RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8894
(306 letters)
>2fp4_A Succinyl-COA ligase [GDP-forming] alpha-chain, mitochondrial;
active site phosphohistidine residue; HET: NEP GTP;
2.08A {Sus scrofa} SCOP: c.2.1.8 c.23.4.1 PDB: 2fpg_A*
2fpi_A* 2fpp_A* 1euc_A* 1eud_A*
Length = 305
Score = 545 bits (1406), Expect = 0.0
Identities = 216/303 (71%), Positives = 257/303 (84%), Gaps = 15/303 (4%)
Query: 18 YAATRPNLRLTSKSKVICQGFTGKQGTFHSKQAIEYGTKVVGGVSPGKGGKTHLDLPVFN 77
Y A+R +L + +KVICQGFTGKQGTFHS+QA+EYGT +VGG +PGKGGKTHL LPVFN
Sbjct: 2 YTASRKHLYVDKNTKVICQGFTGKQGTFHSQQALEYGTNLVGGTTPGKGGKTHLGLPVFN 61
Query: 78 TVKEARDATGAEATVIYVPPPGAAKAIHEALDAEMPLIVCITEGIPQLDMVKVKHRLIRQ 137
TVKEA++ TGA A+VIYVPPP AA AI+EA+DAE+PL+VCITEGIPQ DMV+VKHRL+RQ
Sbjct: 62 TVKEAKEQTGATASVIYVPPPFAAAAINEAIDAEVPLVVCITEGIPQQDMVRVKHRLLRQ 121
Query: 138 SKSRLIGPNCPGIIAPEQCKIGIMPGHIHQRGCVGVVSRSGTLTYEAVHQTTQVGLGQTL 197
K+RLIGPNCPG+I P +CKIGIMPGHIH++G +G+VSRSGTLTYEAVHQTTQVGLGQ+L
Sbjct: 122 GKTRLIGPNCPGVINPGECKIGIMPGHIHKKGRIGIVSRSGTLTYEAVHQTTQVGLGQSL 181
Query: 198 CVGIGGDPFNGTNFIDCLEVFLKDPETKGIILIGEIGG---------------GPNAKPV 242
CVGIGGDPFNGT+F DCLE+FL DP T+GIILIGEIGG GP +KPV
Sbjct: 182 CVGIGGDPFNGTDFTDCLEIFLNDPATEGIILIGEIGGNAEENAAEFLKQHNSGPKSKPV 241
Query: 243 VSFIAGITAPPGRRMGHAGAIISGGKGGAQDKIDALEKAGVIVTRSPAQMGNELLKEMKR 302
VSFIAG+TAPPGRRMGHAGAII+GGKGGA++KI AL+ AGV+V+ SPAQ+G + KE ++
Sbjct: 242 VSFIAGLTAPPGRRMGHAGAIIAGGKGGAKEKITALQSAGVVVSMSPAQLGTTIYKEFEK 301
Query: 303 LNL 305
+
Sbjct: 302 RKM 304
>2yv2_A Succinyl-COA synthetase alpha chain; COA-binding domain, ligase,
structural genomics, NPPSFA; 2.20A {Aeropyrum pernix}
Length = 297
Score = 522 bits (1346), Expect = 0.0
Identities = 137/289 (47%), Positives = 196/289 (67%), Gaps = 14/289 (4%)
Query: 27 LTSKSKVICQGFTGKQGTFHSKQAIEYGTKVVGGVSPGKGGKTHLDLPVFNTVKEA-RDA 85
+ S+++V+ QG TG++G+FH+K +EYGTKVV GV+PGKGG +PV+++VKEA +
Sbjct: 10 VDSETRVLVQGITGREGSFHAKAMLEYGTKVVAGVTPGKGGSEVHGVPVYDSVKEALAEH 69
Query: 86 TGAEATVIYVPPPGAAKAIHEALDAEMPLIVCITEGIPQLDMVKVKHRLIRQSKSRLIGP 145
++++VP P A A++EA+DA + L+V ITEGIP D ++ + RQ + +IGP
Sbjct: 70 PEINTSIVFVPAPFAPDAVYEAVDAGIRLVVVITEGIPVHDTMRFVNYA-RQKGATIIGP 128
Query: 146 NCPGIIAPEQCKIGIMPGHIHQRGCVGVVSRSGTLTYEAVHQTTQVGLGQTLCVGIGGDP 205
NCPG I P Q K+GIMPGHI + G V VVSRSGTLTYE + T+ G+GQ+ +GIGGDP
Sbjct: 129 NCPGAITPGQAKVGIMPGHIFKEGGVAVVSRSGTLTYEISYMLTRQGIGQSTVIGIGGDP 188
Query: 206 FNGTNFIDCLEVFLKDPETKGIILIGEIGG------------GPNAKPVVSFIAGITAPP 253
G +F + L++F +DP+T+ ++LIGEIGG G KPV+++IAG TAPP
Sbjct: 189 IVGLSFTEALKLFQEDPQTEALVLIGEIGGDMEERAAEMIKKGEFTKPVIAYIAGRTAPP 248
Query: 254 GRRMGHAGAIISGGKGGAQDKIDALEKAGVIVTRSPAQMGNELLKEMKR 302
+RMGHAGAII G G + K+ AL +AGV V +P ++ + K ++R
Sbjct: 249 EKRMGHAGAIIMMGTGTYEGKVKALREAGVEVAETPFEVPELVRKALRR 297
>2nu8_A Succinyl-COA ligase [ADP-forming] subunit alpha; citric acid cycle,
heterotetramer, ligase, ATP-grAsp fold, R fold; HET:
COA; 2.15A {Escherichia coli} SCOP: c.2.1.8 c.23.4.1
PDB: 2nu9_A* 2nu7_A* 2nua_A* 2nu6_A* 2scu_A* 1jll_A*
1scu_A* 1jkj_A* 1cqj_A* 1cqi_A*
Length = 288
Score = 521 bits (1344), Expect = 0.0
Identities = 178/286 (62%), Positives = 212/286 (74%), Gaps = 12/286 (4%)
Query: 27 LTSKSKVICQGFTGKQGTFHSKQAIEYGTKVVGGVSPGKGGKTHLDLPVFNTVKEARDAT 86
+ +KVICQGFTG QGTFHS+QAI YGTK+VGGV+PGKGG THL LPVFNTV+EA AT
Sbjct: 4 IDKNTKVICQGFTGSQGTFHSEQAIAYGTKMVGGVTPGKGGTTHLGLPVFNTVREAVAAT 63
Query: 87 GAEATVIYVPPPGAAKAIHEALDAEMPLIVCITEGIPQLDMVKVKHRLIRQSKSRLIGPN 146
GA A+VIYVP P +I EA+DA + LI+ ITEGIP LDM+ VK +L ++ R+IGPN
Sbjct: 64 GATASVIYVPAPFCKDSILEAIDAGIKLIITITEGIPTLDMLTVKVKL-DEAGVRMIGPN 122
Query: 147 CPGIIAPEQCKIGIMPGHIHQRGCVGVVSRSGTLTYEAVHQTTQVGLGQTLCVGIGGDPF 206
PG+I P +CKIGI PGHIH+ G VG+VSRSGTLTYEAV QTT G GQ+ CVGIGGDP
Sbjct: 123 TPGVITPGECKIGIQPGHIHKPGKVGIVSRSGTLTYEAVKQTTDYGFGQSTCVGIGGDPI 182
Query: 207 NGTNFIDCLEVFLKDPETKGIILIGEIGGGP-----------NAKPVVSFIAGITAPPGR 255
G+NFID LE+F KDP+T+ I++IGEIGG KPVV +IAG+TAP G+
Sbjct: 183 PGSNFIDILEMFEKDPQTEAIVMIGEIGGSAEEEAAAYIKEHVTKPVVGYIAGVTAPKGK 242
Query: 256 RMGHAGAIISGGKGGAQDKIDALEKAGVIVTRSPAQMGNELLKEMK 301
RMGHAGAII+GGKG A +K ALE AGV RS A +G L +K
Sbjct: 243 RMGHAGAIIAGGKGTADEKFAALEAAGVKTVRSLADIGEALKTVLK 288
>2yv1_A Succinyl-COA ligase [ADP-forming] subunit alpha; COA-binding
domain, structural genomics, NPPSFA; 1.70A
{Methanocaldococcus jannaschii}
Length = 294
Score = 520 bits (1342), Expect = 0.0
Identities = 137/292 (46%), Positives = 189/292 (64%), Gaps = 11/292 (3%)
Query: 21 TRPNLRLTSKSKVICQGFTGKQGTFHSKQAIEYGTKVVGGVSPGKGGKTHLDLPVFNTVK 80
+ L +K I QG TG+QG+FH+K+ +E GTK+VGGV+PGKGG+ +PVF+TVK
Sbjct: 4 RDKMILLDENTKAIVQGITGRQGSFHTKKMLECGTKIVGGVTPGKGGQNVHGVPVFDTVK 63
Query: 81 EARDATGAEATVIYVPPPGAAKAIHEALDAEMPLIVCITEGIPQLDMVKVKHRLIRQSKS 140
EA T A A+VI+VP P A A+ EA+DA + LIV ITE IP D ++ +
Sbjct: 64 EAVKETDANASVIFVPAPFAKDAVFEAIDAGIELIVVITEHIPVHDTMEFVNYA-EDVGV 122
Query: 141 RLIGPNCPGIIAPEQCKIGIMPGHIHQRGCVGVVSRSGTLTYEAVHQTTQVGLGQTLCVG 200
++IGPN PGI +P+ K+GI+P + + G VG+VSRSGTLTYE HQ + G G + CVG
Sbjct: 123 KIIGPNTPGIASPKVGKLGIIPMEVLKEGSVGMVSRSGTLTYEIAHQIKKAGFGVSTCVG 182
Query: 201 IGGDPFNGTNFIDCLEVFLKDPETKGIILIGEIGGG----------PNAKPVVSFIAGIT 250
IGGDP G + + L++F KD ET+ I++IGEIGGG KPV+ +IAG +
Sbjct: 183 IGGDPIVGLRYKEVLDLFEKDDETEAIVMIGEIGGGAEEEAAKFIEKMKKPVIGYIAGQS 242
Query: 251 APPGRRMGHAGAIISGGKGGAQDKIDALEKAGVIVTRSPAQMGNELLKEMKR 302
AP G+RMGHAGAI+ GKG A+ K+ ALE+AG V ++ + + L + +
Sbjct: 243 APEGKRMGHAGAIVEKGKGTAESKMKALEEAGAYVAKNISDIPKLLAGILGK 294
>1oi7_A Succinyl-COA synthetase alpha chain; SCS, ligase, riken structural
genomics/proteomics initiative, RSGI, structural
genomics; 1.23A {Thermus thermophilus} SCOP: c.2.1.8
c.23.4.1
Length = 288
Score = 515 bits (1328), Expect = 0.0
Identities = 145/282 (51%), Positives = 189/282 (67%), Gaps = 12/282 (4%)
Query: 30 KSKVICQGFTGKQGTFHSKQAIEYGTKVVGGVSPGKGGKTHLDLPVFNTVKEARDATGAE 89
+++V+ QG TG++G FH+KQ + YGTK+V GV+PGKGG L +PV++TVKEA +
Sbjct: 7 ETRVLVQGITGREGQFHTKQMLTYGTKIVAGVTPGKGGMEVLGVPVYDTVKEAVAHHEVD 66
Query: 90 ATVIYVPPPGAAKAIHEALDAEMPLIVCITEGIPQLDMVKVKHRLIRQSKSRLIGPNCPG 149
A++I+VP P AA A EA A +PLIV ITEGIP LDMV+ + + SRLIG NCPG
Sbjct: 67 ASIIFVPAPAAADAALEAAHAGIPLIVLITEGIPTLDMVRAVEEI-KALGSRLIGGNCPG 125
Query: 150 IIAPEQCKIGIMPGHIHQRGCVGVVSRSGTLTYEAVHQTTQVGLGQTLCVGIGGDPFNGT 209
II+ E+ KIGIMPGH+ +RG VG++SRSGTLTYEA +Q GLG T VGIGGDP GT
Sbjct: 126 IISAEETKIGIMPGHVFKRGRVGIISRSGTLTYEAAAALSQAGLGTTTTVGIGGDPVIGT 185
Query: 210 NFIDCLEVFLKDPETKGIILIGEIGG-----------GPNAKPVVSFIAGITAPPGRRMG 258
F D L +F +DPET+ ++LIGEIGG KPVV FI G +AP G+RMG
Sbjct: 186 TFKDLLPLFNEDPETEAVVLIGEIGGSDEEEAAAWVKDHMKKPVVGFIGGRSAPKGKRMG 245
Query: 259 HAGAIISGGKGGAQDKIDALEKAGVIVTRSPAQMGNELLKEM 300
HAGAII G G + K+ A +AG+ V + ++ + K +
Sbjct: 246 HAGAIIMGNVGTPESKLRAFAEAGIPVADTIDEIVELVKKAL 287
>3mwd_B ATP-citrate synthase; ATP-grAsp, phosphohistidine, organic acid,
lyase, transferas; HET: CIT; 2.10A {Homo sapiens} PDB:
3mwe_B*
Length = 334
Score = 436 bits (1124), Expect = e-155
Identities = 84/313 (26%), Positives = 130/313 (41%), Gaps = 37/313 (11%)
Query: 27 LTSKSKVICQGFTGK--QGTFHSKQAIEY-GTKVVGGVSPGKG--------GKTHLDLPV 75
+ +K I G + QG V V P G G + +PV
Sbjct: 7 FSRHTKAIVWGMQTRAVQGMLDFDYVCSRDEPSVAAMVYPFTGDHKQKFYWGHKEILIPV 66
Query: 76 FNTVKEA-RDATGAEATVIYVPPPGAAKAIHEALD-AEMPLIVCITEGIPQLDMVKVKHR 133
F + +A R + + + A + E ++ A++ I I EGIP+ K+ +
Sbjct: 67 FKNMADAMRKHPEVDVLINFASLRSAYDSTMETMNYAQIRTIAIIAEGIPEALTRKLIKK 126
Query: 134 LIRQSKSRLIGPNCPGIIAPEQCKIG--------IMPGHIHQRGCVGVVSRSGTLTYEAV 185
Q +IGP G I P KIG I+ +++ G V VSRSG ++ E
Sbjct: 127 A-DQKGVTIIGPATVGGIKPGCFKIGNTGGMLDNILASKLYRPGSVAYVSRSGGMSNELN 185
Query: 186 HQTTQVGLGQTLCVGIGGDPFNGTNFIDCLEVFLKDPETKGIILIGEIGG---------- 235
+ ++ G V IGGD + G+ F+D + + P K I+++GEIGG
Sbjct: 186 NIISRTTDGVYEGVAIGGDRYPGSTFMDHVLRYQDTPGVKMIVVLGEIGGTEEYKICRGI 245
Query: 236 --GPNAKPVVSFIAGITA---PPGRRMGHAGAIISGGKGGAQDKIDALEKAGVIVTRSPA 290
G KP+V + G A + GHAGA + A K AL++AGV V RS
Sbjct: 246 KEGRLTKPIVCWCIGTCATMFSSEVQFGHAGACANQASETAVAKNQALKEAGVFVPRSFD 305
Query: 291 QMGNELLKEMKRL 303
++G + + L
Sbjct: 306 ELGEIIQSVYEDL 318
>3pff_A ATP-citrate synthase; phosphohistidine, organic acid, ATP-grAsp,
lyase, transferas; HET: TLA ADP; 2.30A {Homo sapiens}
Length = 829
Score = 421 bits (1084), Expect = e-143
Identities = 83/322 (25%), Positives = 130/322 (40%), Gaps = 37/322 (11%)
Query: 18 YAATRPNLRLTSKSKVICQGFTGK--QGTFHSKQAIEY-GTKVVGGVSPGKGGKT----- 69
+ + +K I G + QG V V P G
Sbjct: 484 SLQGKSTTLFSRHTKAIVWGMQTRAVQGMLDFDYVCSRDEPSVAAMVYPFTGDHKQKFYW 543
Query: 70 ---HLDLPVFNTVKEA-RDATGAEATVIYVPPPGAAKAIHEALD-AEMPLIVCITEGIPQ 124
+ +PVF + +A R + + + A + E ++ A++ I I EGIP+
Sbjct: 544 GHKEILIPVFKNMADAMRKHPEVDVLINFASLRSAYDSTMETMNYAQIRTIAIIAEGIPE 603
Query: 125 LDMVKVKHRLIRQSKSRLIGPNCPGIIAPEQCKIG--------IMPGHIHQRGCVGVVSR 176
K+ + Q +IGP G I P KIG I+ +++ G V VSR
Sbjct: 604 ALTRKLIKKA-DQKGVTIIGPATVGGIKPGCFKIGNTGGMLDNILASKLYRPGSVAYVSR 662
Query: 177 SGTLTYEAVHQTTQVGLGQTLCVGIGGDPFNGTNFIDCLEVFLKDPETKGIILIGEIGG- 235
SG ++ E + ++ G V IGGD + G+ F+D + + P K I+++GEIGG
Sbjct: 663 SGGMSNELNNIISRTTDGVYEGVAIGGDRYPGSTFMDHVLRYQDTPGVKMIVVLGEIGGT 722
Query: 236 -----------GPNAKPVVSFIAGITA---PPGRRMGHAGAIISGGKGGAQDKIDALEKA 281
G KP+V + G A + GHAGA + A K AL++A
Sbjct: 723 EEYKICRGIKEGRLTKPIVCWCIGTCATMFSSEVQFGHAGACANQASETAVAKNQALKEA 782
Query: 282 GVIVTRSPAQMGNELLKEMKRL 303
GV V RS ++G + + L
Sbjct: 783 GVFVPRSFDELGEIIQSVYEDL 804
>3dmy_A Protein FDRA; predicted actyl-COA synthetase, nysgrc, PSI-II, STRU
genomics, protein structure initiative; 2.07A
{Escherichia coli}
Length = 480
Score = 310 bits (795), Expect = e-103
Identities = 53/277 (19%), Positives = 101/277 (36%), Gaps = 32/277 (11%)
Query: 49 QAIEYGTKVVGGVSPGKGGKTHLD-LPVFNTVKEARDATGAEATVIYVPPPGAAKAIHEA 107
Q +E K ++ G G L + +++ + A +I V AA+ ++A
Sbjct: 2 QQLEEALK---QLAQGSGSSQALTQVRRWDSACQK--LPDANLALISVAGEYAAELANQA 56
Query: 108 LDAEMPLIVCITEGIPQLDMVKVKHRLIRQSKSRLIGPNCPGIIAPEQCKIGIMPGHIHQ 167
LD + ++ ++ + D +++K R R+ ++GP+C + + ++
Sbjct: 57 LDRNLN-VMMFSDNVTLEDEIQLKTRA-REKGLLVMGPDCGTSMIA---GTPLAFANVMP 111
Query: 168 RGCVGVVSRSGTLTYEAVHQTTQVGLGQTLCVGIGG----DPFNGTNFIDCLEVFLKDPE 223
G +GV+ SGT E Q G G T +G+GG G + + LE+ D +
Sbjct: 112 EGNIGVIGASGTGIQELCSQIALAGEGITHAIGLGGRDLSREVGGISALTALEMLSADEK 171
Query: 224 TKGIILIGEIGG-----------GPNAKPVVSFIAGITAPPGRRMG--HAGAIISGG-KG 269
++ + + + KP V+ G T R A ++
Sbjct: 172 SEVLAFVSKPPAEAVRLKIVNAMKATGKPTVALFLGYTPAVARDENVWFASSLDEAARLA 231
Query: 270 GAQDKIDALEKAGVIVTRSPAQM---GNELLKEMKRL 303
++ A A V+ G L E L
Sbjct: 232 CLLSRVTARRNAIAPVSSGFICGLYTGGTLAAEAAGL 268
Score = 32.1 bits (73), Expect = 0.21
Identities = 20/89 (22%), Positives = 32/89 (35%), Gaps = 7/89 (7%)
Query: 212 IDCLEVFLKDPETKGIILIGEIGGGPNAKPVVSFIAGIT-APPGRRMGHAGAIISGGKGG 270
+ P+ + ++L IG G A P S ++ A R I+ G
Sbjct: 317 NQLIADLGAKPQVRVLLLDVVIGFGATADPAASLVSAWQKACAARLDNQPLYAIATVTGT 376
Query: 271 AQD------KIDALEKAGVIVTRSPAQMG 293
+D +I LE AG+ V S +
Sbjct: 377 ERDPQCRSQQIATLEDAGIAVVSSLPEAT 405
>2csu_A 457AA long hypothetical protein; structural genomics, PH0766, riken
ST genomics/proteomics initiative, RSGI, NPPSFA; 2.20A
{Pyrococcus horikoshii} SCOP: c.2.1.8 c.23.4.1 c.23.4.1
Length = 457
Score = 73.0 bits (180), Expect = 9e-15
Identities = 49/225 (21%), Positives = 92/225 (40%), Gaps = 38/225 (16%)
Query: 92 VIYVPPPGAAKAIHEALDAEMPLIVCIT--------EGIPQLDMVKVKHRLIRQSKSRLI 143
+I VP + + + + +V IT EG + + + + R+I
Sbjct: 69 IIVVPKRFVKDTLIQCGEKGVKGVVIITAGFGETGEEGKREEKELV---EIAHKYGMRII 125
Query: 144 GPNCPGIIAPEQCKIGIMPGHIHQRGCVGVVSRSGTLTYEAVHQTTQVGLGQTLCVGIGG 203
GPNC GI+ + + ++G V +S+SG L V++T + +G + + +G
Sbjct: 126 GPNCVGIMNTHV-DLNATFITVAKKGNVAFISQSGALGAGIVYKTIKEDIGFSKFISVG- 183
Query: 204 DPFNGT--NFIDCLEVFLKDPETKGIILIGE-IGGGPN----------AKPVVSFIAGIT 250
N +F + +E E K I L E + G KP+++ AG +
Sbjct: 184 ---NMADVDFAELMEYLADTEEDKAIALYIEGVRNGKKFMEVAKRVTKKKPIIALKAGKS 240
Query: 251 APPGRR--MGHAGAIISGGKGGAQDKIDA-LEKAGVIVTRSPAQM 292
G R H G++ G+ +A +++GV+V + +M
Sbjct: 241 E-SGARAASSHTGSLA-----GSWKIYEAAFKQSGVLVANTIDEM 279
Score = 31.4 bits (72), Expect = 0.37
Identities = 12/81 (14%), Positives = 23/81 (28%)
Query: 211 FIDCLEVFLKDPETKGIILIGEIGGGPNAKPVVSFIAGITAPPGRRMGHAGAIISGGKGG 270
+ ++ L+DP +I I + I A +
Sbjct: 356 YYRTAKLLLQDPNVDMLIAICVVPTFAGMTLTEHAEGIIRAVKEVNNEKPVLAMFMAGYV 415
Query: 271 AQDKIDALEKAGVIVTRSPAQ 291
++ + LEK G+ P
Sbjct: 416 SEKAKELLEKNGIPTYERPED 436
>2duw_A Putative COA-binding protein; ligand binding protein; NMR
{Klebsiella pneumoniae}
Length = 145
Score = 39.3 bits (92), Expect = 3e-04
Identities = 20/103 (19%), Positives = 38/103 (36%), Gaps = 8/103 (7%)
Query: 51 IEYGTKVVGGVSPGKGGKTHLDLPVFNTVKEARDATGAEATVIYVPPPGAAKAIHEALDA 110
++ G V+ VSP GKT L + T+ + + + ++ A EA+
Sbjct: 37 LDQGYHVIP-VSPKVAGKTLLGQQGYATLADVPEKV--DMVDVFRNSEAAWGVAQEAIAI 93
Query: 111 EMPLIVCITEGIPQLDMVKVKHRLIRQSKSRLIGPNCPGIIAP 153
+ + G+ L R++ ++ CP I P
Sbjct: 94 GAKTLW-LQLGVINEQAAV----LAREAGLSVVMDRCPAIELP 131
>1y81_A Conserved hypothetical protein; hyperthermophIle, structural
genomics, PSI, protein structure initiative; HET: COA;
1.70A {Pyrococcus furiosus} SCOP: c.2.1.8
Length = 138
Score = 33.0 bits (76), Expect = 0.042
Identities = 16/105 (15%), Positives = 36/105 (34%), Gaps = 10/105 (9%)
Query: 51 IEYGTKVVGGVSPGKGGKTHLDLPVFNTVKEARDATGAEATVIYVPPPGAAKAIHEALDA 110
+ G +V+ V+P L + +V+E + V VPP + EA++A
Sbjct: 38 LSKGFEVLP-VNPN--YDEIEGLKCYRSVRELPKDV--DVIVFVVPPKVGLQVAKEAVEA 92
Query: 111 EMPLIVCITEGIPQLDMVKVKHRLIRQSKSRLIGPNCPGIIAPEQ 155
+ G ++ + + ++ C + +
Sbjct: 93 GFKKLWFQP-GAESEEIRR----FLEKAGVEYSFGRCIMVETSNK 132
>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 = 34.5 bits (79), Expect = 0.046
Identities = 18/47 (38%), Positives = 23/47 (48%), Gaps = 8/47 (17%)
Query: 260 AGAIISG---GKG--GAQDKI-DALEKAGVIVTRSPAQMGNELLKEM 300
GAII G G G A + I + +EK GV T S +M LL +
Sbjct: 666 CGAII-GWTRGTGLMSANNIIAEGIEKMGVR-TFSQKEMAFNLLGLL 710
>3rxy_A NIF3 protein; structural genomics, PSI-biology, midwest center for
structu genomics, MCSG, NIF3 superfamily, unknown
function; 2.00A {Sphaerobacter thermophilus}
Length = 278
Score = 33.2 bits (75), Expect = 0.091
Identities = 12/76 (15%), Positives = 17/76 (22%), Gaps = 1/76 (1%)
Query: 208 GTNFIDCLEVFLKDPETKGIILIGEIGGGPNAKPVVSFIAGITAPPGRRMGHAGAIISGG 267
I L D I + P + I + +G + G
Sbjct: 147 MVKTIQEAVEPLGDEARVQDA-IDALMTLPEFAGAATRIMVPVGAVDQPLGKIAVVHGAG 205
Query: 268 KGGAQDKIDALEKAGV 283
G A GV
Sbjct: 206 TNGGYAVARAYFDHGV 221
>3u5c_H RP30, RP40, 40S ribosomal protein S7-A; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3u5g_H
Length = 190
Score = 31.1 bits (70), Expect = 0.33
Identities = 13/47 (27%), Positives = 20/47 (42%), Gaps = 2/47 (4%)
Query: 68 KTHLDLPVFNTVKEARDATGAEATVIYVPPP--GAAKAIHEALDAEM 112
K L F +++E A G +A I+VP P + L E+
Sbjct: 35 KAELRPLQFKSIREIDVAGGKKALAIFVPVPSLAGFHKVQTKLTREL 81
>2vt3_A REX, redox-sensing transcriptional repressor REX; transcriptional
regulation, redox poise; HET: ATP; 2.0A {Bacillus
subtilis} PDB: 2vt2_A*
Length = 215
Score = 31.0 bits (70), Expect = 0.35
Identities = 21/109 (19%), Positives = 36/109 (33%), Gaps = 5/109 (4%)
Query: 15 EEIYAATRPNLRLTSKSKVICQGFTGKQGT--FHSKQAIEYGTKVVGG--VSPGKGGKTH 70
+ + + R L + VI G G GT H TK+ ++ K G
Sbjct: 70 DYLLSFFRKTLDQDEMTDVILIG-VGNLGTAFLHYNFTKNNNTKISMAFDINESKIGTEV 128
Query: 71 LDLPVFNTVKEARDATGAEATVIYVPPPGAAKAIHEALDAEMPLIVCIT 119
+PV+N + ++ VP A + + I+ T
Sbjct: 129 GGVPVYNLDDLEQHVKDESVAILTVPAVAAQSITDRLVALGIKGILNFT 177
>1iuk_A Hypothetical protein TT1466; structural genomics, riken structural
genomics/proteomics initiative, RSGI, unknown function;
1.70A {Thermus thermophilus} SCOP: c.2.1.8 PDB: 1iul_A
Length = 140
Score = 30.3 bits (68), Expect = 0.38
Identities = 15/112 (13%), Positives = 41/112 (36%), Gaps = 8/112 (7%)
Query: 39 TGKQGTFHSKQAIEYGTKVVGGVSPGKGGKTHLDLPVFNTVKEARDATGAEATVIYVPPP 98
+ + + E G +V+ V+P G+ ++ + ++ + ++ PP
Sbjct: 25 PSRPAHYVPRYLREQGYRVLP-VNPRFQGEELFGEEAVASLLDLKEPV--DILDVFRPPS 81
Query: 99 GAAKAIHEALDAEMPLIVCITEGIPQLDMVKVKHRLIRQSKSRLIGPNCPGI 150
+ E L L+ + GI + K ++++ ++ C +
Sbjct: 82 ALMDHLPEVLALRPGLVW-LQSGIRHPEFEK----ALKEAGIPVVADRCLMV 128
>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 = 30.4 bits (68), Expect = 1.0
Identities = 27/163 (16%), Positives = 47/163 (28%), Gaps = 56/163 (34%)
Query: 45 FHS---KQAIEYGTKVVGGVSPGK---GGKTHLDLPVFNTVKEARDATGAEATVIYVPPP 98
FHS A + + + K + +PV++T G++
Sbjct: 427 FHSHLLVPASD---LINKDLVKNNVSFNAK-DIQIPVYDT------FDGSDL-------- 468
Query: 99 GAAKAIHEALDAEMP--LIVCITEGI---PQLDMVKVKHRLIRQSKSRLIGPNCPGIIAP 153
L + ++ CI K H L G PG +
Sbjct: 469 -------RVLSGSISERIVDCIIRLPVKWETTTQFKATHIL-------DFG---PGGAS- 510
Query: 154 EQCKIGIMPGHIHQ-RGCVGVVSRSGTLTYEAVHQTTQVGLGQ 195
+G++ G V V+ +GTL ++ G Q
Sbjct: 511 ---GLGVLTHRNKDGTG-VRVIV-AGTLD---INPDDDYGFKQ 545
Score = 27.3 bits (60), Expect = 7.4
Identities = 11/35 (31%), Positives = 15/35 (42%), Gaps = 8/35 (22%)
Query: 26 RLTSKSKVICQGFTGKQ----GTFHSKQAIEYGTK 56
LT ++K G TG + GT +YG K
Sbjct: 514 VLTHRNK---DG-TGVRVIVAGTLDINPDDDYGFK 544
>2dwc_A PH0318, 433AA long hypothetical phosphoribosylglycinamide
transferase; purine ribonucleotide biosynthesis; HET:
ADP; 1.70A {Pyrococcus horikoshii} PDB: 2czg_A*
Length = 433
Score = 29.9 bits (68), Expect = 1.1
Identities = 14/54 (25%), Positives = 17/54 (31%), Gaps = 13/54 (24%)
Query: 253 PGRRMGHAGAIISGGKGGAQDKIDALEKAG------VIVTRSPAQMGNELLKEM 300
GRR+G A A +D A KA + TRS K
Sbjct: 383 VGRRLGIALAW-------DKDVEVAKRKAEMVAHMIELRTRSSDWHDQNYEKRK 429
>2d59_A Hypothetical protein PH1109; COA binding, structural genomics;
1.65A {Pyrococcus horikoshii} SCOP: c.2.1.8 PDB: 2d5a_A*
2e6u_X* 3qa9_A 3q9n_A* 3q9u_A*
Length = 144
Score = 28.5 bits (64), Expect = 1.8
Identities = 14/100 (14%), Positives = 34/100 (34%), Gaps = 10/100 (10%)
Query: 51 IEYGTKVVGGVSPGKGGKTHLDLPVFNTVKEARDATGAEATVIYVPPPGAAKAIHEALDA 110
+E+G V V+P + L + +V + D E ++V P + + +A+
Sbjct: 46 LEHGYDVYP-VNPK--YEEVLGRKCYPSVLDIPDK--IEVVDLFVKPKLTMEYVEQAIKK 100
Query: 111 EMPLIVCITEGIPQLDMVKVKHRLIRQSKSRLIGPNCPGI 150
++ + K ++ ++ C
Sbjct: 101 GAKVVWFQY-NTYNREASK----KADEAGLIIVANRCMMR 135
>1kjq_A GART 2, phosphoribosylglycinamide formyltransferase 2, 5'-;
ATP-grAsp, purine biosynthesis, nucleotide; HET: ADP
MPO; 1.05A {Escherichia coli} SCOP: b.84.2.1 c.30.1.1
d.142.1.2 PDB: 1kj9_A* 1kji_A* 1kjj_A* 1kj8_A* 1eyz_A*
1ez1_A*
Length = 391
Score = 28.3 bits (64), Expect = 3.1
Identities = 10/29 (34%), Positives = 15/29 (51%), Gaps = 7/29 (24%)
Query: 253 PGRRMGHAGAIISGGKGGAQDKIDALEKA 281
RR+G A A A+ +DA+E+A
Sbjct: 359 GSRRLGVALAT-------AESVVDAIERA 380
>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 = 26.8 bits (58), Expect = 6.1
Identities = 6/34 (17%), Positives = 14/34 (41%), Gaps = 7/34 (20%)
Query: 77 NTVKEARDATGAEATV-IYVPPPGAAKAIHEALD 109
+K+ +A++ +Y A AI ++
Sbjct: 20 QALKKL------QASLKLYADDSAPALAIKATME 47
>3bf0_A Protease 4; bacterial, hydrolase, inner membrane, membrane,
transmembrane; 2.55A {Escherichia coli} PDB: 3bez_A
Length = 593
Score = 27.2 bits (60), Expect = 8.8
Identities = 16/69 (23%), Positives = 22/69 (31%), Gaps = 16/69 (23%)
Query: 202 GGDPFNGTNFIDCLEVFLKDPETKGIIL-IGEIGGGPNA---------------KPVVSF 245
G + DP+ K I+L + GG A KPVV
Sbjct: 318 TQGNVGGDTTAAQIRDARLDPKVKAIVLRVNSPGGSVTASEVIRAELAAARAAGKPVVVS 377
Query: 246 IAGITAPPG 254
+ G+ A G
Sbjct: 378 MGGMAASGG 386
Score = 26.8 bits (59), Expect = 9.6
Identities = 12/97 (12%), Positives = 27/97 (27%), Gaps = 21/97 (21%)
Query: 169 GCVGVVSRSGTLTYEAVHQTTQVGLGQTLCVGIGGDPFNGTNF---IDCLEVFLKDPETK 225
++ SG + + + + +G D + ++ + D
Sbjct: 31 RGALLLDISGVIV-DKPDSSQRFSKLSRQLLGASSDRLQENSLFDIVNTIRQAKDDRNIT 89
Query: 226 GIIL-IGEIGGGPNA----------------KPVVSF 245
GI++ + GG KPV +
Sbjct: 90 GIVMDLKNFAGGDQPSMQYIGKALKEFRDSGKPVYAV 126
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 0.138 0.410
Gapped
Lambda K H
0.267 0.0650 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,887,215
Number of extensions: 321727
Number of successful extensions: 940
Number of sequences better than 10.0: 1
Number of HSP's gapped: 900
Number of HSP's successfully gapped: 42
Length of query: 306
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 213
Effective length of database: 4,105,140
Effective search space: 874394820
Effective search space used: 874394820
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: 57 (25.9 bits)