RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17544
(266 letters)
>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP;
1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB:
1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D*
1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D*
2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...
Length = 482
Score = 411 bits (1059), Expect = e-144
Identities = 186/220 (84%), Positives = 199/220 (90%)
Query: 43 AAKAAPKGKGNGRVVAVIGAVVDVQFDHDLPPILNALEVEGRSPRLVLEVAQHLGENTVR 102
A+ + G GR+VAVIGAVVDVQFD LPPILNALEV+GR RLVLEVAQHLGE+TVR
Sbjct: 4 ASPSPKAGATTGRIVAVIGAVVDVQFDEGLPPILNALEVQGRETRLVLEVAQHLGESTVR 63
Query: 103 TIAMDGTEGLVRGQVVADSGNPIKIPVGAETLGRIINVIGEPIDERGPIDTDKSAAIHAD 162
TIAMDGTEGLVRGQ V DSG PI+IPVG ETLGRI+NVIGEPIDERGPI T + AAIHA+
Sbjct: 64 TIAMDGTEGLVRGQKVLDSGAPIRIPVGPETLGRIMNVIGEPIDERGPIKTKQFAAIHAE 123
Query: 163 APEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGG 222
APEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGG
Sbjct: 124 APEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGG 183
Query: 223 YSVFAGVGERTREGNDLYHEMIESGVISLKDKSSKVNFLF 262
YSVFAGVGERTREGNDLYHEMIESGVI+LKD +SKV ++
Sbjct: 184 YSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVY 223
>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability,
potential tentoxin binding hydrolase; 3.20A {Spinacia
oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*
Length = 498
Score = 388 bits (999), Expect = e-134
Identities = 125/227 (55%), Positives = 156/227 (68%), Gaps = 7/227 (3%)
Query: 43 AAKAAPKGKGNGRVVAVIGAVVDVQFDHD-LPPILNALEVEGRSP-----RLVLEVAQHL 96
+ + K GR+ +IG V++V F +P I NAL V+GR + EV Q L
Sbjct: 10 PGVSTLEKKNLGRIAQIIGPVLNVAFPPGKMPNIYNALIVKGRDTAGQPMNVTCEVQQLL 69
Query: 97 GENTVRTIAMDGTEGLVRGQVVADSGNPIKIPVGAETLGRIINVIGEPIDERGPIDTDKS 156
G N VR +AM T+GL RG V D+G P+ +PVG TLGRI NV+GEP+D P+DT +
Sbjct: 70 GNNRVRAVAMSATDGLTRGMEVIDTGAPLSVPVGGPTLGRIFNVLGEPVDNLRPVDTRTT 129
Query: 157 AAIHADAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNV 216
+ IH AP F ++ + I TGIKVV+LLAPY +GGKIGLFGGAGVGKTVLIMELINN+
Sbjct: 130 SPIHRSAPAFTQLDTKLSIFETGIKVVNLLAPYRRGGKIGLFGGAGVGKTVLIMELINNI 189
Query: 217 AKAHGGYSVFAGVGERTREGNDLYHEMIESGVISLKDKS-SKVNFLF 262
AKAHGG SVF GVGERTREGNDLY EM ESGVI+ ++ + SKV ++
Sbjct: 190 AKAHGGVSVFGGVGERTREGNDLYMEMKESGVINEQNIAESKVALVY 236
>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC
F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1
b.49.1.1 c.37.1.11
Length = 473
Score = 366 bits (941), Expect = e-126
Identities = 132/206 (64%), Positives = 158/206 (76%), Gaps = 9/206 (4%)
Query: 54 GRVVAVIGAVVDVQFDHD-LPPILNALEVEGRSP-------RLVLEVAQHLGENTVRTIA 105
GRV+ V+G VVDV+F++ LP I NAL+++ ++ L LEVA HLG++TVRTIA
Sbjct: 4 GRVIQVMGPVVDVKFENGHLPAIYNALKIQHKARNENEVDIDLTLEVALHLGDDTVRTIA 63
Query: 106 MDGTEGLVRGQVVADSGNPIKIPVGAETLGRIINVIGEPIDERGPIDTD-KSAAIHADAP 164
M T+GL+RG V D+G PI +PVG TLGR+ NV+GEPID G I D + IH AP
Sbjct: 64 MASTDGLIRGMEVIDTGAPISVPVGQVTLGRVFNVLGEPIDLEGDIPADARRDPIHRPAP 123
Query: 165 EFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYS 224
+F E++ E EIL TGIKVVDLLAPY KGGKIGLFGGAGVGKTVLI ELI+N+A+ HGG S
Sbjct: 124 KFEELATEVEILETGIKVVDLLAPYIKGGKIGLFGGAGVGKTVLIQELIHNIAQEHGGIS 183
Query: 225 VFAGVGERTREGNDLYHEMIESGVIS 250
VFAGVGERTREGNDLYHEM +SGVIS
Sbjct: 184 VFAGVGERTREGNDLYHEMKDSGVIS 209
>3gqb_A V-type ATP synthase alpha chain; A3B3, V-ATPase, ATP synthesis,
ATP-binding, hydrogen ION TRA hydrolase, ION transport;
2.80A {Thermus thermophilus HB8} PDB: 3a5c_A* 3a5d_A
3j0j_A* 1um2_C
Length = 578
Score = 186 bits (474), Expect = 2e-55
Identities = 48/223 (21%), Positives = 79/223 (35%), Gaps = 27/223 (12%)
Query: 50 GKGNGRVVAVIGAVVDVQFDHD-LPPILNALEV------EGRSPRLVLEVAQHLGENTVR 102
G G V G + V+ L I + ++ E + V H + +
Sbjct: 57 GLKVGEPVVSTGLPLAVELGPGMLNGIYDGIQRPLERIREKTGIYITRGVVVHALDREKK 116
Query: 103 ---TIAMDGTEGLVRGQV---VADSGNPIKIPVGAETLGRIINVI--GEPIDERGPIDTD 154
T + + + G V V + G KI V + GR+ V GE E + +
Sbjct: 117 WAWTPMVKPGDEVRGGMVLGTVPEFGFTHKILVPPDVRGRVKEVKPAGEYTVEEPVVVLE 176
Query: 155 KSAA--------IHADAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKT 206
+ P ++ +TG++++D+L P A GG + G G GK+
Sbjct: 177 DGTELKMYHTWPVRRARPVQRKLDPN-TPFLTGMRILDVLFPVAMGGTAAIPGPFGSGKS 235
Query: 207 VLIMELINNVAKAHGGYSVFAGVGERTREGNDLYHEMIESGVI 249
V L ++ V+ G GER E D+ E E
Sbjct: 236 VTQQSLAKW---SNADVVVYVGSGERGNEMTDVLVEFPELTDP 275
Score = 49.0 bits (117), Expect = 7e-07
Identities = 21/95 (22%), Positives = 39/95 (41%), Gaps = 4/95 (4%)
Query: 53 NGRVVAVIGAVVDVQFDHDLPPILNALEVEGRSPRLVLEVAQHLGENTVRTIAMDGTEGL 112
G + + G V + + + +V LV E+ + G+ + D T GL
Sbjct: 3 QGVIQKIAGPAVIAKGMLG-ARMYDISKVGEE--GLVGEIIRLDGDTAFVQVYED-TSGL 58
Query: 113 VRGQVVADSGNPIKIPVGAETLGRIINVIGEPIDE 147
G+ V +G P+ + +G L I + I P++
Sbjct: 59 KVGEPVVSTGLPLAVELGPGMLNGIYDGIQRPLER 93
>3mfy_A V-type ATP synthase alpha chain; A-type ATP synthase, P loop,
phenylalanine mutant, hydrolase; 2.35A {Pyrococcus
horikoshii} PDB: 3i4l_A* 3i72_A 3i73_A* 3p20_A 3ikj_A
3qg1_A 3nd8_A 3nd9_A 1vdz_A 3qia_A 3qjy_A 3m4y_A 3se0_A
3sdz_A
Length = 588
Score = 152 bits (385), Expect = 1e-42
Identities = 36/159 (22%), Positives = 63/159 (39%), Gaps = 11/159 (6%)
Query: 91 EVAQHLGENTVRTIAMDGTEGLVRGQVVADSGNPIKIPVGAETLGRIINVIGEPIDERGP 150
++ + E ++ + G + G++V G T+ +I + P E
Sbjct: 134 DIIGEVPETSIIVHKIMVPPG-IEGEIVEI------AEEGDYTIEEVIAKVKTPSGEIKE 186
Query: 151 IDTDKSAAIHADAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIM 210
+ + + P + E + L+TG +V+D P AKGG + G AG GKTV
Sbjct: 187 LKMYQRWPVRVKRP-YKEKLPPEVPLITGQRVIDTFFPQAKGGTAAIPGPAGSGKTVTQH 245
Query: 211 ELINNVAKAHGGYSVFAGVGERTREGNDLYHEMIESGVI 249
+L + ++ G GER E D+ E +
Sbjct: 246 QLAKW---SDAQVVIYIGCGERGNEMTDVLEEFPKLKDP 281
Score = 64.0 bits (156), Expect = 8e-12
Identities = 20/95 (21%), Positives = 40/95 (42%), Gaps = 4/95 (4%)
Query: 53 NGRVVAVIGAVVDVQFDHDLPPILNALEVEGRSPRLVLEVAQHLGENTVRTIAMDGTEGL 112
GR++ V G +V + + V L+ E+ + G+ V + + T G+
Sbjct: 4 KGRIIRVTGPLVVADGMKG-AKMYEVVRVGEL--GLIGEIIRLEGDKAVIQVYEE-TAGV 59
Query: 113 VRGQVVADSGNPIKIPVGAETLGRIINVIGEPIDE 147
G+ V +G + + +G L I + I P++
Sbjct: 60 RPGEPVVGTGASLSVELGPRLLTSIYDGIQRPLEV 94
>3gqb_B V-type ATP synthase beta chain; A3B3, V-ATPase, ATP synthesis,
ATP-binding, hydrogen ION TRA hydrolase, ION transport;
2.80A {Thermus thermophilus HB8} PDB: 3a5c_D* 3a5d_D
3j0j_D*
Length = 464
Score = 139 bits (351), Expect = 2e-38
Identities = 44/208 (21%), Positives = 81/208 (38%), Gaps = 12/208 (5%)
Query: 54 GRVVAVIGAVVDVQFDHDLPPILNALEVEGRSPRLVLEVAQHLGENTVRTIAMDGTEGLV 113
+ + G ++ V+ D ++++ + R+ + E + T GL
Sbjct: 9 TGITYISGPLLFVENAKD-LAYGAIVDIKDGTGRVRGGQVIEVSEEYAVIQVFEETTGLD 67
Query: 114 RGQ-VVADSGNPIKIPVGAETLGRIINVIGEPIDERGPIDTDKSAAIHADAPEFVEMSVE 172
V+ + ++ V E LGR N IG+PID PI +K I V
Sbjct: 68 LATTSVSLVEDVARLGVSKEMLGRRFNGIGKPIDGLPPITPEKRLPITGLPLNPVARRKP 127
Query: 173 QEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA----------KAHGG 222
++ + TGI +D++ +G K+ +F G+G+ + ++ K
Sbjct: 128 EQFIQTGISTIDVMNTLVRGQKLPIFSGSGLPANEIAAQIARQATVRPDLSGEGEKEEPF 187
Query: 223 YSVFAGVGERTREGNDLYHEMIESGVIS 250
VFA +G RE + E +G +S
Sbjct: 188 AVVFAAMGITQRELSYFIQEFERTGALS 215
>2c61_A A-type ATP synthase non-catalytic subunit B; hydrolase, H+ ATPase,
A1AO, ATP synthesis, hydrogen ION transport, ION
transport; 1.5A {Methanosarcina mazei GO1} PDB: 3dsr_A*
3b2q_A* 2rkw_A* 3eiu_A*
Length = 469
Score = 107 bits (268), Expect = 8e-27
Identities = 42/212 (19%), Positives = 83/212 (39%), Gaps = 10/212 (4%)
Query: 45 KAAPKGKGNGRVVAVIGAVVDVQFDHDLPPILNAL-EVEGRSPRLVLEVAQHLGENTVRT 103
P K + + G ++ V + P N + ++ + Q L +
Sbjct: 6 HHHPMVKEYKTITQIAGPLIFV--EKTEPVGYNEIVNIKMGDGTVRR--GQVLDSSADIV 61
Query: 104 IAM--DGTEGLVRGQVVADSGNPIKIPVGAETLGRIINVIGEPIDERGPIDTDKSAAIHA 161
+ +GT GL + V +G +K+P + LGRI++ GEP D I D+ I+
Sbjct: 62 VVQVFEGTGGLDKDCGVIFTGETLKLPASVDLLGRILSGSGEPRDGGPRIVPDQLLDING 121
Query: 162 DAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHG 221
A ++ + TGI +D +G K+ +F +G+ + +++ +
Sbjct: 122 AAMNPYARLPPKDFIQTGISTIDGTNTLVRGQKLPIFSASGLPHNEIALQIARQASVPGS 181
Query: 222 GYS---VFAGVGERTREGNDLYHEMIESGVIS 250
+ VFA +G E + ++G +
Sbjct: 182 ESAFAVVFAAMGITNEEAQYFMSDFEKTGALE 213
>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta
structure, hydrolase; HET: ADP; 2.40A {Salmonella
typhimurium}
Length = 438
Score = 96.3 bits (240), Expect = 5e-23
Identities = 35/131 (26%), Positives = 64/131 (48%), Gaps = 3/131 (2%)
Query: 108 GTEGLVRGQVVADSGNPIKIPVGAETLGRIINVIGEPIDERGPIDTDKSAAIHADAPEFV 167
G R + ++P+G LGR+++ G+P+D DT ++ A+ +
Sbjct: 73 GARVYARNGHGDGLQSGKQLPLGPALLGRVLDGGGKPLDGLPAPDTLETGALITPPFNPL 132
Query: 168 EMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFA 227
+ + + +L TG++ ++ L +G ++GLF G+GVGK+VL+ + V
Sbjct: 133 QRTPIEHVLDTGVRAINALLTVGRGQRMGLFAGSGVGKSVLLGMMARY---TRADVIVVG 189
Query: 228 GVGERTREGND 238
+GER RE D
Sbjct: 190 LIGERGREVKD 200
>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*
Length = 347
Score = 93.5 bits (233), Expect = 2e-22
Identities = 38/125 (30%), Positives = 63/125 (50%), Gaps = 4/125 (3%)
Query: 124 PIKIPVGAETLGRIINVIGEPIDERGPI-DTDKSAAIHADAPEFVEMSVEQEILVTGIKV 182
KI VG LGR+I+ IG P++ +++A+ P+ + V + + G++
Sbjct: 2 SHKIRVGDALLGRLIDGIGRPMESNIVAPYLPFERSLYAEPPDPLLRQVIDQPFILGVRA 61
Query: 183 VDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERTREGNDLYHE 242
+D L G +IG+F G+GVGK+ L+ + N A V A +GER RE N+
Sbjct: 62 IDGLLTCGIGQRIGIFAGSGVGKSTLLGMICNG---ASADIIVLALIGERGREVNEFLAL 118
Query: 243 MIESG 247
+ +S
Sbjct: 119 LPQST 123
>2qe7_A ATP synthase subunit alpha; blockage of ATP hydrolysis, F1-ATPase,
single analysis, thermoalkaliphilic, hydrolase; 3.06A
{Bacillus SP} PDB: 1sky_B
Length = 502
Score = 76.6 bits (189), Expect = 4e-16
Identities = 43/141 (30%), Positives = 76/141 (53%), Gaps = 1/141 (0%)
Query: 92 VAQHLGENTVRTIAMDGTEGLVRGQVVADSGNPIKIPVGAETLGRIINVIGEPIDERGPI 151
+AQ+L E+ V + + + G V +G +++PVG LGR++N +G+P+D RGPI
Sbjct: 62 MAQNLEEDNVGVVILGPYTEIREGTQVKRTGRIMEVPVGEALLGRVVNPLGQPLDGRGPI 121
Query: 152 DTDKSAAIHADAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIME 211
+T + I + AP ++ E L TGIK +D + P +G + + G GKT + ++
Sbjct: 122 ETAEYRPIESPAPGVMDRKSVHEPLQTGIKAIDSMIPIGRGQRELIIGDRQTGKTTIAID 181
Query: 212 LINNVAKAHGGYSVFAGVGER 232
I N K ++ +G++
Sbjct: 182 TIIN-QKGQDVICIYVAIGQK 201
>1fx0_A ATP synthase alpha chain; latent ATPase, thermal stability,
potential tentoxin binding hydrolase; 3.20A {Spinacia
oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_A*
Length = 507
Score = 76.6 bits (189), Expect = 5e-16
Identities = 41/141 (29%), Positives = 66/141 (46%), Gaps = 1/141 (0%)
Query: 92 VAQHLGENTVRTIAMDGTEGLVRGQVVADSGNPIKIPVGAETLGRIINVIGEPIDERGPI 151
+A +L N V + M + G V +G +IPV LGR+IN + +PID RG I
Sbjct: 63 IALNLESNNVGVVLMGDGLMIQEGSSVKATGRIAQIPVSEAYLGRVINALAKPIDGRGEI 122
Query: 152 DTDKSAAIHADAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIME 211
+S I + AP + E L TG+ +D + P +G + + G GKT + +
Sbjct: 123 TASESRLIESPAPGIMSRRSVYEPLQTGLIAIDAMIPVGRGQRELIIGDRQTGKTAVATD 182
Query: 212 LINNVAKAHGGYSVFAGVGER 232
I N + V+ +G++
Sbjct: 183 TILN-QQGQNVICVYVAIGQK 202
>2r9v_A ATP synthase subunit alpha; TM1612, structural genomics, JOI for
structural genomics, JCSG, protein structure initiative
ATP synthesis; HET: ATP PG4; 2.10A {Thermotoga maritima
MSB8}
Length = 515
Score = 76.2 bits (188), Expect = 5e-16
Identities = 45/141 (31%), Positives = 72/141 (51%), Gaps = 1/141 (0%)
Query: 92 VAQHLGENTVRTIAMDGTEGLVRGQVVADSGNPIKIPVGAETLGRIINVIGEPIDERGPI 151
VA +L E+ V I + + + G V I++PVG E LGR++N +GEP+D +GPI
Sbjct: 75 VAFNLEEDNVGIIILGEYKDIKEGHTVRRLKRIIEVPVGEELLGRVVNPLGEPLDGKGPI 134
Query: 152 DTDKSAAIHADAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIME 211
+ I AP + L TGIK +D + P +G + + G GKT + ++
Sbjct: 135 NAKNFRPIEIKAPGVIYRKPVDTPLQTGIKAIDSMIPIGRGQRELIIGDRQTGKTAIAID 194
Query: 212 LINNVAKAHGGYSVFAGVGER 232
I N K G Y ++ +G++
Sbjct: 195 TIIN-QKGQGVYCIYVAIGQK 214
>3oaa_A ATP synthase subunit alpha; rossmann fold, hydrolase,
hydrolase-transport PROT complex; HET: ANP ADP; 3.26A
{Escherichia coli DH1} PDB: 2a7u_A
Length = 513
Score = 75.0 bits (185), Expect = 1e-15
Identities = 44/141 (31%), Positives = 75/141 (53%), Gaps = 1/141 (0%)
Query: 92 VAQHLGENTVRTIAMDGTEGLVRGQVVADSGNPIKIPVGAETLGRIINVIGEPIDERGPI 151
+A +L ++V + M L G V +G +++PVG LGR++N +G PID +GP+
Sbjct: 62 IALNLERDSVGAVVMGPYADLAEGMKVKCTGRILEVPVGRGLLGRVVNTLGAPIDGKGPL 121
Query: 152 DTDKSAAIHADAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIME 211
D D +A+ A AP +E + + TG K VD + P +G + + G GKT L ++
Sbjct: 122 DHDGFSAVEAIAPGVIERQSVDQPVQTGYKAVDSMIPIGRGQRELIIGDRQTGKTALAID 181
Query: 212 LINNVAKAHGGYSVFAGVGER 232
I N + G ++ +G++
Sbjct: 182 AIIN-QRDSGIKCIYVAIGQK 201
>2ck3_A ATP synthase subunit alpha\, mitochondrial; hydrolase; HET: ANP
ADP; 1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11
PDB: 1bmf_A* 1e1q_A* 1e1r_A* 1e79_A* 1h8h_A* 1nbm_A*
1ohh_A* 1qo1_A 1w0j_A* 1w0k_A* 1h8e_A* 2jdi_A* 2wss_A*
2w6j_A 2w6e_A 2w6g_A 2w6f_A 2w6h_A 2w6i_A 1cow_A* ...
Length = 510
Score = 74.3 bits (183), Expect = 2e-15
Identities = 36/124 (29%), Positives = 63/124 (50%)
Query: 92 VAQHLGENTVRTIAMDGTEGLVRGQVVADSGNPIKIPVGAETLGRIINVIGEPIDERGPI 151
++ +L + V + + + G +V +G + +PVG E LGR+++ +G ID +GPI
Sbjct: 62 MSLNLEPDNVGVVVFGNDKLIKEGDIVKRTGAIVDVPVGEELLGRVVDALGNAIDGKGPI 121
Query: 152 DTDKSAAIHADAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIME 211
+ + AP + +E + TGIK VD L P +G + + G GKT + ++
Sbjct: 122 GSKARRRVGLKAPGIIPRISVREPMQTGIKAVDSLVPIGRGQRELIIGDRQTGKTSIAID 181
Query: 212 LINN 215
I N
Sbjct: 182 TIIN 185
>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 = 68.7 bits (167), Expect = 2e-13
Identities = 27/216 (12%), Positives = 65/216 (30%), Gaps = 42/216 (19%)
Query: 61 GAVVDVQFDHDLPPILNALEVEGRSPRLVLEVAQHLGENTVRTIAMDGTEGLVRGQVVAD 120
+ + DH I+ + + + + E V+ + V +
Sbjct: 44 SILSKEEIDH----IIMSKDAVSGT-LRLFWTLLSKQEEMVQ-------------KFVEE 85
Query: 121 SGNP----IKIPVGAETLGRIINVIGEPIDERGPIDTDKSAAIHADAPEFVEMSVEQEIL 176
+ P+ E + I++R + + D F + +V +
Sbjct: 86 VLRINYKFLMSPIKTEQRQPSMMTR-MYIEQRDRL--------YNDNQVFAKYNVSRLQP 136
Query: 177 VTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVA-KAHGGYSVF-AGVGERTR 234
++ L + + G G GKT + +++ + + + +F +
Sbjct: 137 YLKLR--QALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNS 194
Query: 235 EG------NDLYHEMIESGVISLKDKSSKVNFLFNS 264
L ++ I+ S D SS + +S
Sbjct: 195 PETVLEMLQKLLYQ-IDPNWTSRSDHSSNIKLRIHS 229
>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 = 41.6 bits (97), Expect = 2e-04
Identities = 61/324 (18%), Positives = 90/324 (27%), Gaps = 130/324 (40%)
Query: 20 LNPALLQGEASKAVAGFTINKHYAAKAAPKGKGNGRVVAVIGAVVD-------------- 65
P GE + G T G G V AV A D
Sbjct: 258 FTP----GELRSYLKGAT------------GHSQGLVTAVAIAETDSWESFFVSVRKAIT 301
Query: 66 VQF-----------DHDLPPILNALEVEGR----SP-------------RLVLEVAQHLG 97
V F + LPP + +E SP V + HL
Sbjct: 302 VLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLP 361
Query: 98 ENTVRTIAMDGTEGLVRGQ---VVADSGNP------------IKIPVGAETLGRIINVIG 142
I+ LV G VV SG P K P G + RI
Sbjct: 362 AGKQVEIS------LVNGAKNLVV--SGPPQSLYGLNLTLRKAKAPSGLDQ-SRI----- 407
Query: 143 EPIDERG--------PIDTDKSAAIH----ADAPEFVEMSVEQEILVTGIKVVDLLAP-Y 189
P ER P+ ++ H A + + + + + D+ P Y
Sbjct: 408 -PFSERKLKFSNRFLPV----ASPFHSHLLVPASDLINKDLVKNNVS--FNAKDIQIPVY 460
Query: 190 A--KGGKIGLFGGAGVGKTV-LIM------ELINNVAKAH------GGYSVFAGVG---E 231
G + + G+ + V I+ E H GG S G+G
Sbjct: 461 DTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGAS---GLGVLTH 517
Query: 232 RTREGNDLYHEMIESGVISLKDKS 255
R ++G + +I +G + +
Sbjct: 518 RNKDGTGV--RVIVAGTLDINPDD 539
Score = 39.3 bits (91), Expect = 0.001
Identities = 60/306 (19%), Positives = 86/306 (28%), Gaps = 133/306 (43%)
Query: 4 AISRATAG------ALKAVK-------------P--TLNPALLQ-----GEASK----AV 33
AI+ + KA+ P +L P++L+ E ++
Sbjct: 282 AIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSI 341
Query: 34 AGFT----------INKHYAAKAAPKGKG------NGR---VVAVIGAVVDVQ-FDHDL- 72
+ T N H P GK NG VV+ G + + L
Sbjct: 342 SNLTQEQVQDYVNKTNSH-----LPAGKQVEISLVNGAKNLVVS--GPPQSLYGLNLTLR 394
Query: 73 ----PPILNALEVE--GRSPRLV---LEVA-----QHLGENTVRTIAMDGTEGLVRGQVV 118
P L+ + R + L VA L I D LV+ V
Sbjct: 395 KAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLL-VPASDLINKD----LVKNNVS 449
Query: 119 ADSGNPIKIPV------------GAETLGRIINVIGEPIDERGPID---TDKSAAIHADA 163
+ I+IPV RI++ I R P+ T + A H
Sbjct: 450 FN-AKDIQIPVYDTFDGSDLRVLSGSISERIVDCI-----IRLPVKWETTTQFKATH--- 500
Query: 164 PEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFG--------GAGVGKTVLIMELINN 215
IL G P GG GL G G GV ++ L N
Sbjct: 501 -----------ILDFG--------P---GGASGL-GVLTHRNKDGTGVR-VIVAGTLDIN 536
Query: 216 VAKAHG 221
+G
Sbjct: 537 PDDDYG 542
Score = 37.7 bits (87), Expect = 0.004
Identities = 42/237 (17%), Positives = 69/237 (29%), Gaps = 89/237 (37%)
Query: 21 NPALLQ----GEASKAVAGFTINKHYAA-KAAPKGKGNGRVVAVIGAV----VDVQFDHD 71
NP L GE K I ++Y+A G + + + F +
Sbjct: 1668 NPVNLTIHFGGEKGKR-----IRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSE 1722
Query: 72 ---L-------PPIL-------NALEVEGRSPRLVLEVAQH-LGENT-------VRTIAM 106
L P + L+ +G P A H LGE V +I
Sbjct: 1723 KGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADAT-FAGHSLGEYAALASLADVMSIE- 1780
Query: 107 DGTEGLV--RGQVVA-----DSG----------NPIKIPVG--AETLGRIINVIGEPIDE 147
E +V RG + D NP ++ E L ++ +G+
Sbjct: 1781 SLVE-VVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGK---R 1836
Query: 148 RGPIDTDKSAAIHADAPEFVE-----MSVEQEILVTG-IKVVDLLAP---YAKGGKI 195
G VE + +Q + G ++ +D + + K KI
Sbjct: 1837 TG---------------WLVEIVNYNVENQQ-YVAAGDLRALDTVTNVLNFIKLQKI 1877
Score = 32.3 bits (73), Expect = 0.19
Identities = 23/151 (15%), Positives = 47/151 (31%), Gaps = 53/151 (35%)
Query: 132 ETLG-RIINVIGEPIDERGPIDTDKSAAIHADAPE-------FVEMSVEQ--EILVTGIK 181
+T G I++++ P + IH + + M E + + K
Sbjct: 1655 DTYGFSILDIVIN-----NP----VNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEK 1705
Query: 182 VVDLLAPYAKGGKIGLFGGAGV-GKT------VLIMEL-INNVAKAHGGY---SVFAG-- 228
+ + ++ G+ T + +ME K+ G + FAG
Sbjct: 1706 IFKEINEHST--SYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHS 1763
Query: 229 VGERTREGNDLYHEMIES------GVISLKD 253
+GE Y + V+S++
Sbjct: 1764 LGE--------Y-----AALASLADVMSIES 1781
>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 = 33.4 bits (76), Expect = 0.061
Identities = 16/111 (14%), Positives = 37/111 (33%), Gaps = 10/111 (9%)
Query: 131 AETLGRIINVIGEPIDERGPIDTDKSAAIHADAPEFVEMSVEQEILVTG-----IKVVDL 185
A+ L I+ D P+ + + + +V +++ +V+
Sbjct: 84 ADFLEDYIDFAINEPDLLRPVVIAPQFSRQMLDRKLLLGNVPKQMTCYIREYHVDRVIKK 143
Query: 186 LAPYAKGGK--IGLFGGAGVGKTVLIMELINN---VAKAHGGYSVFAGVGE 231
L + L G AG GK+V+ + ++ + + V+
Sbjct: 144 LDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSG 194
>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 = 32.6 bits (74), Expect = 0.11
Identities = 8/32 (25%), Positives = 13/32 (40%)
Query: 195 IGLFGGAGVGKTVLIMELINNVAKAHGGYSVF 226
+ + G G GK+VL+ EL +
Sbjct: 56 LLVNGATGTGKSVLLRELAYTGLLRGDRMVIV 87
>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 = 32.9 bits (75), Expect = 0.12
Identities = 11/45 (24%), Positives = 23/45 (51%), Gaps = 3/45 (6%)
Query: 195 IGLFGGAGVGKTVLIMELINN---VAKAHGGYSVFAGVGERTREG 236
+ ++G AG GK+VL E + + + G + +G++ + G
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSG 194
>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus
abyssi}
Length = 350
Score = 32.0 bits (72), Expect = 0.18
Identities = 15/83 (18%), Positives = 26/83 (31%), Gaps = 2/83 (2%)
Query: 184 DLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERTREGNDLYHEM 243
L L G VGK+ L+ +N + ER + +
Sbjct: 23 KLEESLENYPLTLLLGIRRVGKSSLLRAFLNE--RPGILIDCRELYAERGHITREELIKE 80
Query: 244 IESGVISLKDKSSKVNFLFNSRF 266
++S + + SK N +F
Sbjct: 81 LQSTISPFQKFQSKFKISLNLKF 103
>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 = 31.9 bits (72), Expect = 0.22
Identities = 11/55 (20%), Positives = 21/55 (38%), Gaps = 4/55 (7%)
Query: 166 FVEMSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAH 220
F +++ Q+ + + A K + + G AG G T L +I +
Sbjct: 23 FDDLTEGQKNAFNIV----MKAIKEKKHHVTINGPAGTGATTLTKFIIEALISTG 73
>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 = 31.2 bits (70), Expect = 0.36
Identities = 15/90 (16%), Positives = 36/90 (40%), Gaps = 4/90 (4%)
Query: 181 KVVDLLAPYAKGGKIG---LFGGAGVGKTVLIMELINNVAKAHGGYSVFAGV-GERTREG 236
K+ +LAP + K ++G G GKT ++ +++ + K G + +
Sbjct: 31 KIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTP 90
Query: 237 NDLYHEMIESGVISLKDKSSKVNFLFNSRF 266
+ +++ES + + + L+
Sbjct: 91 YRVLADLLESLDVKVPFTGLSIAELYRRLV 120
>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 = 30.8 bits (69), Expect = 0.39
Identities = 8/68 (11%), Positives = 21/68 (30%), Gaps = 4/68 (5%)
Query: 197 LFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERTREGNDLYHEMIESGVISLKDKSS 256
+ G GK+ +I IN ++ + + Y + + +
Sbjct: 35 VLGLRRTGKSSIIKIGINE----LNLPYIYLDLRKFEERNYISYKDFLLELQKEINKLVK 90
Query: 257 KVNFLFNS 264
++ L +
Sbjct: 91 RLPSLLKA 98
>3u4q_B ATP-dependent helicase/deoxyribonuclease subunit; helicase,
nuclease, double strand DNA repair, protein-DNA CO
hydrolase-DNA complex; HET: DNA; 2.80A {Bacillus
subtilis} PDB: 3u44_B*
Length = 1166
Score = 30.8 bits (69), Expect = 0.56
Identities = 11/41 (26%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 197 LFGGAGVGKT-VLIMELINNVAKAHGGYSVFAGVGER-TRE 235
L G +G GKT ++I + + + +A G + V ++ T
Sbjct: 6 LVGRSGSGKTKLIINSIQDELRRAPFGKPIIFLVPDQMTFL 46
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 30.2 bits (68), Expect = 0.59
Identities = 11/47 (23%), Positives = 23/47 (48%), Gaps = 3/47 (6%)
Query: 181 KVVDLLAPYAKGGKIGLF--GGAGVGKTVLIMELINNVAKAHGGYSV 225
++D + Y + GL+ G G+GK+ L+ + + ++ G S
Sbjct: 139 AILDFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELS-EKKGVST 184
>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 = 29.5 bits (65), Expect = 0.65
Identities = 11/35 (31%), Positives = 15/35 (42%), Gaps = 9/35 (25%)
Query: 4 AISRATAGALKAVKPTLNPALLQGEASKAVAGFTI 38
A+ + A +LK PAL A KA T+
Sbjct: 21 ALKKLQA-SLKLYADDSAPAL----AIKA----TM 46
Score = 29.1 bits (64), Expect = 0.94
Identities = 12/54 (22%), Positives = 19/54 (35%), Gaps = 27/54 (50%)
Query: 12 ALKAVKPTLNPALLQGEASKAVAGFTINKHYAAKAAPKGKGNGRVVAVIGAVVD 65
ALK ++ +L K YA +AP +A I A ++
Sbjct: 21 ALKKLQASL-------------------KLYADDSAP-------ALA-IKATME 47
>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 = 29.6 bits (66), Expect = 0.68
Identities = 11/30 (36%), Positives = 18/30 (60%)
Query: 194 KIGLFGGAGVGKTVLIMELINNVAKAHGGY 223
KI + G GVGKT L+ +++ + K G+
Sbjct: 2 KIIITGEPGVGKTTLVKKIVERLGKRAIGF 31
>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 = 30.2 bits (68), Expect = 0.93
Identities = 27/185 (14%), Positives = 44/185 (23%), Gaps = 58/185 (31%)
Query: 66 VQFDHDLPPILNALEVEGRSPRLVLEVAQHLGENTVRTIAMDGTEGLVRGQVVADSGNPI 125
V + DL P E + + G+ + E V+ G +
Sbjct: 926 VIVEEDLEPF----EASKETAE---QFKHQHGDKVDIFEIPETGEYSVKLL----KGATL 974
Query: 126 KIP--------VGAETLGRIINVIGEPIDERGPID----TDKSA--AIHADAPEFVEMSV 171
IP V + I D D + + E S
Sbjct: 975 YIPKALRFDRLVAGQ-----IPTGWNAKTYGISDDIISQVDPITLFVLVS-VVEAFIAS- 1027
Query: 172 EQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVG------KTV-------------LIMEL 212
GI + Y ++G G+G+G L
Sbjct: 1028 -------GITDPYEMYKYVHVSEVGNCSGSGMGGVSALRGMFKDRFKDEPVQNDILQESF 1080
Query: 213 INNVA 217
IN ++
Sbjct: 1081 INTMS 1085
>1rcu_A Conserved hypothetical protein VT76; structural genomics, PSI,
protein structure initiative, northeast structural
genomics consortium, NESG; 2.50A {Thermotoga maritima}
SCOP: c.129.1.1
Length = 195
Score = 29.2 bits (66), Expect = 0.96
Identities = 9/31 (29%), Positives = 14/31 (45%), Gaps = 4/31 (12%)
Query: 195 IGLFGGAGVGKTVLIMELINNVAKAHGGYSV 225
+F G G +MEL++ + GG V
Sbjct: 59 YLVFNGGRDG----VMELVSQGVREAGGTVV 85
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 29.5 bits (66), Expect = 1.1
Identities = 16/45 (35%), Positives = 23/45 (51%)
Query: 191 KGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERTRE 235
+G + L GG G GKT + I A+ +G VF + ER R+
Sbjct: 29 EGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTLEERARD 73
>3na5_A Phosphoglucomutase; isomerase, metal binding; HET: BTB; 1.70A
{Salmonella enterica subsp} PDB: 3olp_A 2fuv_A*
Length = 570
Score = 29.2 bits (66), Expect = 1.4
Identities = 10/53 (18%), Positives = 18/53 (33%)
Query: 169 MSVEQEILVTGIKVVDLLAPYAKGGKIGLFGGAGVGKTVLIMELINNVAKAHG 221
V L+ + + Y + VGKT++ +I+ V G
Sbjct: 335 GIVTPAGLMNPNHYLAVAINYLFQHRPLWGKDVAVGKTLVSSAMIDRVVNDLG 387
>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural
genomics consortium, SGC, alternative splicing, ANK
repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens}
Length = 184
Score = 28.3 bits (64), Expect = 2.0
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 194 KIGLFGGAGVGKTVLIMELINN 215
K+G+ G GK+ L+ +
Sbjct: 22 KVGIVGNLSSGKSALVHRYLTG 43
>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis,
structural genomics, structural genomics consortium,
SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens}
SCOP: c.37.1.8 PDB: 2ery_A*
Length = 181
Score = 28.3 bits (64), Expect = 2.0
Identities = 10/28 (35%), Positives = 18/28 (64%)
Query: 188 PYAKGGKIGLFGGAGVGKTVLIMELINN 215
P ++ K+ + GG GVGK+ L ++ I +
Sbjct: 5 PPSETHKLVVVGGGGVGKSALTIQFIQS 32
>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding,
polymorphism, nucleotide-binding, alternative splicing,
protein transport; HET: CAF; 1.5A {Homo sapiens} PDB:
2bmj_A
Length = 178
Score = 28.0 bits (63), Expect = 2.1
Identities = 7/22 (31%), Positives = 12/22 (54%)
Query: 194 KIGLFGGAGVGKTVLIMELINN 215
++G+ G A GK+ LI +
Sbjct: 9 RLGVLGDARSGKSSLIHRFLTG 30
>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 = 27.7 bits (61), Expect = 3.0
Identities = 9/36 (25%), Positives = 15/36 (41%)
Query: 191 KGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVF 226
K + + G GVG T ++N+ K Y +
Sbjct: 2 KNKVVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMV 37
>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural
genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo
sapiens}
Length = 201
Score = 27.9 bits (63), Expect = 3.1
Identities = 8/28 (28%), Positives = 13/28 (46%)
Query: 188 PYAKGGKIGLFGGAGVGKTVLIMELINN 215
P + K+ + G VGKT L + +
Sbjct: 20 PLVRYRKVVILGYRCVGKTSLAHQFVEG 47
>3s81_A Putative aspartate racemase; structural genomics, center for
structural genomics of infec diseases, csgid, alpha beta
fold, cytosol; 1.80A {Salmonella enterica subsp} PDB:
3s7z_A
Length = 268
Score = 27.7 bits (61), Expect = 3.5
Identities = 8/29 (27%), Positives = 12/29 (41%)
Query: 194 KIGLFGGAGVGKTVLIMELINNVAKAHGG 222
IG+ GG G T ++E + A
Sbjct: 28 TIGILGGMGPAATADMLEKFVELRHASCD 56
>1y63_A LMAJ004144AAA protein; structural genomics, protein structure
initiative, PSI, SGPP structural genomics of pathogenic
protozoa consortium; HET: ADP; 1.70A {Leishmania major}
SCOP: c.37.1.1
Length = 184
Score = 27.4 bits (60), Expect = 3.7
Identities = 16/70 (22%), Positives = 31/70 (44%), Gaps = 7/70 (10%)
Query: 194 KIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERTREGNDL--YHEMIESGVISL 251
I + G G GKT + + A G+ VG+ +E + Y +++ +I
Sbjct: 12 NILITGTPGTGKTSMAEMI----AAELDGFQHLE-VGKLVKENHFYTEYDTELDTHIIEE 66
Query: 252 KDKSSKVNFL 261
KD+ ++F+
Sbjct: 67 KDEDRLLDFM 76
>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 = 27.3 bits (61), Expect = 3.9
Identities = 8/29 (27%), Positives = 12/29 (41%), Gaps = 1/29 (3%)
Query: 197 LFGGAGVGKTVLIMELINNVAKAHGGYSV 225
G GVGKT L + + + + G
Sbjct: 43 FVGSPGVGKTHLAVATLKAIYEKK-GIRG 70
>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 = 27.8 bits (61), Expect = 4.1
Identities = 14/70 (20%), Positives = 21/70 (30%), Gaps = 1/70 (1%)
Query: 197 LFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERTREGNDLYHEMIESGVISLKDKSS 256
L G G GKTV + +L V+ G R + E+ S I +
Sbjct: 49 LLGRPGTGKTVTLRKLWELYKDKTTARFVYIN-GFIYRNFTAIIGEIARSLNIPFPRRGL 107
Query: 257 KVNFLFNSRF 266
+
Sbjct: 108 SRDEFLALLV 117
>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 = 28.0 bits (62), Expect = 4.3
Identities = 10/45 (22%), Positives = 18/45 (40%)
Query: 191 KGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERTRE 235
G + G +G GKT+ ++ + N VF E ++
Sbjct: 38 IGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEETPQD 82
Score = 27.6 bits (61), Expect = 4.6
Identities = 14/69 (20%), Positives = 24/69 (34%), Gaps = 2/69 (2%)
Query: 153 TDKSAAIHADAPEFVEMSVEQEILVTGIKVVD-LLAP-YAKGGKIGLFGGAGVGKTVLIM 210
TD I + + +G+ +D + + K I G G GKT+L+
Sbjct: 240 TDHGINIFPLGAMRLTQRSSNVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVS 299
Query: 211 ELINNVAKA 219
+ N
Sbjct: 300 RFVENACAN 308
>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis,
structural genomics, structural genomics consortium,
SGC, transport protein; HET: GDP; 1.90A {Homo sapiens}
SCOP: c.37.1.8
Length = 199
Score = 27.2 bits (61), Expect = 4.5
Identities = 7/29 (24%), Positives = 15/29 (51%)
Query: 187 APYAKGGKIGLFGGAGVGKTVLIMELINN 215
+ ++ +FG GVGK+ L++ +
Sbjct: 3 PEQSNDYRVVVFGAGGVGKSSLVLRFVKG 31
>2iz6_A Molybdenum cofactor carrier protein; metal transport; 1.60A
{Chlamydomonas reinhardtii} PDB: 2iz5_A 2iz7_A
Length = 176
Score = 27.2 bits (61), Expect = 4.6
Identities = 20/60 (33%), Positives = 26/60 (43%), Gaps = 8/60 (13%)
Query: 190 AKGGKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGV--GERTREGNDLYHEMIESG 247
A G I L GG +G +M AK GG ++ GV G T E +D I +G
Sbjct: 42 ATHGWILLTGGRSLG----VMHEAMKGAKEAGGTTI--GVLPGPDTSEISDAVDIPIVTG 95
>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE
delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} PDB:
1xtq_A* 1xtr_A* 1xts_A* 2l0x_A*
Length = 181
Score = 26.7 bits (60), Expect = 5.6
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 188 PYAKGGKIGLFGGAGVGKTVLIMELINN 215
P +K KI + G VGK+ L ++ +
Sbjct: 2 PQSKSRKIAILGYRSVGKSSLTIQFVEG 29
>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein;
HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8
Length = 172
Score = 26.7 bits (60), Expect = 5.8
Identities = 7/22 (31%), Positives = 14/22 (63%)
Query: 194 KIGLFGGAGVGKTVLIMELINN 215
++ +FG GVGK+ L++ +
Sbjct: 5 RVAVFGAGGVGKSSLVLRFVKG 26
>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase;
1.90A {Tomato mosaic virus}
Length = 446
Score = 27.5 bits (60), Expect = 5.8
Identities = 19/76 (25%), Positives = 34/76 (44%), Gaps = 7/76 (9%)
Query: 146 DERGPIDTD--KSAAIHADAPEFVEMSVEQEILVTGIKVVDLLAPYAKGGKIGL-FGGAG 202
DE G I D + A+ +++ + +M+ L T +++ P+ K+ L G G
Sbjct: 116 DEFGIITCDNWRRVAVSSESVVYSDMA----KLRTLRRLLKDGEPHVSSAKVVLVDGVPG 171
Query: 203 VGKTVLIMELINNVAK 218
GKT I+ +N
Sbjct: 172 CGKTKEILSRVNFEED 187
>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein
complex, effectors, signaling protein; HET: GTP; 1.90A
{Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A*
3cf6_R* 3brw_D*
Length = 167
Score = 26.7 bits (60), Expect = 6.1
Identities = 7/22 (31%), Positives = 13/22 (59%)
Query: 194 KIGLFGGAGVGKTVLIMELINN 215
K+ + G GVGK+ L ++ +
Sbjct: 5 KLVVLGSGGVGKSALTVQFVQG 26
>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A
{Sulfolobus acidocaldarius} SCOP: c.37.1.1
Length = 194
Score = 26.6 bits (58), Expect = 6.6
Identities = 9/66 (13%), Positives = 25/66 (37%), Gaps = 7/66 (10%)
Query: 194 KIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERTREGNDLYHEMIESGVISLKD 253
+ G GVGK+ ++ ++ + + G+ + ++ G +D
Sbjct: 3 IGIVTGIPGVGKSTVLAKVKEILDNQGINNKII-------NYGDFMLATALKLGYAKDRD 55
Query: 254 KSSKVN 259
+ K++
Sbjct: 56 EMRKLS 61
>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP;
1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*
Length = 167
Score = 26.3 bits (59), Expect = 7.1
Identities = 7/22 (31%), Positives = 13/22 (59%)
Query: 194 KIGLFGGAGVGKTVLIMELINN 215
K+ + G GVGK+ L ++ +
Sbjct: 5 KVVVLGSGGVGKSALTVQFVTG 26
>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase;
HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A*
4dso_A*
Length = 189
Score = 26.4 bits (59), Expect = 7.3
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 194 KIGLFGGAGVGKTVLIMELINN 215
K+ + G GVGK+ L ++LI N
Sbjct: 6 KLVVVGADGVGKSALTIQLIQN 27
>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene,
disease mutation, golgi apparatus, GTP-binding,
lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo
sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*
Length = 190
Score = 26.4 bits (59), Expect = 7.4
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 194 KIGLFGGAGVGKTVLIMELINN 215
K+ + G GVGK+ L ++LI N
Sbjct: 23 KLVVVGAGGVGKSALTIQLIQN 44
>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein,
fluor membrane, lipoprotein, palmitate, prenylation;
HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X*
2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A*
6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A*
1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...
Length = 166
Score = 26.3 bits (59), Expect = 7.7
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 194 KIGLFGGAGVGKTVLIMELINN 215
K+ + G GVGK+ L ++LI N
Sbjct: 5 KLVVVGAGGVGKSALTIQLIQN 26
>2zsk_A PH1733, 226AA long hypothetical aspartate racemase; alpha/beta
fold, unknown function; 2.55A {Pyrococcus horikoshii}
Length = 226
Score = 26.5 bits (58), Expect = 7.8
Identities = 6/29 (20%), Positives = 12/29 (41%)
Query: 194 KIGLFGGAGVGKTVLIMELINNVAKAHGG 222
KIG+ GG T+ + +++
Sbjct: 3 KIGIIGGTTPESTLYYYKKYIEISREKFE 31
>1weh_A Conserved hypothetical protein TT1887; rossman fold, structural
genomics, riken structural genomics/proteomics
initiative, RSGI; 1.80A {Thermus thermophilus} SCOP:
c.129.1.1
Length = 171
Score = 26.4 bits (59), Expect = 8.1
Identities = 11/31 (35%), Positives = 12/31 (38%), Gaps = 4/31 (12%)
Query: 195 IGLFGGAGVGKTVLIMELINNVAKAHGGYSV 225
GL G G ME + KA GG V
Sbjct: 34 FGLACGGYQG----GMEALARGVKAKGGLVV 60
>4efi_A 3-oxoacyl-(acyl-carrier protein) synthase; structural genomics,
seattle structural genomics center for infectious
disease, ssgcid; 1.35A {Burkholderia xenovorans}
Length = 354
Score = 26.7 bits (60), Expect = 8.1
Identities = 6/50 (12%), Positives = 12/50 (24%), Gaps = 20/50 (40%)
Query: 129 VGAETLGRIIN----------------VIGEPIDERGPIDTDKSAAIHAD 162
+T+ ++I+ E + I AD
Sbjct: 153 AVGDTISKMIDPTDRSTSLLFGDAGTMTALETSNGDAAAHFI----IGAD 198
>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 = 26.6 bits (59), Expect = 8.2
Identities = 11/36 (30%), Positives = 17/36 (47%)
Query: 194 KIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGV 229
K+ + G G GKT L+ +L+ G S G+
Sbjct: 4 KLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGI 39
>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein;
HET: GDP; 1.20A {Mus musculus} PDB: 3kkp_A* 3kko_A*
3pit_A* 3pir_A* 1x1r_A* 1x1s_A*
Length = 183
Score = 26.4 bits (59), Expect = 8.3
Identities = 7/22 (31%), Positives = 12/22 (54%)
Query: 194 KIGLFGGAGVGKTVLIMELINN 215
K+ + G GVGK+ L ++
Sbjct: 20 KLVVVGDGGVGKSALTIQFFQK 41
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 26.2 bits (58), Expect = 8.8
Identities = 12/29 (41%), Positives = 15/29 (51%), Gaps = 2/29 (6%)
Query: 197 LFGGAGVGKTVLIMELINNVAKAHGGYSV 225
L G GVGKT L+ + N +AK S
Sbjct: 59 LHGSFGVGKTYLLAAIANELAKR--NVSS 85
>1z6r_A MLC protein; transcriptional repressor, ROK family protein, DNA
binding P helix-turn-helix, phosphotransferase system;
2.70A {Escherichia coli} SCOP: a.4.5.63 c.55.1.10
c.55.1.10 PDB: 3bp8_A
Length = 406
Score = 26.5 bits (59), Expect = 9.4
Identities = 11/77 (14%), Positives = 25/77 (32%), Gaps = 10/77 (12%)
Query: 73 PPILNALEVEGRSPRLVLEVAQHLGENTVRTIAMDGTEGLVRGQVVADSGNPIKIPVGAE 132
P + L VE + + + + + D + ++V + + +
Sbjct: 74 PAVG--LVVETEAWHYL---SLRISRGEIFLALRD-----LSSKLVVEESQELALKDDLP 123
Query: 133 TLGRIINVIGEPIDERG 149
L RII+ I +
Sbjct: 124 LLDRIISHIDQFFIRHQ 140
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
0.316 0.136 0.381
Gapped
Lambda K H
0.267 0.0805 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,101,779
Number of extensions: 275273
Number of successful extensions: 1035
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1002
Number of HSP's successfully gapped: 116
Length of query: 266
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 174
Effective length of database: 4,133,061
Effective search space: 719152614
Effective search space used: 719152614
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 (21.6 bits)
S2: 56 (25.2 bits)