RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 017312
(373 letters)
>2a0u_A Initiation factor 2B; SGPP, structural genomics, PSI, protein
structure initiative eukaryotic initiation factor; 2.10A
{Leishmania major} SCOP: c.124.1.5
Length = 383
Score = 522 bits (1347), Expect = 0.0
Identities = 179/373 (47%), Positives = 245/373 (65%), Gaps = 10/373 (2%)
Query: 7 STDNNSLQSICYRRGSLQLLDQRKLPLETIYLEIRDSADGWSAIREMVVRGAPAIAMAAA 66
+ +L+SI Y GSL+LLDQRKLPLET++ ++ D WSAI+EM VRGAPAIA++AA
Sbjct: 12 KPHHATLESIKYTPGSLRLLDQRKLPLETVFDDVLTVEDIWSAIKEMRVRGAPAIAVSAA 71
Query: 67 LSLAVEVFNL--NAFSGTAADAASFLGNKLEYLVSSRPTAVNLSDAAAKLKEIISKAAAT 124
L +AV N + + +FL +++++SRPTAVNL + LK + K T
Sbjct: 72 LGIAVATQRKAANGELKSGREVQTFLLTSCDFVMTSRPTAVNLFNCLRDLKAQVDKLDPT 131
Query: 125 ASEANSVFQAYIEAAEIMLKDDVATNKAIGSYGASFLQNQLKNS---KFSVLTHCNTGSL 181
+ A V QA++E AE + +DVA N+ I +GA+ + K K S+LT CNTG+L
Sbjct: 132 KA-AAEVAQAFVELAEAVYTNDVAFNEGIMRHGAAHILAAAKAEGRDKVSILTICNTGAL 190
Query: 182 ATAGYGTALGVIRALHSEGVLERAYCSETRPFNQGSRLTAFELVHDRIPATLIADSAAAA 241
AT+ YGTALGV+R L +G LER Y ETRP+NQG+RLT +E V + IP TLI D AA++
Sbjct: 191 ATSRYGTALGVVRQLFYDGKLERVYACETRPWNQGARLTVYECVQEDIPCTLICDGAASS 250
Query: 242 LMKDGRVSAVIVGADRVAANGDTANKIGTYSLALCAKFHNILFYVAAPLTSIDLTLSSGQ 301
LM + ++ AV+VGADR+ NGDTANKIGTY+LA+ AKFH + YVAAP T++D+ +SG
Sbjct: 251 LMLNRKIDAVVVGADRICQNGDTANKIGTYNLAVSAKFHGVKLYVAAPTTTLDVKTASGN 310
Query: 302 EIVIEERSAKELLCSRGGLGEQVAASG--ISVWNPAFDVTPANLIT-GIITEKGVVTKAG 358
+ IEER E+ + ++V A G +S+WNP FD+TP+ LIT GIITEKGV A
Sbjct: 311 HVEIEEREPTEITTNLVT-KQRVVADGPHLSIWNPVFDITPSELITGGIITEKGVQAPAA 369
Query: 359 ADDAFDIKDFIQK 371
+ +DI I +
Sbjct: 370 SAPYYDIASIIAQ 382
>2yvk_A Methylthioribose-1-phosphate isomerase; methionine salvage
pathway,; HET: MRU; 2.40A {Bacillus subtilis} PDB:
2yrf_A*
Length = 374
Score = 489 bits (1262), Expect = e-174
Identities = 142/350 (40%), Positives = 199/350 (56%), Gaps = 14/350 (4%)
Query: 7 STDNNSLQSICYRRGSLQLLDQRKLPLETIYLEIRDSADGWSAIREMVVRGAPAIAMAAA 66
+ +S+ ++ ++ +L+Q+KLP ET YLE+ D + AI + VRGAPAI + AA
Sbjct: 23 THSFAVPRSVEWKETAITILNQQKLPDETEYLELTTKEDVFDAIVTLKVRGAPAIGITAA 82
Query: 67 LSLAVEVFNLNAFSGTAADAASFLGNKLEYLVSSRPTAVNLSDAAAKLKEIISKAAATAS 126
LA+ ++ + L + +YL SSRPTA+NLS A +L + A
Sbjct: 83 FGLALAAKDIET--DNVTEFRRRLEDIKQYLNSSRPTAINLSWALERLS----HSVENAI 136
Query: 127 EANSVFQAYIEAAEIMLKDDVATNKAIGSYGASFLQNQLKNSKFSVLTHCNTGSLATAGY 186
N + A + +D T + IG + ++T CN GS+AT+ Y
Sbjct: 137 SVNEAKTNLVHEAIQIQVEDEETCRLIGQNALQLFKK-----GDRIMTICNAGSIATSRY 191
Query: 187 GTALGVIRALHSEGVLERAYCSETRPFNQGSRLTAFELVHDRIPATLIADSAAAALMKDG 246
GTAL + + Y ETRP QGSRLTA+EL+ I TLI DS AA MK+
Sbjct: 192 GTALAPFYLAKQKDLGLHIYACETRPVLQGSRLTAWELMQGGIDVTLITDSMAAHTMKEK 251
Query: 247 RVSAVIVGADRVAANGDTANKIGTYSLALCAKFHNILFYVAAPLTSIDLTLSSGQEIVIE 306
++SAVIVGADR+A NGDTANKIGTY LA+ A +I F+VAAPL++ D + G +I IE
Sbjct: 252 QISAVIVGADRIAKNGDTANKIGTYGLAILANAFDIPFFVAAPLSTFDTKVKCGADIPIE 311
Query: 307 ERSAKELLCSRGGLGEQVAASGISVWNPAFDVTPANLITGIITEKGVVTK 356
ER +E+ G + A S + V+NPAFD+TP +LI+GIITEKG++T
Sbjct: 312 ERDPEEVRQIS---GVRTAPSNVPVFNPAFDITPHDLISGIITEKGIMTG 358
>1t9k_A Probable methylthioribose-1-phosphate isomerase; structural
genomics, translation initiation factor, AIF-2B subunit,
PSI; 2.60A {Thermotoga maritima} SCOP: c.124.1.5
Length = 347
Score = 486 bits (1252), Expect = e-173
Identities = 155/344 (45%), Positives = 209/344 (60%), Gaps = 17/344 (4%)
Query: 12 SLQSICYRRGSLQLLDQRKLPLETIYLEIRDSADGWSAIREMVVRGAPAIAMAAALSLAV 71
+++ + SL+LLDQRKLP Y+E + + AI+EM+VRGAPAI +AAA +
Sbjct: 6 KTKTMEWSGNSLKLLDQRKLPFIEEYVECKTHEEVAHAIKEMIVRGAPAIGVAAAFGYVL 65
Query: 72 EVFNLNAFSGTAADAASFLGNKLEYLVSSRPTAVNLSDAAAKLKEIISKAAATASEANSV 131
++ E L +RPTAVNL A +++ K ++ ++
Sbjct: 66 G-----LRDYKTGSLTDWMKQVKETLARTRPTAVNLFWALNRME----KVFFENADRENL 116
Query: 132 FQAYIEAAEIMLKDDVATNKAIGSYGASFLQNQLKNSKFSVLTHCNTGSLATAGYGTALG 191
F+ A M +D+ NKAIG GA +++ ++LTHCN G+LAT YGTALG
Sbjct: 117 FEILENEALKMAYEDIEVNKAIGKNGAQLIKD-----GSTILTHCNAGALATVDYGTALG 171
Query: 192 VIRALHSEGVLERAYCSETRPFNQGSRLTAFELVHDRIPATLIADSAAAALMKDGRVSAV 251
VIRA G R + ETRP+ QG+RLTA+EL+ D I +I D+ A LMK G + AV
Sbjct: 172 VIRAAVESGKRIRVFADETRPYLQGARLTAWELMKDGIEVYVITDNMAGWLMKRGLIDAV 231
Query: 252 IVGADRVAANGDTANKIGTYSLALCAKFHNILFYVAAPLTSIDLTLSSGQEIVIEERSAK 311
+VGADR+A NGDTANKIGTYSLA+ AK +NI FYVAAP+++ID T+ SG+EI IEER +
Sbjct: 232 VVGADRIALNGDTANKIGTYSLAVLAKRNNIPFYVAAPVSTIDPTIRSGEEIPIEERRPE 291
Query: 312 ELLCSRGGLGEQVAASGISVWNPAFDVTPANLITGIITEKGVVT 355
E+ G ++A G+ V NPAFDVT LIT IITEKGV+
Sbjct: 292 EVTHCG---GNRIAPEGVKVLNPAFDVTENTLITAIITEKGVIR 332
>1t5o_A EIF2BD, translation initiation factor EIF2B, subunit DELT; subunit
delta, structural GEN PSI, protein structure initiative;
1.90A {Archaeoglobus fulgidus} SCOP: c.124.1.5
Length = 351
Score = 471 bits (1215), Expect = e-168
Identities = 137/344 (39%), Positives = 193/344 (56%), Gaps = 17/344 (4%)
Query: 12 SLQSICYRRGSLQLLDQRKLPLETIYLEIRDSADGWSAIREMVVRGAPAIAMAAALSLAV 71
SL+SI + G L+L+DQ KLP + +E R+ + AI+++ VRGAPA+ A A +A+
Sbjct: 2 SLRSIFWDDG-LKLIDQTKLPEKLEVIECRNVEELADAIKKLAVRGAPALEAAGAYGIAL 60
Query: 72 EVFNLNAFSGTAADAASFLGNKLEYLVSSRPTAVNLSDAAAKLKEIISKAAATASEANSV 131
+ L ++L S+RPTAVNL + AA V
Sbjct: 61 AAREREF--ADVDELKEHLKKAADFLASTRPTAVNLFVGIERAL----NAALKGESVEEV 114
Query: 132 FQAYIEAAEIMLKDDVATNKAIGSYGASFLQNQLKNSKFSVLTHCNTGSLATAGYGTALG 191
+ + AE + ++DV N+ +G YGA L++ VLT+CN G LAT +GTALG
Sbjct: 115 KELALREAEKLAEEDVERNRKMGEYGAELLED-----GDVVLTYCNAGRLATVDWGTALG 169
Query: 192 VIRALHSEGVLERAYCSETRPFNQGSRLTAFELVHDRIPATLIADSAAAALMKDGRVSAV 251
V+R+ +G R ETRP NQGSRLT +EL+ D I TLI DS +M+ G V V
Sbjct: 170 VVRSAVEQGKEIRVIACETRPLNQGSRLTCWELMEDGIDVTLITDSMVGIVMQKGMVDKV 229
Query: 252 IVGADRVAANGDTANKIGTYSLALCAKFHNILFYVAAPLTSIDLTLSSGQEIVIEERSAK 311
IVGADR+ + NKIGTY++++ AK HNI FYVAAP + D + +++VIEER +
Sbjct: 230 IVGADRIVRDA-VFNKIGTYTVSVVAKHHNIPFYVAAPKATFDWE-RTAKDVVIEERPRE 287
Query: 312 ELLCSRGGLGEQVAASGISVWNPAFDVTPANLITGIITEKGVVT 355
EL+ Q+A + V+NPAFD TP +T +ITE GV+
Sbjct: 288 ELIFCG---KRQIAPLNVKVYNPAFDPTPLENVTALITEYGVIY 328
>3a11_A Translation initiation factor EIF-2B, delta subun; isomerase,
hexamer, rossmann fold; 2.50A {Thermococcus
kodakaraensis} PDB: 3a9c_A* 3vm6_A*
Length = 338
Score = 418 bits (1077), Expect = e-147
Identities = 92/332 (27%), Positives = 154/332 (46%), Gaps = 27/332 (8%)
Query: 30 KLPLETIYLE------IRDSADGWSAIREMVVRGAPAIAMAAALSLAVEVFNLNAFSGTA 83
K+ ++E +++ + I+ M +RGA IA +AA +L ++ + +
Sbjct: 4 KVHHHHHHIEGRHMAVVKEVLEIAEKIKNMEIRGAGKIARSAAYALQLQA--EKSKATNV 61
Query: 84 ADAASFLGNKLEYLVSSRPTAVNLSDAAAKLKEIISKAAATASEANSVFQAYIEAAEIML 143
+ + + L +RPTAV+L +A + A ++ ++ + I AA+ +
Sbjct: 62 DEFWKEMKQAAKILFETRPTAVSLPNALRYVMHRGKIAYSSGADLEQLRFVIINAAKEFI 121
Query: 144 KDDVATNKAIGSYGASFLQNQLKNSKFSVLTHCNTGSLATAGYGTALGVIRALHSEGVLE 203
+ + IG +GA +++ ++THC++ A+ V++ +G
Sbjct: 122 HNSEKALERIGEFGAKRIED-----GDVIMTHCHSK--------AAISVMKTAWEQGKDI 168
Query: 204 RAYCSETRPFNQGSRLTAFELVHDRIPATLIADSAAAALMKDGRVSAVIVGADRVAANGD 263
+ +ETRP QG ++TA EL IP + DSAA MK V++GAD + NG
Sbjct: 169 KVIVTETRPKWQG-KITAKELASYGIPVIYVVDSAARHYMK--MTDKVVMGADSITVNGA 225
Query: 264 TANKIGTYSLALCAKFHNILFYVAAPLTSIDLTLSSGQEIVIEERSAKELLCSRGGLGEQ 323
NKIGT +AL AK H + +AA GQ + IE R E++ +
Sbjct: 226 VINKIGTALIALTAKEHRVWTMIAAETYKFHPETMLGQLVEIEMRDPTEVIPED---ELK 282
Query: 324 VAASGISVWNPAFDVTPANLITGIITEKGVVT 355
I VWNPAFDVTP + IITE+G++
Sbjct: 283 TWPKNIEVWNPAFDVTPPEYVDVIITERGIIP 314
>1vb5_A Translation initiation factor EIF-2B; 2.20A {Pyrococcus horikoshii}
SCOP: c.124.1.5
Length = 276
Score = 353 bits (907), Expect = e-122
Identities = 70/315 (22%), Positives = 112/315 (35%), Gaps = 48/315 (15%)
Query: 41 RDSADGWSAIREMVVRGAPAIAMAAALSLAVEVFNLNAFSGTAADAASFLGNKLEYLVSS 100
+ ++ ++GA +A A + A + + E +V
Sbjct: 4 ERVLEILREMKRERIKGASWLAKKGAEAFLTL-----AEELDESLLEDAIMELREEVVKV 58
Query: 101 RPTAVNLSDAAAKLKEIISKAAATASEANSVFQAYIEAAEIMLKDDVATNKAIGSYGASF 160
P+ +L + A + + A L+ + + S GA
Sbjct: 59 NPSMASLYNLARFIPVTNRRDIL------------KSRALEFLRRMEEAKRELASIGAQL 106
Query: 161 LQNQLKNSKFSVLTHCNTGSLATAGYGTALGVIRALHSEGVLERAYCSETRPFNQGSRLT 220
+ + ++TH + T L +IR + +E+ P +G L
Sbjct: 107 IDD-----GDVIITHSFSS--------TVLEIIRTAKERKKRFKVILTESSPDYEGLHL- 152
Query: 221 AFELVHDRIPATLIADSAAAALMKDGRVSAVIVGADRVAANGDTANKIGTYSLALCAKFH 280
A EL I +I D+ + S IVGAD + +G NK GTY LAL +
Sbjct: 153 ARELEFSGIEFEVITDAQMGLFCR--EASIAIVGADMITKDGYVVNKAGTYLLALACHEN 210
Query: 281 NILFYVAAPLTSIDLTLSSGQEIVIEERSAKELLCSRGGLGEQVAASGISVWNPAFDVTP 340
I FYVAA TL SG +++E + + + N FDVTP
Sbjct: 211 AIPFYVAAETYKFHPTLKSGDVMLMERDLIRG---------------NVRIRNVLFDVTP 255
Query: 341 ANLITGIITEKGVVT 355
+ GIITE G+V
Sbjct: 256 WKYVRGIITELGIVI 270
>1w2w_B 5-methylthioribose-1-phosphate isomerase; EIF2B, methionine salvage
pathway, translation initiation, oxidoreductase; 1.75A
{Saccharomyces cerevisiae} SCOP: c.124.1.5
Length = 191
Score = 285 bits (731), Expect = 8e-97
Identities = 79/188 (42%), Positives = 108/188 (57%), Gaps = 22/188 (11%)
Query: 202 LERAYCSETRPFNQGSRLTAFELVHDRIPATLIADSAAAALMKDGRV--SAVIVGADRVA 259
+ + ETRP+NQGSRLTA+ELV+D+IP+TLI DS+ A ++ + A VGADR+
Sbjct: 4 MGHVFPLETRPYNQGSRLTAYELVYDKIPSTLITDSSIAYRIRTSPIPIKAAFVGADRIV 63
Query: 260 ANGDTANKIGTYSLALCAKFHNILFYVAAPLTSIDLTLSSGQEIVIEERSAKELLCSRGG 319
NGDTANKIGT LA+ K I F+V AP T+ID +G +I++EER+ +E G
Sbjct: 64 RNGDTANKIGTLQLAVICKQFGIKFFVVAPKTTIDNVTETGDDIIVEERNPEEFKVVTGT 123
Query: 320 LGE-------------------QVAASGISVWNPAFDVTPANLITGIITEKGVVTKAGAD 360
+ +A I+VWNPAFD+TP LI GIITE+GV +
Sbjct: 124 VINPENGSLILNESGEPITGKVGIAPLEINVWNPAFDITPHELIDGIITEEGVF-TKNSS 182
Query: 361 DAFDIKDF 368
F ++
Sbjct: 183 GEFQLESL 190
>3ecs_A Translation initiation factor EIF-2B subunit alpha; eukaryotic
translation initiation factor 2balpha (EIF2balpha);
2.65A {Homo sapiens}
Length = 315
Score = 288 bits (740), Expect = 2e-96
Identities = 74/313 (23%), Positives = 129/313 (41%), Gaps = 27/313 (8%)
Query: 45 DGWSAIREMVVRGAP-AIAMAAALSLAVEVFNLNAFSGTAADAASFLGNKLEYLVSSRPT 103
+ + + A A+AA +L + T + L + +E L +
Sbjct: 5 ELIEYFKSQMKEDPDMASAVAAIRTLLEFLKRDKG--ETIQGLRANLTSAIETLCG-VDS 61
Query: 104 AVNLSDAAAKLKEIISKAAATASEANSVFQAYIEAAEIMLKDDVATNKAIGSYGASFLQN 163
+V +S IS A+ S+ + + IE E+ L+ + I +F+++
Sbjct: 62 SVAVSSGGELFLRFISLASLEYSDYSKCKKIMIERGELFLRRISLSRNKIADLCHTFIKD 121
Query: 164 QLKNSKFSVLTHCNTGSLATAGYGTALGVIRALHSEGVLERAYCSETRPFNQGSRLTAFE 223
++LTH + L V+ A + Y +E++P G ++ A
Sbjct: 122 -----GATILTHAYSR--------VVLRVLEAAVAAKKRFSVYVTESQPDLSGKKM-AKA 167
Query: 224 LVHDRIPATLIADSAAAALMKDGRVSAVIVGADRVAANGDTANKIGTYSLALCAKFHNIL 283
L H +P T++ D+A +M+ + VIVGA+ V NG NKIGT +A+CAK N
Sbjct: 168 LCHLNVPVTVVLDAAVGYIME--KADLVIVGAEGVVENGGIINKIGTNQMAVCAKAQNKP 225
Query: 284 FYVAAPLTSID-LTLSSGQEIVIEERSAKELLCSRGGLGEQVAASGISVWNPAFDVTPAN 342
FYV A L + Q++ + + + L + +P D T +
Sbjct: 226 FYVVAESFKFVRLFPLNQQDVPDKFKYKADT------LKVAQTGQDLKEEHPWVDYTAPS 279
Query: 343 LITGIITEKGVVT 355
LIT + T+ GV+T
Sbjct: 280 LITLLFTDLGVLT 292
>1w2w_A 5-methylthioribose-1-phosphate isomerase; EIF2B, methionine salvage
pathway, translation initiation, oxidoreductase; 1.75A
{Saccharomyces cerevisiae} SCOP: c.124.1.5
Length = 211
Score = 232 bits (593), Expect = 9e-76
Identities = 76/211 (36%), Positives = 117/211 (55%), Gaps = 23/211 (10%)
Query: 12 SLQSICYRR-----GSLQLLDQRKLPLETIYLEIRDSADGWSAIREMVVRGAPAIAMAAA 66
SL++I + R S+++LDQ LP T Y+ I DG+S I+ M VRGAPAIA+ +
Sbjct: 2 SLEAIVFDRSEPENVSVKVLDQLLLPYTTKYVPIHTIDDGYSVIKSMQVRGAPAIAIVGS 61
Query: 67 LSLAVEV----------FNLNAFSGTAADAASFLGNKLEYLVSSRPTAVNLSDAAAKLKE 116
LS+ EV + L +L++L+SSRPTAVNLS++ ++K
Sbjct: 62 LSVLTEVQLIKHNPTSDVATLYSLVNWESTKTVLNKRLDFLLSSRPTAVNLSNSLVEIK- 120
Query: 117 IISKAAATASEANSVFQAYIEAAEIMLKDDVATNKAIGSYGASFLQNQLK----NSKFSV 172
++S+ + + ++ +D+A N +G GA +L + L+ +F+V
Sbjct: 121 ---NILKSSSDLKAFDGSLYNYVCELIDEDLANNMKMGDNGAKYLIDVLQKDGFKDEFAV 177
Query: 173 LTHCNTGSLATAGYGTALGVIRALHSEGVLE 203
LT CNTGSLAT+GYGTALGVIR+L + + +
Sbjct: 178 LTICNTGSLATSGYGTALGVIRSLWKDSLAK 208
>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 = 52.4 bits (125), Expect = 2e-07
Identities = 70/429 (16%), Positives = 123/429 (28%), Gaps = 140/429 (32%)
Query: 9 DNNSLQSICYRRGSL---------------QLLDQ--RKLPLETIYLEIRDSADGWSAIR 51
D S + + GSL QL +Q + LP T + D +
Sbjct: 2 DAYSTRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFA---ADDEPTTPA 58
Query: 52 EMVVR----------GAPAIAMAAALSLAVEVFNLNAFSGTAADAASFLGNKLEYLVSSR 101
E+V + + L+L L F +L
Sbjct: 59 ELVGKFLGYVSSLVEPSKVGQFDQVLNLC-----LTEFE------NCYLEGN-------- 99
Query: 102 PTAVNLSDAAAKLKEIISKAAATASEANSVFQAYIEAAEIM-----------LKDDVATN 150
++ AAKL + T + + + YI A + L V
Sbjct: 100 ----DIHALAAKLLQENDT---TLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEG 152
Query: 151 K----AI----GSYGASF--LQN----------QLKNSKFSVLTHCNTGSL-ATAGYGTA 189
AI G+ F L++ L L+ +L A +
Sbjct: 153 NAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQG 212
Query: 190 LGVIRALH------SEGVLERAYCSETRPFNQGSRLTAFEL---VHDRIPATLIADSAAA 240
L ++ L + L + P +L + + + P L + A
Sbjct: 213 LNILEWLENPSNTPDKDYL--LSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGA 270
Query: 241 ALMKDGRVSAVIVGADRVAANGDTANKIGTYSLALCAKFHNILFYV------AAPLTSID 294
G V+AV + A D+ + K +LF++ A P TS+
Sbjct: 271 TGHSQGLVTAVAI------AETDSWESF--FVSV--RKAITVLFFIGVRCYEAYPNTSLP 320
Query: 295 LTLSS-----GQEI-----VIEERSAKEL------LCSRGGLGEQVAASGISVWNPAFDV 338
++ + + I + +++ S G+QV IS+ N
Sbjct: 321 PSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVE---ISLVN----- 372
Query: 339 TPANL-ITG 346
NL ++G
Sbjct: 373 GAKNLVVSG 381
Score = 45.0 bits (106), Expect = 3e-05
Identities = 54/314 (17%), Positives = 91/314 (28%), Gaps = 124/314 (39%)
Query: 39 EIRDSAD-------GWSAIREMVVRGAPAIAMAAALSLAVEVFNLNAFSGTAADAASFLG 91
++ + AD G+S I + +V P +L + F G G
Sbjct: 1644 DVWNRADNHFKDTYGFS-ILD-IVINNPV-------NLTIH------FGGEK-------G 1681
Query: 92 NKLE--YLVSSRPTAVNLSDAAAKLKEIISKAAATASEANSVFQAYI-EAAEIMLKDDVA 148
++ Y S + D K ++I E N +Y + + +L A
Sbjct: 1682 KRIRENY---SAMIFETIVDGKLKTEKIFK-------EINEHSTSYTFRSEKGLLS---A 1728
Query: 149 TNK---AIG--SYGASF--LQNQ-LKNSKFSVLTHCNTGSLATAG-YGTALGVIRALHSE 199
T A+ A+F L+++ L + + H SL G Y AL A
Sbjct: 1729 TQFTQPALTLMEK-AAFEDLKSKGLIPADATFAGH----SL---GEY-AAL-ASLA---- 1774
Query: 200 GVLERAYCSETRPFNQGSRLTAFELVHDRIPATLIADSAAAALMKDGRVSAVIVGADRVA 259
V+ E+V R + + + + + RVA
Sbjct: 1775 DVM---------SIES-----LVEVVFYR--GMTMQVAVPRDELGRSNYGMIAINPGRVA 1818
Query: 260 ANGDTANKIGTYSLALCAKFHNILFYVAAPLTSIDLTLSSGQ--EIV---IEERSAKELL 314
A+ L YV + +G EIV +E
Sbjct: 1819 ASFSQE----------------ALQYVVERVGK-----RTGWLVEIVNYNVE-------- 1849
Query: 315 CSRGGLGEQVAASG 328
+Q A+G
Sbjct: 1850 ------NQQYVAAG 1857
Score = 42.0 bits (98), Expect = 3e-04
Identities = 31/198 (15%), Positives = 56/198 (28%), Gaps = 73/198 (36%)
Query: 10 NNSLQSICYRRGSLQLLDQRKLPLETIY-------LEIRDSADGWSAIREMVVRGA-PAI 61
N S +R LL T + +E +A ++ +G PA
Sbjct: 1711 NEHSTSYTFR-SEKGLLSA------TQFTQPALTLMEK-------AAFEDLKSKGLIPAD 1756
Query: 62 AMAAALSL----AVEVFNLNAFSG--TAADAASFL---GNKLEYLVSS------------ 100
A A SL A L + + + + G ++ V
Sbjct: 1757 ATFAGHSLGEYAA-----LASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIA 1811
Query: 101 -RPTAVNLSDAAAKLKEIISKAAATASE----ANSVF----QAYIEAAEIMLKDDVATNK 151
P V S + L+ ++ + N + Q Y+ A ++ +
Sbjct: 1812 INPGRVAASFSQEALQYVVERVGKRTGWLVEIVN--YNVENQQYVAAGDL---------R 1860
Query: 152 AIGSYGASFLQNQLKNSK 169
A+ + N L K
Sbjct: 1861 AL-----DTVTNVLNFIK 1873
Score = 41.2 bits (96), Expect = 5e-04
Identities = 77/443 (17%), Positives = 131/443 (29%), Gaps = 143/443 (32%)
Query: 24 QLLDQRKLPLETIYLEIRDSADGWSAIREMVVRGAPAIAMAAALSLAVEVFNLNAFSGTA 83
+LL + L I++ + + + + A ++ + F G
Sbjct: 107 KLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAI--FGGQ- 163
Query: 84 ADAASFLGNKLEYL-------VSSRPTAVNL-SDAAAKLKEIISKAAATASEANSVFQAY 135
GN +Y + +L +A L E+ T +A VF
Sbjct: 164 -------GNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSEL----IRTTLDAEKVFTQG 212
Query: 136 IEAAEIM--LKDDVAT--NKAIGSYGASF-----LQ---------------NQLKNSKFS 171
+ I+ L++ T + S S +Q +L++
Sbjct: 213 LN---ILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSY-LK 268
Query: 172 VLTHCNTG---SLATAG-------YGTALGVIRALHSEGVLERAYCSETRPF-------- 213
T + G ++A A + + I L GV R C E P
Sbjct: 269 GATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGV--R--CYEAYPNTSLPPSIL 324
Query: 214 ------NQG--------SRLTAFELVHDRIPAT---LIADSAAAALMKDGRVSAVIVG-- 254
N+G S LT E V D + T L A + +G + V+ G
Sbjct: 325 EDSLENNEGVPSPMLSISNLT-QEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPP 383
Query: 255 ----------ADRVAANGDTANKIGTYS----------LALCAKFHNILFYVAAPLTSID 294
A +G ++I +S L + + FH+ L A+ L + D
Sbjct: 384 QSLYGLNLTLRKAKAPSGLDQSRI-PFSERKLKFSNRFLPVASPFHSHLLVPASDLINKD 442
Query: 295 LTLSSGQEIVIEERSAKELLCSRGGLGEQVAASGISVWNPAFD-----VTPANLITGI-- 347
L + +AK++ I V++ FD V ++ I
Sbjct: 443 L---VKNNVSF---NAKDI--------------QIPVYDT-FDGSDLRVLSGSISERIVD 481
Query: 348 -ITEKGVV-TKAGADDAFDIKDF 368
I V A I DF
Sbjct: 482 CIIRLPVKWETTTQFKATHILDF 504
Score = 35.8 bits (82), Expect = 0.027
Identities = 46/270 (17%), Positives = 74/270 (27%), Gaps = 91/270 (33%)
Query: 19 RRGSLQ-LLDQ--RKLPLE-TIYLEIRDSADGWSAIREMVVRGAPAIAMAAAL-SLAVEV 73
+ +Q +++ LP + + + + A + +VV G P +L L + +
Sbjct: 345 TQEQVQDYVNKTNSHLPAGKQVEISLVNGA------KNLVVSGPP-----QSLYGLNLTL 393
Query: 74 FNLNAFSGTAADAASFLGNKL----EYLVSSRPTAVNLSDAAAKLKEIISKAAATASEAN 129
A SG F KL +L + P
Sbjct: 394 RKAKAPSGLDQSRIPFSERKLKFSNRFLPVASP--------------------------- 426
Query: 130 SVF-QAYIEAAEIMLKDDVATNKAIGSYGASFLQNQLKNSKFSVLTHCNTGSLATAGYGT 188
F + A ++ D+ N SF + + V Y T
Sbjct: 427 --FHSHLLVPASDLINKDLVKN------NVSFNAKDI---QIPV-------------YDT 462
Query: 189 ALGV-IRALHSEGVLERAYCSETRPFNQGSRLTAFELVHDRIPATLIAD------SAAAA 241
G +R L C P +E AT I D S
Sbjct: 463 FDGSDLRVLSGSISERIVDCIIRLPVK-------WETTTQ-FKATHILDFGPGGASGLGV 514
Query: 242 LM---KDGR-VSAVIVGADRVAANGDTANK 267
L KDG V ++ G + + D K
Sbjct: 515 LTHRNKDGTGVRVIVAGTLDINPDDDYGFK 544
Score = 35.0 bits (80), Expect = 0.040
Identities = 38/211 (18%), Positives = 61/211 (28%), Gaps = 83/211 (39%)
Query: 10 NNSLQSICYRRGSLQ---LLDQRKLPLETIYLEIRDSA--------DGWSAIREMVVRGA 58
N +L+ G Q +RKL +L + ++ I + +V+
Sbjct: 390 NLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPV--ASPFHSHLLVPASDLINKDLVKNN 447
Query: 59 PAIAMAAALSLAVEVFNLNAFSGTAADAASFLGNKLEYLVSSRPTAVNLSDAAAKLKEII 118
+ A + + V++ + +D G+ E +V II
Sbjct: 448 VSF---NAKDIQIPVYD----TFDGSDLRVLSGSISERIV----------------DCII 484
Query: 119 SKA----AATASEANSV--FQAYIEAAEIMLKDDVATNKAIGSYGASFLQNQLKNSKFSV 172
T +A + F G GAS L V
Sbjct: 485 RLPVKWETTTQFKATHILDF---------------------GPGGASGL---------GV 514
Query: 173 LTHCNTGSLATAGYGTALGVIRALHSEGVLE 203
LTH N GT + VI A G L+
Sbjct: 515 LTHRNKD-------GTGVRVIVA----GTLD 534
>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 = 34.2 bits (77), Expect = 0.030
Identities = 13/61 (21%), Positives = 22/61 (36%), Gaps = 35/61 (57%)
Query: 14 QSICYRR--GSLQLLDQRKLPLETIYLEIRDSADGWSAIREMVVRGAPAIAMAAALSLAV 71
Q++ ++ SL+L Y + DSA PA+A+ A +
Sbjct: 20 QAL--KKLQASLKL-----------YAD--DSA--------------PALAIKA----TM 46
Query: 72 E 72
E
Sbjct: 47 E 47
>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 = 34.1 bits (77), Expect = 0.099
Identities = 34/240 (14%), Positives = 75/240 (31%), Gaps = 90/240 (37%)
Query: 4 DSVSTDNNSLQSICYRRGSLQLLDQRKLP----LETIYLEIRDSADGWSAIREMVV---- 55
D + +D + + ++ L++++ + +IYLE++ + A+ +V
Sbjct: 398 DVIKSDVMVVVNKLHKYS---LVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYN 454
Query: 56 --RGAP----------------------AIAMAAALSLAVEVFNLNAFSGTAADAASFLG 91
+ I ++L VF L+ F FL
Sbjct: 455 IPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVF-LD-FR--------FLE 504
Query: 92 NKLEYLVSSRPTAVNLSDAAAKLKEIISKAAATASEANSVFQAYIEAAEIMLKDDVATNK 151
K+ + ++ + ++ + +LK ++ YI +D +
Sbjct: 505 QKIRHDSTAWNASGSILNTLQQLK---------------FYKPYI------CDNDPKYER 543
Query: 152 AIGSYGASFLQN---QLKNSKFSVLTHCNTGSLATAGYGTALGVIRALHSE--GVLERAY 206
+ + FL L SK++ L AL +E + E A+
Sbjct: 544 LVNAIL-DFLPKIEENLICSKYTDLLR------------------IALMAEDEAIFEEAH 584
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 29.6 bits (66), Expect = 1.0
Identities = 8/36 (22%), Positives = 18/36 (50%), Gaps = 4/36 (11%)
Query: 304 VIEERSAKELLCSRGG--LGEQVAASGISVWNPAFD 337
++E S +++C+ G L +++ + S W F
Sbjct: 34 IVERFSEGDVVCALCGLVLSDKLVDTR-SEWR-TFS 67
>3k6m_A Succinyl-COA:3-ketoacid-coenzyme A transferase 1, mitochondrial;
SCOT, COA transferase, dynamic domain, glycerol,
mitochondri transferase; 1.50A {Sus scrofa} PDB: 1m3e_A*
1o9l_A 1ooy_A 2nrc_A 2nrb_A 3oxo_A* 1ooz_A 1ope_A 3dlx_A
Length = 481
Score = 29.3 bits (66), Expect = 2.2
Identities = 12/39 (30%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 229 IPATLIADSAAA-ALMKDGRVSAVIVGADRVAANGDTAN 266
+P S + A+++ G V+ ++GA +V+ GD AN
Sbjct: 335 LPGASYFSSDESFAMIRGGHVNLTMLGAMQVSKYGDLAN 373
>2p9m_A Hypothetical protein MJ0922; structural genomics, collaboratory for
structural genomics, secsg; 2.59A {Methanocaldococcus
jannaschii dsm 2661ORGANISM_TAXID}
Length = 138
Score = 26.8 bits (60), Expect = 6.8
Identities = 7/43 (16%), Positives = 14/43 (32%), Gaps = 4/43 (9%)
Query: 109 DAAAKLKEIISKAAATASEANSVFQAYIEAAEIMLKDDVATNK 151
+ ++++K T E S+ EA + M
Sbjct: 70 TLETTIGDVMTKDVITIHEDASIL----EAIKKMDISGKKEEI 108
>3fio_A A cystathionine beta-synthase domain protein fused to A
Zn-ribbon-like domain; PF1953,APC40009,cystathionine
beta-synthase domain protein; 1.81A {Pyrococcus
furiosus} PDB: 3ghd_A
Length = 70
Score = 25.6 bits (57), Expect = 7.4
Identities = 3/24 (12%), Positives = 9/24 (37%), Gaps = 2/24 (8%)
Query: 230 PATLIADSAAAALMKDGRVSAVIV 253
P + A ++ + + +V
Sbjct: 7 PKDTVDR--VAKILSRNKAGSAVV 28
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 0.129 0.355
Gapped
Lambda K H
0.267 0.0782 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,521,522
Number of extensions: 348735
Number of successful extensions: 1067
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1016
Number of HSP's successfully gapped: 36
Length of query: 373
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 278
Effective length of database: 4,049,298
Effective search space: 1125704844
Effective search space used: 1125704844
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 (26.0 bits)