc-finger, ATP-binding, DNA-BIND ssDNA
binding; 2.8A {Sulfolobus solfataricus}
Length = 268
Score = 102 bits (255), Expect = 2e-25
Identities = 47/159 (29%), Positives = 77/159 (48%), Gaps = 11/159 (6%)
Query: 14 NNEDIGSLLQISGTVVRITV--AKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLSCG 71
+ DIG L+ I G +V++T ++ + +++ C Q F D E + P C
Sbjct: 113 RSTDIGKLITIDGILVKVTPVKERIYKATYKHIHPDCMQEFEWPEDEEMPEVLEMPTIC- 171
Query: 72 SPSSCDGTNFSPVTSVDQDNYKDYQEIKIQERAAGV--GSVPKSIWVTLEDDLVDLARPG 129
P F + ++ D+Q+ IQER V G +P+ + + LEDDLVD ARPG
Sbjct: 172 -PKCGKPGQFRLIP--EKTKLIDWQKAVIQERPEEVPSGQLPRQLEIILEDDLVDSARPG 228
Query: 130 DDVIVCGAVLR--RWRPVVKGVRSDIELCLSANYLTVCN 166
D V V G +L + PV +G R+ ++ + + + V
Sbjct: 229 DRVKVTG-ILDIKQDSPVKRGSRAVFDIYMKVSSIEVSQ 266
>1ltl_A DNA replication initiator (CDC21/CDC54); HET: DNA; 3.00A
{Methanothermobacterthermautotrophicus} SCOP: b.40.4.11
Length = 279
Score = 102 bits (255), Expect = 3e-25
Identities = 45/178 (25%), Positives = 67/178 (37%), Gaps = 22/178 (12%)
Query: 14 NNEDIGSLLQISGTVVRITV----AKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLS 69
++ IG + + G V + F C+ C A + I P
Sbjct: 106 RSKFIGKFVAVDGIVRKTDEIRPRIVKAVFE-------CRGCMRHHAVTQSTNMITEPSL 158
Query: 70 CGSPSSCDGTNFSPVTSVDQDNYKDYQEIKIQERAAGV--GSVPKSIWVTLEDDLVDLAR 127
C S C G +F D+ + D Q +K+QE + G P+ I V LEDDLVD
Sbjct: 159 C---SECGGRSF--RLLQDESEFLDTQTLKLQEPLENLSGGEQPRQITVVLEDDLVDTLT 213
Query: 128 PGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVITPELRAEVTQF 185
PGD V V G + R V + + NY + L I+ E ++ +
Sbjct: 214 PGDIVRVTGTL----RTVRDERTKRFKNFIYGNYTEFLEQEFEELQISEEDEEKIKEL 267
>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 = 41.3 bits (97), Expect = 3e-04
Identities = 26/135 (19%), Positives = 43/135 (31%), Gaps = 37/135 (27%)
Query: 241 HLLLVGDPGTGKS---------------------------------EILKFAKRMSPRSV 267
+L+ GD GTGKS +L P V
Sbjct: 47 GVLVFGDRGTGKSTAVRALAALLPEIEAVEGCPVSSPNVEMIPDWATVLSTNVIRKPTPV 106
Query: 268 LTTGVGTTTA----GLTVSALRENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHE 323
+ +G + L + GE E G L ++ G IDE + +++H + +
Sbjct: 107 VDLPLGVSEDRVVGALDIERAISKGEKAFEPGLLARANRGYLYIDECNLLEDHIVDLLLD 166
Query: 324 AMEQQTISVAKDKES 338
+ V +D S
Sbjct: 167 VAQSGENVVERDGLS 181
>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 = 41.0 bits (95), Expect = 6e-04
Identities = 39/279 (13%), Positives = 88/279 (31%), Gaps = 62/279 (22%)
Query: 84 VTSVDQDNY-KDYQEIKIQERAAGVGSVPKSIWVTLE-DDLVDLARPGDDVIVCGAVLRR 141
+ SV +D + ++ +Q+ +PKSI E D ++ + L
Sbjct: 21 ILSVFEDAFVDNFDCKDVQD-------MPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLS 73
Query: 142 WRPVVKGVRSDIELCLSANY-------LTVCNDQSSSLVITPELRAEVTQFWEDH----K 190
+ + V+ +E L NY T S ++T + + + D+ K
Sbjct: 74 KQE--EMVQKFVEEVLRINYKFLMSPIKTEQRQPS---MMTRMYIEQRDRLYNDNQVFAK 128
Query: 191 YDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGT 250
Y+ +R + + L ++R ++L+ G G+
Sbjct: 129 YN--VSRLQPYLKL----------RQAL---------------LELRPAKNVLIDGVLGS 161
Query: 251 GKS----EILKFAK--RMSPRSV--LTTGVGTTTAGLTVSALRENGEWHLEAGALVLSDG 302
GK+ ++ K + L + + + + + ++ SD
Sbjct: 162 GKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVL--EMLQKLLYQIDPNWTSRSDH 219
Query: 303 GVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKESKKV 341
SI+ R + + + V + ++ K
Sbjct: 220 SSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKA 258
Score = 37.1 bits (85), Expect = 0.008
Identities = 51/338 (15%), Positives = 99/338 (29%), Gaps = 92/338 (27%)
Query: 8 HRTQFPNNE------DIGSLLQISGTVVRITVAKMLEFRREYVCTK-CKQCFYVKADFEQ 60
H F E DI S+ + V + + + + + K
Sbjct: 5 HHMDFETGEHQYQYKDILSVFE-DAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSG 63
Query: 61 FYSIANPLSCGSPSSCDGTNFSPVTSVDQDNYK----DYQEIKIQ------------ERA 104
+ L F V V + NYK + + Q +R
Sbjct: 64 TLRLFWTL-LSKQEEM-VQKF--VEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRL 119
Query: 105 AGVGSV--------PKSIWVTLEDDLVDLARPGDDVIVCG-----------AVLRRWRPV 145
V + L L++L RP +V++ G V ++
Sbjct: 120 YNDNQVFAKYNVSRLQPYL-KLRQALLEL-RPAKNVLIDGVLGSGKTWVALDVCLSYKVQ 177
Query: 146 VK---GV-----------RSDIE----LC--LSANYLTVCNDQSSSLVITPE-LRAEVTQ 184
K + + +E L + N+ + D SS++ + ++AE+ +
Sbjct: 178 CKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRS-DHSSNIKLRIHSIQAELRR 236
Query: 185 FWEDHKY-DGLAARNHILASIC-PAIYGLYLVKLCLAVVLAGGVGRGGE--DGSKVRAES 240
+ Y + L +L ++ + + + C ++ R + D +
Sbjct: 237 LLKSKPYENCLL----VLLNVQNAKAWNAFNLS-CKILLTT----RFKQVTDFLSAATTT 287
Query: 241 HLLLVG-DPGTGKSEILK-FAKRMS------PRSVLTT 270
H+ L E+ K + PR VLTT
Sbjct: 288 HISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT 325
Score = 28.7 bits (63), Expect = 3.5
Identities = 35/203 (17%), Positives = 61/203 (30%), Gaps = 37/203 (18%)
Query: 4 CPQLHRTQFPNNEDIGSLLQISGTVVRITVAKMLE-FRREYVCTKCKQCFYVKADF--EQ 60
C L T+F D S + T I++ + V + + + +
Sbjct: 266 CKILLTTRFKQVTDFLS----AATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPRE 321
Query: 61 FYSIANPLSCGS-PSSC-DGTNFSPVTSVDQDNYKDYQEIKIQERAAGVGSVPKSIWVTL 118
+ NP S DG DN+K K+ + S+ V L
Sbjct: 322 VLTT-NPRRLSIIAESIRDGLATW-------DNWKHVNCDKLTT------IIESSLNV-L 366
Query: 119 EDDLV-----DLAR-PGDDVIVCGAVLRR-WRPVVKGVRSDIELCLSANYLTVCNDQSSS 171
E L+ P + +L W V+K + + Y V S
Sbjct: 367 EPAEYRKMFDRLSVFP-PSAHIPTILLSLIWFDVIKSDVMVV-VNKLHKYSLVEKQPKES 424
Query: 172 LV----ITPELRAEVTQFWEDHK 190
+ I EL+ ++ + H+
Sbjct: 425 TISIPSIYLELKVKLENEYALHR 447
>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 = 40.0 bits (93), Expect = 0.001
Identities = 45/355 (12%), Positives = 90/355 (25%), Gaps = 130/355 (36%)
Query: 10 TQFPNNEDIGSLLQISGTVVRITVAKMLEFRREYVCTKCKQCFYVKADFEQFYSIANPLS 69
+ DI +L T+ K E + Y P
Sbjct: 93 NCYLEGNDIHALAAKLLQENDTTLVKTKELIKNY--------------ITARIMAKRPFD 138
Query: 70 CGSPS-----SCDGTN-----F----SPVTSVD--QDNYKDYQEI----------KIQER 103
S S +G F + + +D Y+ Y + + E
Sbjct: 139 KKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSEL 198
Query: 104 AAGVGSVPKSI--------WVTLEDDLVDLARPGDDVIVCGAV-LRRWRPVVKGVRSDIE 154
K W+ + P D ++ + P+ I
Sbjct: 199 IRTTLDAEKVFTQGLNILEWLENPSN-----TPDKDYLLSIPISC----PL-------IG 242
Query: 155 LCLSANYLTVCNDQSSSLVITP-ELRAEVTQFWEDHKYDGLAARNH-ILASICPAIYG-- 210
+ A+Y+ L TP ELR+ + G + ++ ++ A
Sbjct: 243 VIQLAHYVVTAK----LLGFTPGELRSYLK---------GATGHSQGLVTAVAIAETDSW 289
Query: 211 --LY-LVKLCLAVVLAGGVGRG--------------------GEDGSKVRAESHLLLVGD 247
+ V+ + V+ GV R E S +L +
Sbjct: 290 ESFFVSVRKAITVLFFIGV-RCYEAYPNTSLPPSILEDSLENNEG-----VPSPMLSI-- 341
Query: 248 PGTGKSEILKFAKRM----------------SPRSVLTTGVGTTTAGLTVSALRE 286
+ ++ + + ++++ +G + GL LR+
Sbjct: 342 SNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGL-NLTLRK 395
Score = 34.6 bits (79), Expect = 0.059
Identities = 30/161 (18%), Positives = 53/161 (32%), Gaps = 51/161 (31%)
Query: 177 ELRAE---VTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVGRGGEDG 233
+L W A NH + YG ++ + + + + GGE G
Sbjct: 1634 DLYKTSKAAQDVWNR-------ADNHFKDT-----YGFSILDIVINNPVNLTIHFGGEKG 1681
Query: 234 SKVRAESHLLLVGD-PGTGKSEILKFAKRM----------SPRSVLTTGVGTT--T--AG 278
++R E++ ++ + GK + K K + S + +L+ T T A
Sbjct: 1682 KRIR-ENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLS----ATQFTQPAL 1736
Query: 279 LTVS-----ALRENGEWHLE---AG-------ALVLSDGGV 304
+ L+ G + AG AL S V
Sbjct: 1737 TLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALA-SLADV 1776
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold,
hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 38.2 bits (89), Expect = 0.003
Identities = 16/67 (23%), Positives = 29/67 (43%), Gaps = 19/67 (28%)
Query: 198 NHILASICPAIYG-LYLVKLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEIL 256
+ + +S+ +Y + ++LCL L+G + L+G PG KS I
Sbjct: 14 SRLSSSLEKGLYERSHAIRLCLLAALSGE---------------SVFLLGPPGIAKSLI- 57
Query: 257 KFAKRMS 263
A+R+
Sbjct: 58 --ARRLK 62
>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR,
protein transport; HET: GNP; 2.77A {Saccharomyces
cerevisiae}
Length = 307
Score = 35.0 bits (80), Expect = 0.031
Identities = 16/53 (30%), Positives = 20/53 (37%), Gaps = 4/53 (7%)
Query: 242 LLLVGDPGTGKSEILKF-AKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLE 293
LLL+G G+GKS + S G T + S LR G L
Sbjct: 6 LLLMGRSGSGKSSMRSIIFSNYSAFDTRRLG---ATIDVEHSHLRFLGNMTLN 55
>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 = 33.4 bits (76), Expect = 0.056
Identities = 20/73 (27%), Positives = 30/73 (41%), Gaps = 10/73 (13%)
Query: 223 AGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILK--FAKRMSPRSVLTTGVGTTTAGLT 280
+ G GSK R +LL+G +GKS I K F K MSP L +T +
Sbjct: 8 SSGRENLYFQGSKPR----ILLMGLRRSGKSSIQKVVFHK-MSPNETLFLE---STNKIY 59
Query: 281 VSALRENGEWHLE 293
+ + + +
Sbjct: 60 KDDISNSSFVNFQ 72
>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 = 33.8 bits (77), Expect = 0.080
Identities = 18/105 (17%), Positives = 36/105 (34%), Gaps = 1/105 (0%)
Query: 241 HLLLVGDPGTGKSEI-LKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVL 299
+LL G PGTGK+ + L A+ + + VG+ + E A L +
Sbjct: 65 AVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKKTEVLMENFRRAIGLRI 124
Query: 300 SDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISVAKDKESKKVKVK 344
+ E + + + + + V ++ K +
Sbjct: 125 KETKEVYEGEVTELTPCETENPMGGYGKTISHVIIGLKTAKGTKQ 169
>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation,
cytoplasm, HOST- virus interaction, nucleotide-binding,
nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens}
PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A*
1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C*
3ch5_A* 1qg4_A* 3ea5_A* 1qg2_A* 1byu_A* 3ran_A* 3gjx_C*
...
Length = 221
Score = 32.7 bits (75), Expect = 0.12
Identities = 14/33 (42%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEILK-FAKRM-SPRSVLTTGV 272
L+LVGD GTGK+ +K + V T GV
Sbjct: 18 LVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGV 50
>1oix_A RAS-related protein RAB-11A; small G protein, intracellular
trafficking, GTP-binding, lipoprotein, prenylation,
protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP:
c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*
Length = 191
Score = 32.2 bits (74), Expect = 0.14
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
++L+GD G GKS +L +F + + S T GV
Sbjct: 32 VVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGV 64
>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon
cuniculi}
Length = 218
Score = 31.9 bits (73), Expect = 0.18
Identities = 9/33 (27%), Positives = 13/33 (39%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEILK-FAK-RMSPRSVLTTGV 272
+ L+GD G GK+ + R T G
Sbjct: 14 ICLIGDGGVGKTTYINRVLDGRFEKNYNATVGA 46
>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural
genomics, structural genomics consortium, SGC, protein
transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8
PDB: 1z0a_A*
Length = 191
Score = 31.8 bits (73), Expect = 0.19
Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFA-KRMSPRSVLTTGV 272
+++GD G GKS +L +F KR P LT GV
Sbjct: 24 YIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGV 56
>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics,
structural genomics consortium, SGC, protein transport;
HET: GDP; 2.20A {Homo sapiens}
Length = 200
Score = 31.8 bits (73), Expect = 0.19
Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
L++G GTGKS +L +F + + S T GV
Sbjct: 28 FLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGV 60
>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle
transport, hydrolase; HET: GDP; 1.55A {Homo sapiens}
SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A*
2gzh_A* 2d7c_A* 3bfk_A*
Length = 199
Score = 31.9 bits (73), Expect = 0.22
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
++L+GD G GKS +L +F + + S T GV
Sbjct: 8 VVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGV 40
>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural
genomics, structural genomics consortium, SGC, protein
transport; HET: GDP; 2.30A {Homo sapiens}
Length = 193
Score = 31.4 bits (72), Expect = 0.23
Identities = 12/33 (36%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
++L+G+ G GK+ +L +F + S S T GV
Sbjct: 28 VVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGV 60
>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular
transport, endocytosis, prenylation, protein transport,
transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8
PDB: 2bmd_A* 1yu9_A* 1z0k_A*
Length = 186
Score = 31.4 bits (72), Expect = 0.23
Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEILK-FAK-RMSPRSVLTTGV 272
L++G+ GTGKS +L F + + S T GV
Sbjct: 13 FLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGV 45
>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular
trafficking, protein transport; HET: GDP; 2.15A {Homo
sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*
Length = 179
Score = 31.4 bits (72), Expect = 0.24
Identities = 11/33 (33%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
+++GD G GKS +L +F + + T GV
Sbjct: 18 YIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGV 50
>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT
complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C
Length = 208
Score = 31.5 bits (72), Expect = 0.26
Identities = 9/35 (25%), Positives = 17/35 (48%), Gaps = 4/35 (11%)
Query: 242 LLLVGDPGTGKSEIL-KFAKRM---SPRSVLTTGV 272
+ +VG+ GKS ++ F + +T+GV
Sbjct: 23 VAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGV 57
>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular
trafficking, protein transport; HET: GNP; 1.81A {Mus
musculus} SCOP: c.37.1.8 PDB: 2g77_B*
Length = 189
Score = 31.0 bits (71), Expect = 0.32
Identities = 10/33 (30%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
++++GD GK+ + +F R R+ T GV
Sbjct: 23 IIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGV 55
>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein
transport-protein binding compl; HET: GTP; 2.18A {Homo
sapiens}
Length = 196
Score = 31.1 bits (71), Expect = 0.32
Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
LLL+GD G GKS +L +FA + + T GV
Sbjct: 19 LLLIGDSGVGKSCLLLRFADDTYTESYISTIGV 51
>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural
genomics, structural genomics consortium, SGC, signaling
protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8
Length = 201
Score = 31.1 bits (71), Expect = 0.33
Identities = 10/33 (30%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
++L+G+ G GK+ ++ +F + P T GV
Sbjct: 29 IVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGV 61
>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine
exchange factor; 2.10A {Homo sapiens}
Length = 181
Score = 31.0 bits (71), Expect = 0.33
Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
LL++GD G GKS +L +FA S + T GV
Sbjct: 12 LLIIGDSGVGKSSLLLRFADNTFSGSYITTIGV 44
>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding,
guanine-nucleotide exchang GDI-displacement factor;
2.85A {Homo sapiens}
Length = 199
Score = 31.1 bits (71), Expect = 0.33
Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
LLL+GD G GKS +L +FA + + T GV
Sbjct: 36 LLLIGDSGVGKSCLLLRFADDTYTESYISTIGV 68
>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; HET: GNP; 1.32A {Homo sapiens}
SCOP: c.37.1.8
Length = 195
Score = 31.1 bits (71), Expect = 0.34
Identities = 12/33 (36%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
+L++G+ G GKS +L +F P T GV
Sbjct: 18 ILIIGESGVGKSSLLLRFTDDTFDPELAATIGV 50
>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics,
structural genomics consortium, SGC, protein transport;
HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*
Length = 189
Score = 31.0 bits (71), Expect = 0.35
Identities = 12/33 (36%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
LLL+G+ GK+ L ++A +P V T G+
Sbjct: 25 LLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGI 57
>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular
transport, cytoplasm, cytoplasmic vesicle, exocytosis,
GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae}
SCOP: c.37.1.8
Length = 213
Score = 31.2 bits (71), Expect = 0.36
Identities = 13/33 (39%), Positives = 22/33 (66%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
+LL+GD G GKS +L +F + + +P + T G+
Sbjct: 23 ILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGI 55
>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics,
structural genomics consortium, SGC, signaling protein;
HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB:
2iez_A*
Length = 217
Score = 31.1 bits (71), Expect = 0.37
Identities = 11/33 (33%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFA-KRMSPRSVLTTGV 272
LL +GD G GK+ L ++ + +P+ + T G+
Sbjct: 28 LLALGDSGVGKTTFLYRYTDNKFNPKFITTVGI 60
>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 = 31.8 bits (72), Expect = 0.37
Identities = 10/46 (21%), Positives = 17/46 (36%), Gaps = 11/46 (23%)
Query: 221 VLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEI-LKFAKRMSPR 265
+ GG + S +L G GTGK+ + +F +
Sbjct: 273 MCGGGFFKD----------SIILATGATGTGKTLLVSRFVENACAN 308
Score = 29.9 bits (67), Expect = 1.3
Identities = 9/33 (27%), Positives = 13/33 (39%), Gaps = 10/33 (30%)
Query: 221 VLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKS 253
+ GG+ G L+ G GTGK+
Sbjct: 31 ISHGGLPIG----------RSTLVSGTSGTGKT 53
>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 = 31.0 bits (71), Expect = 0.38
Identities = 10/23 (43%), Positives = 14/23 (60%), Gaps = 1/23 (4%)
Query: 241 HLLLVGDPGTGK-SEILKFAKRM 262
HLL G PGTGK + + A+ +
Sbjct: 40 HLLFSGPPGTGKTATAIALARDL 62
>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein,
GDPNP, SLP2A, exophil GTP-binding, lipoprotein,
membrane, methylation; HET: GNP; 1.80A {Mus musculus}
PDB: 2iey_A* 2if0_A* 2zet_A*
Length = 195
Score = 31.1 bits (71), Expect = 0.38
Identities = 9/33 (27%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
L +GD G GK+ +L ++ + + + + T G+
Sbjct: 14 FLALGDSGVGKTSVLYQYTDGKFNSKFITTVGI 46
>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular
transport, acetylation, golgi apparatus, lipoprotein,
membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}
Length = 223
Score = 31.2 bits (71), Expect = 0.39
Identities = 14/33 (42%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
++L+GD G GKS +L +F K + S T GV
Sbjct: 16 IVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGV 48
>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics,
GTP-binding, nucleotide-binding, signaling protein; HET:
GDP; 1.89A {Plasmodium falciparum}
Length = 208
Score = 30.9 bits (70), Expect = 0.40
Identities = 9/33 (27%), Positives = 15/33 (45%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
+L+G+ GKS I+ + K + T G
Sbjct: 10 TVLLGESSVGKSSIVLRLTKDTFHENTNTTIGA 42
>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein,
endocytosis/exocytosis complex; HET: GDP; 1.80A
{Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A*
2ocy_C 2eqb_A
Length = 170
Score = 30.6 bits (70), Expect = 0.40
Identities = 13/33 (39%), Positives = 22/33 (66%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
+LL+GD G GKS +L +F + + +P + T G+
Sbjct: 6 ILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGI 38
>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB
protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus}
SCOP: c.37.1.8
Length = 203
Score = 31.1 bits (71), Expect = 0.40
Identities = 10/33 (30%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFA-KRMSPRSVLTTGV 272
+L++G+ GK+ L ++A +P V T G+
Sbjct: 11 ILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGI 43
>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase
nucleotide free complex; 2.00A {Mus musculus} SCOP:
c.37.1.8 PDB: 3qbt_A* 3tnf_A*
Length = 183
Score = 30.6 bits (70), Expect = 0.40
Identities = 12/33 (36%), Positives = 21/33 (63%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
LLL+GD G GK+ +L +F++ + + T G+
Sbjct: 11 LLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGI 43
>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics
consortium, SGC, cell GTP-binding, lipoprotein,
membrane, methylation; HET: GDP; 1.90A {Homo sapiens}
Length = 191
Score = 30.7 bits (70), Expect = 0.41
Identities = 11/33 (33%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFA-KRMSPRSVLTTGV 272
LL++G+ GK+ L ++A +P V T G+
Sbjct: 26 LLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGI 58
>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics,
structural genomics consortium, SGC, protein transport;
HET: GDP; 2.10A {Homo sapiens}
Length = 192
Score = 30.7 bits (70), Expect = 0.43
Identities = 8/33 (24%), Positives = 16/33 (48%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
++++G G GK+ ++ +F T GV
Sbjct: 29 VIIIGSRGVGKTSLMERFTDDTFCEACKSTVGV 61
>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase,
geranylgeranylation, vesicular transport, protein
transport; HET: GDP GER; 1.48A {Saccharomyces
cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A*
3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*
Length = 206
Score = 30.7 bits (70), Expect = 0.46
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
LLL+G+ G GKS +L +F+ + + T GV
Sbjct: 11 LLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGV 43
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}
Length = 235
Score = 30.7 bits (70), Expect = 0.50
Identities = 10/33 (30%), Positives = 17/33 (51%), Gaps = 10/33 (30%)
Query: 221 VLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKS 253
++ GG+ +G + L G+PGTGK+
Sbjct: 15 LIQGGIPQG----------FFIALTGEPGTGKT 37
>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics,
structural genomics consortium, SGC, signaling protein;
HET: GDP; 2.05A {Homo sapiens}
Length = 201
Score = 30.7 bits (70), Expect = 0.50
Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
L+LVGD GK+ ++ +F S R T GV
Sbjct: 32 LVLVGDASVGKTCVVQRFKTGAFSERQGSTIGV 64
>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural
genomics, SGC, structural genomics consortium, signaling
protein; HET: GDP; 2.15A {Homo sapiens}
Length = 199
Score = 30.7 bits (70), Expect = 0.51
Identities = 11/33 (33%), Positives = 14/33 (42%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
++L GD GKS L + K T GV
Sbjct: 31 IVLAGDAAVGKSSFLMRLCKNEFRENISATLGV 63
>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 = 31.4 bits (71), Expect = 0.54
Identities = 8/22 (36%), Positives = 12/22 (54%)
Query: 236 VRAESHLLLVGDPGTGKSEILK 257
+ L+L G PG+GK+ L
Sbjct: 1301 LSEHRPLILCGPPGSGKTMTLT 1322
Score = 28.7 bits (64), Expect = 3.8
Identities = 15/57 (26%), Positives = 22/57 (38%), Gaps = 4/57 (7%)
Query: 241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALREN-GEWHLEAGA 296
H LL+G G GKS + +F M+ S+ T S ++ AG
Sbjct: 1648 HALLIGVSGGGKSVLSRFVAWMNGLSIYTI---KVNNNYKSSDFDDDLRMLLKRAGC 1701
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 30.4 bits (69), Expect = 0.64
Identities = 11/33 (33%), Positives = 16/33 (48%), Gaps = 10/33 (30%)
Query: 221 VLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKS 253
+L GG+ + +LL G PGTGK+
Sbjct: 15 ILHGGIPER----------NVVLLSGGPGTGKT 37
>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 = 0.65
Identities = 8/47 (17%), Positives = 20/47 (42%), Gaps = 3/47 (6%)
Query: 240 SHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRE 286
H++L+G TGK+ + +F ++ ++ + +S
Sbjct: 1610 GHMMLIGASRTGKTILTRFVAWLNGLKIVQPKI---HRHSNLSDFDM 1653
Score = 29.4 bits (66), Expect = 2.3
Identities = 10/30 (33%), Positives = 18/30 (60%)
Query: 236 VRAESHLLLVGDPGTGKSEILKFAKRMSPR 265
+ ++ ++L G PG+GK+ I+ A R S
Sbjct: 1264 LNSKRGIILCGPPGSGKTMIMNNALRNSSL 1293
Score = 28.7 bits (64), Expect = 3.9
Identities = 7/14 (50%), Positives = 8/14 (57%)
Query: 244 LVGDPGTGKSEILK 257
LVG G GK+ K
Sbjct: 928 LVGKAGCGKTATWK 941
>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein
transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8
PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A*
1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A*
2hei_A* 1z07_A*
Length = 170
Score = 29.8 bits (68), Expect = 0.68
Identities = 10/33 (30%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
L+L+G+ GKS ++ +F K + T G
Sbjct: 9 LVLLGESAVGKSSLVLRFVKGQFHEFQESTIGA 41
>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase;
NMR {Homo sapiens} SCOP: c.37.1.11
Length = 189
Score = 30.1 bits (67), Expect = 0.70
Identities = 13/50 (26%), Positives = 20/50 (40%), Gaps = 6/50 (12%)
Query: 241 HLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEW 290
H+ L G PG GK+ ++ A + S G G +R+ G
Sbjct: 3 HVFLTGPPGVGKTTLIHKASEVLKSS------GVPVDGFYTEEVRQGGRR 46
>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 = 30.2 bits (69), Expect = 0.78
Identities = 7/36 (19%), Positives = 12/36 (33%), Gaps = 10/36 (27%)
Query: 221 VLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEIL 256
+L GG G + G +GK+ +
Sbjct: 12 LLGGGFAPG----------VLTQVYGPYASGKTTLA 37
>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 = 0.88
Identities = 13/46 (28%), Positives = 19/46 (41%), Gaps = 6/46 (13%)
Query: 242 LLLVGDPGTGKSEILK--FAKRMSPRSVLTTGVGTTTAGLTVSALR 285
+LL+G GKS I K F M P L +T+ ++
Sbjct: 2 VLLMGVRRCGKSSICKVVFHN-MQPLDTLYLE---STSNPSLEHFS 43
>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 = 30.4 bits (69), Expect = 0.89
Identities = 10/23 (43%), Positives = 13/23 (56%), Gaps = 1/23 (4%)
Query: 241 HLLLVGDPGTGK-SEILKFAKRM 262
HLL G PG GK + L A+ +
Sbjct: 48 HLLFAGPPGVGKTTAALALAREL 70
>2chq_A Replication factor C small subunit; DNA-binding protein, DNA
replication, clamp loader, AAA+ ATP ATP-binding,
nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus
fulgidus} PDB: 2chv_A
Length = 319
Score = 30.0 bits (68), Expect = 0.95
Identities = 10/23 (43%), Positives = 14/23 (60%), Gaps = 1/23 (4%)
Query: 241 HLLLVGDPGTGK-SEILKFAKRM 262
HLL G PGTGK + + A+ +
Sbjct: 40 HLLFSGPPGTGKTATAIALARDL 62
>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 = 30.1 bits (68), Expect = 1.1
Identities = 52/231 (22%), Positives = 81/231 (35%), Gaps = 40/231 (17%)
Query: 119 EDDLVDLARPGDDVIVCGAVLRRWRPVVKGVRSDIELCLSANYLTVCNDQSSSLVIT--- 175
+D + + +V + L +RP+ KG + + A V S I
Sbjct: 120 DDTVEGITGNLFEVYLKPYFLEAYRPIRKGDIFLVRGGMRAVEFKVVETDPSPYCIVAPD 179
Query: 176 --------PELRAEVTQFWEDHKYDGLAARNHILASICPAIYGLYLVKLCLAVVLAGGVG 227
P R + + + YD + LA I + L L L +
Sbjct: 180 TVIHCEGEPIKREDEEESLNEVGYDDVGGCRKQLAQIKEMV-ELPLRHPALFKAIGVKPP 238
Query: 228 RGGEDGSKVRAESHLLLVGDPGTGKSEILK-FAKRMSPRSVLTTG--VGTTTAGLTVSAL 284
RG +LL G PGTGK+ I + A L G + + AG + S L
Sbjct: 239 RG------------ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNL 286
Query: 285 R---ENGEWHLEAGALVLSDGGVCCIDEFSSIKEHDRTSIHEAMEQQTISV 332
R E E + A A++ IDE +I R H +E++ +S
Sbjct: 287 RKAFEEAEKN--APAIIF-------IDELDAIAP-KREKTHGEVERRIVSQ 327
>3ibz_A Putative tellurium resistant like protein TERD; structural
genomics, stress protein, tellurium resistance; 1.78A
{Streptomyces coelicolor A3}
Length = 191
Score = 29.3 bits (65), Expect = 1.2
Identities = 15/80 (18%), Positives = 26/80 (32%), Gaps = 12/80 (15%)
Query: 215 KLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGT 274
K+ V + R G + + + V + +EI ++ L+ T
Sbjct: 104 KIVFPVSIYDAENRQQSFG---QVRNAFIRVVNQAGE-AEIARYD--------LSEDAST 151
Query: 275 TTAGLTVSALRENGEWHLEA 294
TA + R EW A
Sbjct: 152 ETAMVFGELYRHGAEWKFRA 171
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 29.9 bits (67), Expect = 1.2
Identities = 10/33 (30%), Positives = 15/33 (45%), Gaps = 10/33 (30%)
Query: 221 VLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKS 253
++ GG G + +LL G GTGK+
Sbjct: 22 LIEGGFPEG----------TTVLLTGGTGTGKT 44
>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide,
transport protein; HET: GNH; 2.08A {Arabidopsis
thaliana} PDB: 2efd_B 2efc_B* 2efh_B*
Length = 181
Score = 29.0 bits (66), Expect = 1.4
Identities = 12/33 (36%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
L+L+GD G GKS ++ +F K + T G
Sbjct: 15 LVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGA 47
>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking,
protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP:
c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*
Length = 170
Score = 29.0 bits (66), Expect = 1.5
Identities = 6/33 (18%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
++L+G+ GK+ ++ ++ + + + + + T G
Sbjct: 9 VVLLGEGCVGKTSLVLRYCENKFNDKHITTLGA 41
>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport;
HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB:
1s8f_A* 1yzl_A* 2ocb_A*
Length = 177
Score = 29.0 bits (66), Expect = 1.7
Identities = 10/33 (30%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFA-KRMSPRSVLTTGV 272
++L+GD G GKS ++ ++ + + T GV
Sbjct: 10 VILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGV 42
>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis,
YPT/RAB protein, endocytosis, hydrolase,
endocytosis/exocytosis complex; HET: GDP; 1.35A
{Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*
Length = 182
Score = 28.7 bits (65), Expect = 1.7
Identities = 8/33 (24%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEILK-FA-KRMSPRSVLTTGV 272
++++GD G GK+ ++ + + S + T G
Sbjct: 11 VIILGDSGVGKTSLMHRYVNDKYSQQYKATIGA 43
>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue,
structural genomics, structural genomics consortium,
SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens}
SCOP: c.37.1.8
Length = 192
Score = 28.7 bits (65), Expect = 1.8
Identities = 11/33 (33%), Positives = 16/33 (48%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
+ L+GD G GKS I+ +F + T G
Sbjct: 26 VCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGA 58
>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase,
rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus
musculus} SCOP: c.37.1.8 PDB: 1yvd_A*
Length = 170
Score = 28.6 bits (65), Expect = 1.8
Identities = 12/33 (36%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
+ L+GD G GKS I+ +F + P T G
Sbjct: 9 VCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGA 41
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 29.3 bits (65), Expect = 1.8
Identities = 23/104 (22%), Positives = 36/104 (34%), Gaps = 10/104 (9%)
Query: 231 EDGSKVRAES-HLLLVGDPGTGKSEILK-FAKRMSPRSVLTTGVGTTTAGLTVSALRENG 288
+ G + H+ G+PGTGK+ + A + + G + L
Sbjct: 58 KLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTR---DDLVGQY 114
Query: 289 EWHLE---AGALVLSDGGVCCIDEFSSIKEHDRTSIH--EAMEQ 327
H L + GGV IDE + D + EA+E
Sbjct: 115 IGHTAPKTKEVLKRAMGGVLFIDEAYYLYRPDNERDYGQEAIEI 158
>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking,
protein transport; HET: GDP; 1.90A {Mus musculus} SCOP:
c.37.1.8 PDB: 1z22_A*
Length = 168
Score = 28.6 bits (65), Expect = 1.9
Identities = 9/33 (27%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
+++VG+ GKS ++ ++ K + T GV
Sbjct: 8 MVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGV 40
>1o7i_A SSB, SSO2364, single stranded DNA binding protein; OB fold; 1.2A
{Sulfolobus solfataricus} SCOP: b.40.4.3
Length = 119
Score = 27.9 bits (62), Expect = 2.1
Identities = 5/31 (16%), Positives = 11/31 (35%)
Query: 113 SIWVTLEDDLVDLARPGDDVIVCGAVLRRWR 143
+ +TL + G V + A ++
Sbjct: 50 RVKLTLWGKHAGSIKEGQVVKIENAWTTAFK 80
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 28.9 bits (65), Expect = 2.5
Identities = 12/30 (40%), Positives = 19/30 (63%)
Query: 239 ESHLLLVGDPGTGKSEILKFAKRMSPRSVL 268
+ H+LL+G+PGTGKS + + + P L
Sbjct: 60 KRHVLLIGEPGTGKSMLGQAMAELLPTETL 89
>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport;
HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB:
1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*
Length = 207
Score = 28.4 bits (64), Expect = 2.8
Identities = 9/33 (27%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEILK-FA-KRMSPRSVLTTGV 272
++++GD G GK+ ++ + K+ S + T G
Sbjct: 11 VIILGDSGVGKTSLMNQYVNKKFSNQYKATIGA 43
>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 = 28.7 bits (64), Expect = 2.9
Identities = 7/23 (30%), Positives = 11/23 (47%), Gaps = 1/23 (4%)
Query: 241 HLLLVGDPGTGK-SEILKFAKRM 262
+L G PG GK + A+ +
Sbjct: 79 AAMLYGPPGIGKTTAAHLVAQEL 101
>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP
binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB:
3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*
Length = 179
Score = 27.9 bits (63), Expect = 3.1
Identities = 7/33 (21%), Positives = 15/33 (45%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
L+ +G+ GK+ ++ +F T G+
Sbjct: 17 LVFLGEQSVGKTSLITRFMYDSFDNTYQATIGI 49
>2wzv_A NFNB protein; nitroreductase, oxidoreductase; HET: MSE FMN; 1.75A
{Mycobacterium smegmatis} PDB: 2wzw_A*
Length = 235
Score = 28.4 bits (63), Expect = 3.3
Identities = 6/34 (17%), Positives = 14/34 (41%)
Query: 103 RAAGVGSVPKSIWVTLEDDLVDLARPGDDVIVCG 136
A G+ S P+++ D + + ++ G
Sbjct: 172 TAHGIASCPQALLSFYADTVRAELGVENRKLLMG 205
>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural
genomics, structural genomics consortium, SGC, unknown
function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8
Length = 180
Score = 27.9 bits (63), Expect = 3.3
Identities = 11/34 (32%), Positives = 20/34 (58%), Gaps = 3/34 (8%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTT-GV 272
++LVGD G GK+ +L +F + ++T G+
Sbjct: 13 VMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGI 46
>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP
hydrolysis, YPT/RAB protein, endocytosis, hydrolase;
HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP:
c.37.1.8
Length = 170
Score = 27.8 bits (62), Expect = 3.4
Identities = 10/33 (30%), Positives = 16/33 (48%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
L+L+G+ GKS I+ +F + T G
Sbjct: 6 LVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGA 38
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 28.1 bits (63), Expect = 3.5
Identities = 6/23 (26%), Positives = 9/23 (39%)
Query: 231 EDGSKVRAESHLLLVGDPGTGKS 253
+ + L L G G GK+
Sbjct: 46 AEYEPGKKMKGLYLHGSFGVGKT 68
>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 = 27.7 bits (61), Expect = 3.8
Identities = 6/27 (22%), Positives = 14/27 (51%)
Query: 241 HLLLVGDPGTGKSEILKFAKRMSPRSV 267
+++ G+PG GK+ ++K +
Sbjct: 2 KIIITGEPGVGKTTLVKKIVERLGKRA 28
>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 = 28.1 bits (62), Expect = 3.8
Identities = 17/98 (17%), Positives = 31/98 (31%), Gaps = 20/98 (20%)
Query: 243 LLVGDPGTGKS----------EILKFAKRMSPRSVLT--TGVGTTTAGLTVSALRENGEW 290
L+ G PG+GK+ E+ K + R V T G+ + A +
Sbjct: 9 LITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIETDAKKLPKST 68
Query: 291 HLEAGALVLSD--------GGVCCIDEFSSIKEHDRTS 320
+ A + + G + +DE +
Sbjct: 69 DEQLSAHDMYEWIKKPENIGSIVIVDEAQDVWPARSAG 106
>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET:
G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*
Length = 178
Score = 27.9 bits (63), Expect = 4.1
Identities = 8/33 (24%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEILK-FAK-RMSPRSVLTTGV 272
++++GD +GK+ + FA+ + T G+
Sbjct: 9 IVVLGDGASGKTSLTTCFAQETFGKQYKQTIGL 41
>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 = 27.7 bits (62), Expect = 4.1
Identities = 7/12 (58%), Positives = 8/12 (66%)
Query: 242 LLLVGDPGTGKS 253
L VG PG GK+
Sbjct: 41 LTFVGSPGVGKT 52
>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF
hand, TIM barrel, C2 domain, GTPase, lipase, C binding,
GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q*
2rgn_A* 3ah8_A*
Length = 327
Score = 28.1 bits (62), Expect = 4.5
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 233 GSKVRAESHLLLVGDPGTGKSEILKFAK 260
G+ R E LLL+G +GKS +K +
Sbjct: 1 GADARRELKLLLLGTGESGKSTFIKQMR 28
>3gr3_A Nitroreductase; structural genomics, joint center for structural
genomics, J protein structure initiative, PSI-2,
flavoprotein; HET: MSE FMN UNL; 1.45A {Bartonella
henselae str}
Length = 230
Score = 27.9 bits (62), Expect = 5.0
Identities = 8/35 (22%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 103 RAAGVGSVPKSIWVTLEDDLVD-LARPGDDVIVCG 136
R G+ + ++ + + L+ P D I+CG
Sbjct: 163 RGFGLDTCAQAAFADYHKQIRSLLSVPSDRHIICG 197
>2rb9_A HYPE protein; hydrogenase maturation, dimer, enzyme, X- RAY
crystallography, structural genomics, BSGI; 2.00A
{Escherichia coli O157} PDB: 2i6r_A
Length = 334
Score = 27.6 bits (62), Expect = 5.3
Identities = 9/35 (25%), Positives = 16/35 (45%), Gaps = 5/35 (14%)
Query: 104 AAGVGSVPKSIWVTLEDDLVDLARPGDDVIVCGAV 138
AG+G++P +I GD ++V G +
Sbjct: 145 TAGMGAIPTNIHWG-----AQTLTAGDILLVSGTL 174
>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 = 27.8 bits (61), Expect = 6.1
Identities = 7/16 (43%), Positives = 8/16 (50%)
Query: 238 AESHLLLVGDPGTGKS 253
A + LV G GKS
Sbjct: 29 AGTVGALVSPGGAGKS 44
>3bbp_A RAB-6, RAS-related protein RAB-6A; golgi complex, GRIP domain, RAB
GTPase, ARL GTPase, golgin, RAB effector, clAsp protein;
HET: GTP; 3.00A {Homo sapiens}
Length = 211
Score = 27.3 bits (61), Expect = 6.2
Identities = 7/33 (21%), Positives = 15/33 (45%), Gaps = 2/33 (6%)
Query: 242 LLLVGDPGTGKSEIL-KFAK-RMSPRSVLTTGV 272
L+ +G+ GK+ ++ +F T G+
Sbjct: 19 LVFLGEQSVGKTSLITRFMYDSFDNTYQATIGI 51
>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 = 27.0 bits (59), Expect = 6.3
Identities = 12/53 (22%), Positives = 22/53 (41%)
Query: 242 LLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEA 294
++L G GKS I++ + + P L GV + + + G +A
Sbjct: 6 IILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSLIEAMPLKMQSAEGGIEFDA 58
>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG,
structural genomics, midwest center for structural
genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB:
3h0k_A
Length = 179
Score = 27.1 bits (60), Expect = 6.9
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 242 LLLVGDPGTGKSEILKFAKRM 262
+L+ G PG+GKSE K K
Sbjct: 4 ILITGMPGSGKSEFAKLLKER 24
>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2,
ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding,
GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB:
3d6t_B*
Length = 184
Score = 26.9 bits (60), Expect = 6.9
Identities = 10/37 (27%), Positives = 19/37 (51%), Gaps = 8/37 (21%)
Query: 242 LLLVGDPGTGKSEIL------KFAKRMSPRSVLTTGV 272
L++VG+ G+GK+ +L K + + T G+
Sbjct: 5 LMIVGNTGSGKTTLLQQLMKTKKSDLGMQSA--TVGI 39
>2z1u_A Hydrogenase expression/formation protein HYPE; alpha-beta fold,
beta barrel, lyase; HET: ATP; 2.00A {Desulfovibrio
vulgaris subsp} PDB: 2z1t_A*
Length = 343
Score = 27.3 bits (61), Expect = 7.0
Identities = 9/35 (25%), Positives = 17/35 (48%), Gaps = 5/35 (14%)
Query: 104 AAGVGSVPKSIWVTLEDDLVDLARPGDDVIVCGAV 138
G+G + + D ARPGD +++ G++
Sbjct: 145 TTGIGEILVDPAPS-----GDRARPGDAILISGSM 174
>3vti_C Hydrogenase maturation factor; transferase, carbamoyltransfer,
maturation of [NIFE]-hydroge nitrIle synthesis, iron;
2.56A {Thermoanaerobacter tengcongensis}
Length = 314
Score = 27.2 bits (61), Expect = 7.4
Identities = 9/34 (26%), Positives = 19/34 (55%), Gaps = 5/34 (14%)
Query: 105 AGVGSVPKSIWVTLEDDLVDLARPGDDVIVCGAV 138
+G+G + + V+ + A+PGD V++ G +
Sbjct: 125 SGIGVLYEGANVS-----IKNAKPGDIVLISGTI 153
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 27.1 bits (60), Expect = 7.7
Identities = 8/12 (66%), Positives = 8/12 (66%)
Query: 242 LLLVGDPGTGKS 253
L L GD G GKS
Sbjct: 155 LYLYGDMGIGKS 166
>2wtz_A UDP-N-acetylmuramoyl-L-alanyl-D-glutamate- -2,6-diaminopimelate
ligase; nucleotide-binding, peptidoglycan synthesis,
MURE, C shape; HET: KCX UAG; 3.00A {Mycobacterium
tuberculosis} PDB: 2xja_A*
Length = 535
Score = 27.2 bits (61), Expect = 8.2
Identities = 20/62 (32%), Positives = 24/62 (38%), Gaps = 13/62 (20%)
Query: 84 VTSVDQDN--YKDYQEIKIQERAAGVGSVPKSIWVTLEDD-------LVDLARPGDDVIV 134
VT DN +D I +E AG V V D V ARPGD V++
Sbjct: 445 VTD---DNPRDEDPTAI-RREILAGAAEVGGDAQVVEIADRRDAIRHAVAWARPGDVVLI 500
Query: 135 CG 136
G
Sbjct: 501 AG 502
>2kxt_A Tellurite resistance protein; KP-TERD, Ca2+ binding protein,
calcium signaling, unknown function; NMR {Klebsiella
pneumoniae} PDB: 2kxv_A
Length = 200
Score = 27.0 bits (59), Expect = 8.2
Identities = 17/80 (21%), Positives = 27/80 (33%), Gaps = 12/80 (15%)
Query: 215 KLCLAVVLAGGVGRGGEDGSKVRAESHLLLVGDPGTGKSEILKFAKRMSPRSVLTTGVGT 274
K+ V + R G + + + + +E+ ++ LT T
Sbjct: 104 KIIFVVTIHDAQARRQSFG---QVSGAFIRLVNDDNQ-TEVARYD--------LTEDAST 151
Query: 275 TTAGLTVSALRENGEWHLEA 294
TA L R NGEW A
Sbjct: 152 ETAMLFGELYRHNGEWKFRA 171
>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 = 27.2 bits (60), Expect = 8.4
Identities = 10/18 (55%), Positives = 13/18 (72%)
Query: 240 SHLLLVGDPGTGKSEILK 257
HLL+ G GTGKS +L+
Sbjct: 54 RHLLVNGATGTGKSVLLR 71
>3nx4_A Putative oxidoreductase; csgid, structural genomics, center for
struc genomics of infectious diseases, PSI, protein
structure INI; HET: MSE NAP; 1.90A {Salmonella enterica
subsp} PDB: 1o89_A 1o8c_A*
Length = 324
Score = 26.9 bits (60), Expect = 9.3
Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 1/46 (2%)
Query: 260 KRMSPRSVLTTGVGTTTAGLTVSALRENGEWHLEAGALVL-SDGGV 304
+S R+ + G TA L V AL + G + +V + GGV
Sbjct: 114 AGLSSRNAMIIGTAGFTAMLCVMALEDAGIRPQDGEVVVTGASGGV 159
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 0.135 0.403
Gapped
Lambda K H
0.267 0.0727 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,335,838
Number of extensions: 328900
Number of successful extensions: 1218
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1200
Number of HSP's successfully gapped: 109
Length of query: 345
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 251
Effective length of database: 4,077,219
Effective search space: 1023381969
Effective search space used: 1023381969
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.1 bits)