RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy9378
(522 letters)
>d7odca2 c.1.6.1 (A:44-283) Eukaryotic ornithine decarboxylase
{Mouse (Mus musculus) [TaxId: 10090]}
Length = 240
Score = 144 bits (364), Expect = 1e-40
Identities = 122/241 (50%), Positives = 156/241 (64%), Gaps = 26/241 (10%)
Query: 217 DVGEIVRKHEDWKLKLPRVDPYYAVKCNDSQMVLEVLAALGTGFDCASKP---------- 266
D+G+I++KH W LPRV P+YAVKCNDS+ ++ LAA+GTGFDCASK
Sbjct: 1 DLGDILKKHLRWLKALPRVTPFYAVKCNDSRAIVSTLAAIGTGFDCASKTEIQLVQGLGV 60
Query: 267 -------------ISHIRYAAEYGIDTMTFDNEIELQKVKQFHPTAQLVIRIRCDAEVAQ 313
+S I+YAA G+ MTFD+EIEL KV + HP A+LV+RI D A
Sbjct: 61 PAERVIYANPCKQVSQIKYAASNGVQMMTFDSEIELMKVARAHPKAKLVLRIATDDSKAV 120
Query: 314 CQLGMKFGCDPISEAPRLLRLAKSLDLDVVGVSFHVGSGCGDPPVFGRAIYSARQIFDLG 373
C+L +KFG + + LL AK L++DV+GVSFHVGSGC DP F +A+ AR +FD+
Sbjct: 121 CRLSVKFGAT-LKTSRLLLERAKELNIDVIGVSFHVGSGCTDPDTFVQAVSDARCVFDMA 179
Query: 374 NSLGFSMRVLDLGGGYPGY--TGYSMNRIAEIINVALDEYFPVEEGVSIIAEPGRYYVAS 431
+GFSM +LD+GGG+PG T I +IN ALD+YFP + GV IIAEPGRYYVAS
Sbjct: 180 TEVGFSMHLLDIGGGFPGSEDTKLKFEEITSVINPALDKYFPSDSGVRIIAEPGRYYVAS 239
Query: 432 A 432
A
Sbjct: 240 A 240
>d1f3ta2 c.1.6.1 (A:44-283) Eukaryotic ornithine decarboxylase
{Trypanosoma brucei [TaxId: 5691]}
Length = 240
Score = 130 bits (326), Expect = 3e-35
Identities = 120/241 (49%), Positives = 154/241 (63%), Gaps = 26/241 (10%)
Query: 217 DVGEIVRKHEDWKLKLPRVDPYYAVKCNDSQMVLEVLAALGTGFDCASKP---------- 266
D+G+IVRKHE WK LPRV P+YAVKCND VL LAALGTGFDCAS
Sbjct: 1 DLGDIVRKHETWKKCLPRVTPFYAVKCNDDWRVLGTLAALGTGFDCASNTEIQRVRGIGV 60
Query: 267 -------------ISHIRYAAEYGIDTMTFDNEIELQKVKQFHPTAQLVIRIRCDAEVAQ 313
ISHIRYA + G+D MTFD EL+KV + HP A++V+RI D +A+
Sbjct: 61 PPEKIIYANPCKQISHIRYARDSGVDVMTFDCVDELEKVAKTHPKAKMVLRISTDDSLAR 120
Query: 314 CQLGMKFGCDPISEAPRLLRLAKSLDLDVVGVSFHVGSGCGDPPVFGRAIYSARQIFDLG 373
C+L +KFG + +L AK L++DV GVSFHVGSG D F +AI +R +FD+G
Sbjct: 121 CRLSVKFGAKV-EDCRFILEQAKKLNIDVTGVSFHVGSGSTDASTFAQAISDSRFVFDMG 179
Query: 374 NSLGFSMRVLDLGGGYPGYTG--YSMNRIAEIINVALDEYFPVEEGVSIIAEPGRYYVAS 431
LGF+M +LD+GGG+PG IA +IN AL+++FP + ++I+AEPGRYYVAS
Sbjct: 180 TELGFNMHILDIGGGFPGTRDAPLKFEEIAGVINNALEKHFPPDLKLTIVAEPGRYYVAS 239
Query: 432 A 432
A
Sbjct: 240 A 240
>d1twia2 c.1.6.1 (A:50-313) Diaminopimelate decarboxylase LysA
{Archaeon Methanococcus jannaschii [TaxId: 2190]}
Length = 264
Score = 85.2 bits (209), Expect = 3e-19
Identities = 49/240 (20%), Positives = 74/240 (30%), Gaps = 40/240 (16%)
Query: 233 PRVDPYYAVKCNDSQMVLEVLAALGTGFDCASK-----------------------PISH 269
YA K N + + +LA LG G D S
Sbjct: 25 KEFIVAYAYKANANLAITRLLAKLGCGADVVSGGELYIAKLSNVPSKKIVFNGNCKTKEE 84
Query: 270 IRYAAEYGIDTMTFDNEIELQKVKQFHPTAQLVIRIRCD----------AEVAQCQLGMK 319
I E I D+ EL + + + +++ K
Sbjct: 85 IIMGIEANIRAFNVDSISELILINETAKELGETANVAFRINPNVNPKTHPKISTGLKKNK 144
Query: 320 FGCDPISEAPRL--LRLAKSLDLDVVGVSFHVGSGCGDPPVFGRAIYSARQIFDLGNSLG 377
FG D S + ++VVGV H+GS D F G
Sbjct: 145 FGLDVESGIAMKAIKMALEMEYVNVVGVHCHIGSQLTDISPFIEETRKVMDFVVELKEEG 204
Query: 378 FSMRVLDLGGG-----YPGYTGYSMNRIAEIINVALDEYFPVEEGVSIIAEPGRYYVASA 432
+ ++LGGG Y + +A+ I + +Y E ++I EPGR VA+A
Sbjct: 205 IEIEDVNLGGGLGIPYYKDKQIPTQKDLADAIINTMLKYKDKVEMPNLILEPGRSLVATA 264
>d1f3ta1 b.49.2.3 (A:14-43,A:284-422) Eukaryotic ornithine
decarboxylase (ODC) {Trypanosoma brucei [TaxId: 5691]}
Length = 169
Score = 80.5 bits (198), Expect = 2e-18
Identities = 36/74 (48%), Positives = 50/74 (67%)
Query: 4 RETLVPSSVWGPTCDGLDKVNDDILLPEMPVGSWLIYRDMGAYTLPVASTFNGFPIPKVH 63
E L PSSVWGPTCDGLD++ + LPEM VG WL++ DMGAYT+ S+FNGF P ++
Sbjct: 94 NEKLYPSSVWGPTCDGLDQIVERYYLPEMQVGEWLLFEDMGAYTVVGTSSFNGFQSPTIY 153
Query: 64 AVIEEHIWLMLKDR 77
V+ ++++
Sbjct: 154 YVVSGLPDHVVREL 167
Score = 77.4 bits (190), Expect = 3e-17
Identities = 31/83 (37%), Positives = 45/83 (54%), Gaps = 9/83 (10%)
Query: 415 EEGVSIIAEPGRYYVASAFTLATLIHSKRDILGANSSV-------PTHTMYYINDGVYGS 467
+ ++ E ++VA FTLA + +K+ G + V MYY+NDGVYGS
Sbjct: 15 KISMNTCDEGDPFFVA--FTLAVNVIAKKVTPGVQTDVGAHAESNAQSFMYYVNDGVYGS 72
Query: 468 FNCIIYDHAVCTPIPFNVMDDSQ 490
FNCI+YDHAV P+P ++
Sbjct: 73 FNCILYDHAVVRPLPQREPIPNE 95
>d7odca1 b.49.2.3 (A:2-43,A:284-418) Eukaryotic ornithine
decarboxylase (ODC) {Mouse (Mus musculus) [TaxId:
10090]}
Length = 177
Score = 77.4 bits (190), Expect = 3e-17
Identities = 35/71 (49%), Positives = 50/71 (70%)
Query: 5 ETLVPSSVWGPTCDGLDKVNDDILLPEMPVGSWLIYRDMGAYTLPVASTFNGFPIPKVHA 64
E SS+WGPTCDGLD++ + LPEM VG W+++ +MGAYT+ ASTFNGF P ++
Sbjct: 107 EKYYSSSIWGPTCDGLDRIVERCNLPEMHVGDWMLFENMGAYTVAAASTFNGFQRPNIYY 166
Query: 65 VIEEHIWLMLK 75
V+ +W ++K
Sbjct: 167 VMSRPMWQLMK 177
Score = 72.8 bits (178), Expect = 1e-15
Identities = 34/112 (30%), Positives = 49/112 (43%), Gaps = 10/112 (8%)
Query: 394 GYSMNRIAEIINVALDEYFPVEEGVSIIAEPGRYYVASAFTLATLIHSKRDIL------- 446
+ + I + A D VS + +YVA FTLA I +K+ +
Sbjct: 7 EFDCH-ILDEGFTAKDILDQKINEVSSSDDKDAFYVA--FTLAVNIIAKKTVWKEQPGSD 63
Query: 447 GANSSVPTHTMYYINDGVYGSFNCIIYDHAVCTPIPFNVMDDSQVSLRSPLF 498
+ S MYY+NDGVYGSFNCI+YDHA + + S ++
Sbjct: 64 DEDESNEQTFMYYVNDGVYGSFNCILYDHAHVKALLQKRPKPDEKYYSSSIW 115
>d1hkva2 c.1.6.1 (A:46-310) Diaminopimelate decarboxylase LysA
{Mycobacterium tuberculosis [TaxId: 1773]}
Length = 265
Score = 77.4 bits (189), Expect = 1e-16
Identities = 41/245 (16%), Positives = 78/245 (31%), Gaps = 47/245 (19%)
Query: 233 PRVDPYYAVKCNDSQMVLEVLAALGTGFDCAS-----------------------KPISH 269
+ +YA K V ++ G D + K +S
Sbjct: 18 SGANVHYAAKAFLCSEVARWISEEGLCLDVCTGGELAVALHASFPPERITLHGNNKSVSE 77
Query: 270 IRYAAEYGIDTMTFDNEIELQKVKQFHPTAQLVIRIRCD----------AEVAQCQLGMK 319
+ A + G+ + D+ E++++ A +V + ++ K
Sbjct: 78 LTAAVKAGVGHIVVDSMTEIERLDAIAGEAGIVQDVLVRLTVGVEAHTHEFISTAHEDQK 137
Query: 320 FGCDPISEAP--RLLRLAKSLDLDVVGVSFHVGSGCGDPPVFGRAIYSARQIF-----DL 372
FG S A + R+ + L +VG+ H+GS D F A + + +
Sbjct: 138 FGLSVASGAAMAAVRRVFATDHLRLVGLHSHIGSQIFDVDGFELAAHRVIGLLRDVVGEF 197
Query: 373 GNSLGFSMRVLDLGGG-----YPGYTGYSMNRIAEIINVALDEYFPVE--EGVSIIAEPG 425
G + +DLGGG P + +A + + + ++ EPG
Sbjct: 198 GPEKTAQIATVDLGGGLGISYLPSDDPPPIAELAAKLGTIVSDESTAVGLPTPKLVVEPG 257
Query: 426 RYYVA 430
R
Sbjct: 258 RAIAG 262
>d1knwa2 c.1.6.1 (A:32-278) Diaminopimelate decarboxylase LysA
{Escherichia coli [TaxId: 562]}
Length = 247
Score = 67.8 bits (164), Expect = 2e-13
Identities = 40/250 (16%), Positives = 77/250 (30%), Gaps = 43/250 (17%)
Query: 220 EIVRKHEDWKLKLPRVDPYYAVKCNDSQMVLEVLAALGTGFDCASKP------------- 266
+I+R+ + V +A K + +L ++ G D S
Sbjct: 3 QIIRRQIAALKQFDVV--RFAQKACSNIHILRLMREQGVKVDSVSLGEIERALAAGYNPQ 60
Query: 267 -------------ISHIRYAAEYGIDTMTFDNEIELQKVKQFHPTAQLVIRIRCDAEVAQ 313
+ + L ++ Q P ++ +R+
Sbjct: 61 THPDDIVFTADVIDQATLERVSELQIPVNAGSVDMLDQLGQVSPGHRVWLRVNPGFGHGH 120
Query: 314 CQLGMKFGC-----DPISEAPRLLRLAKSLDLDVVGVSFHVGSGCGDPPVFGRAIYSARQ 368
Q G ++ P L + + L +VG+ H+GSG + RQ
Sbjct: 121 SQKTNTGGENSKHGIWYTDLPAALDVIQRHHLQLVGIHMHIGSGVDYAHLEQVCGAMVRQ 180
Query: 369 IFDLGNSLGFSMRVLDLGGGY-----PGYTGYSMNRIAEIINVALDEYFP-VEEGVSIIA 422
+ + G ++ + GGG G + N A ++ + V +
Sbjct: 181 VIEFG----QDLQAISAGGGLSVPYQQGEEAVDTEHYYGLWNAAREQIARHLGHPVKLEI 236
Query: 423 EPGRYYVASA 432
EPGR+ VA +
Sbjct: 237 EPGRFLVAQS 246
>d1knwa1 b.49.2.3 (A:2-31,A:279-422) Diaminopimelate decarboxylase
LysA {Escherichia coli [TaxId: 562]}
Length = 174
Score = 58.1 bits (140), Expect = 1e-10
Identities = 19/82 (23%), Positives = 30/82 (36%), Gaps = 7/82 (8%)
Query: 1 YPYRETLVPSSVWGPTCDGLDKVNDDI-------LLPEMPVGSWLIYRDMGAYTLPVAST 53
V + V GP C+ D LPE+ G +L+ D GAY ++S
Sbjct: 78 SLEHAPTVETVVAGPLCESGDVFTQQEGGNVETRALPEVKAGDYLVLHDTGAYGASMSSN 137
Query: 54 FNGFPIPKVHAVIEEHIWLMLK 75
+N P+ L+ +
Sbjct: 138 YNSRPLLPEVLFDNGQARLIRR 159
>d1hkva1 b.49.2.3 (A:2-45,A:311-447) Diaminopimelate decarboxylase
LysA {Mycobacterium tuberculosis [TaxId: 1773]}
Length = 181
Score = 50.7 bits (121), Expect = 5e-08
Identities = 19/75 (25%), Positives = 33/75 (44%), Gaps = 1/75 (1%)
Query: 2 PYRETLVPSSVWGPTCDGLDKVNDDILLP-EMPVGSWLIYRDMGAYTLPVASTFNGFPIP 60
VP+ + G C+ D + D +P ++ G + GAY ++S +N P
Sbjct: 94 VSDAPPVPARLVGKHCESGDIIVRDTWVPDDIRPGDLVAVAATGAYCYSLSSRYNMVGRP 153
Query: 61 KVHAVIEEHIWLMLK 75
V AV + L+L+
Sbjct: 154 AVVAVHAGNARLVLR 168
>d1twia1 b.49.2.3 (A:15-49,A:314-448) Diaminopimelate decarboxylase
LysA {Archaeon Methanococcus jannaschii [TaxId: 2190]}
Length = 170
Score = 47.7 bits (113), Expect = 5e-07
Identities = 17/65 (26%), Positives = 34/65 (52%)
Query: 11 SVWGPTCDGLDKVNDDILLPEMPVGSWLIYRDMGAYTLPVASTFNGFPIPKVHAVIEEHI 70
S+ G C+ D D L ++ VG L D+GAY + +A+ +N P++ ++ +
Sbjct: 88 SIAGGLCESSDVFGRDRELDKVEVGDVLAIFDVGAYGISMANNYNARGRPRMVLTSKKGV 147
Query: 71 WLMLK 75
+L+ +
Sbjct: 148 FLIRE 152
>d2axoa1 c.47.1.19 (A:38-262) Hypothetical protein Atu2684
{Agrobacterium tumefaciens [TaxId: 358]}
Length = 225
Score = 31.9 bits (72), Expect = 0.13
Identities = 22/96 (22%), Positives = 31/96 (32%), Gaps = 10/96 (10%)
Query: 321 GCDPISEAPRLLRLAKSLDLDVVGVSFHVGS----GCGDPPVFGRAIYSARQIFDLGNSL 376
GC A LR DVVG+S+HV G D + RQ +L
Sbjct: 16 GCASCPPADEALRKMIQ-KGDVVGLSYHVDYWNYLGWTDS--LASKENTERQY-GYMRAL 71
Query: 377 GFSMRVLDLG--GGYPGYTGYSMNRIAEIINVALDE 410
G + G G + I + ++ E
Sbjct: 72 GRNGVYTPQAILNGRDHVKGADVRGIYDRLDAFKRE 107
>d1iwga4 d.58.44.1 (A:674-724,A:813-859) Multidrug efflux
transporter AcrB pore domain; PN1, PN2, PC1 and PC2
subdomains {Escherichia coli [TaxId: 562]}
Length = 98
Score = 27.9 bits (62), Expect = 1.1
Identities = 6/16 (37%), Positives = 9/16 (56%)
Query: 372 LGNSLGFSMRVLDLGG 387
LG + GF ++D G
Sbjct: 1 LGTATGFDFELIDQAG 16
>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides
[TaxId: 1063]}
Length = 288
Score = 26.4 bits (58), Expect = 8.6
Identities = 10/80 (12%), Positives = 28/80 (35%), Gaps = 1/80 (1%)
Query: 211 DAFYVLDVGEIVRKHEDWKLKLPRVDPYYAVKCNDSQMVLEVLAALGTGFDCASKPISHI 270
DAF+ + ++ + + +++ + N+ + + V G ++ H
Sbjct: 41 DAFHRFNRADMKAELDRRYAAGDATFSHFSYEANELKELERVFREYGETGQGRTRTYVHD 100
Query: 271 RYA-AEYGIDTMTFDNEIEL 289
A G+ F + +
Sbjct: 101 DAEAARTGVAPGNFTDWRDF 120
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.323 0.141 0.445
Gapped
Lambda K H
0.267 0.0424 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 2,125,826
Number of extensions: 107416
Number of successful extensions: 290
Number of sequences better than 10.0: 1
Number of HSP's gapped: 279
Number of HSP's successfully gapped: 23
Length of query: 522
Length of database: 2,407,596
Length adjustment: 89
Effective length of query: 433
Effective length of database: 1,185,626
Effective search space: 513376058
Effective search space used: 513376058
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.7 bits)