RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 011842
(476 letters)
>3f9t_A TDC, L-tyrosine decarboxylase MFNA; NP_247014.1, L-tyrosine
decarboxylase MFNA (EC 4.1.1.25), ST genomics; HET: PLP;
2.11A {Methanocaldococcus jannaschii}
Length = 397
Score = 297 bits (762), Expect = 3e-97
Identities = 86/394 (21%), Positives = 159/394 (40%), Gaps = 47/394 (11%)
Query: 84 VLARYRKTLMERTKHHLGYPYNLDFDYGALAQLQH-----FSINNLGDPFIESNYGVHSR 138
+L +K K+ G + + F NLGDP + ++
Sbjct: 15 ILEELKKYRSLDLKYEDGNI--FGSMCSNVLPITRKIVDIFLETNLGDPGLFKG----TK 68
Query: 139 QFEVGVLDWFARLWELENNEYWGYITNCGTEGNLHGILVGREVFPDGI-----------L 187
E + L + + +G+I + GTE NL + + ++ + +
Sbjct: 69 LLEEKAVALLGSLLNNK--DAYGHIVSGGTEANLMALRCIKNIWREKRRKGLSKNEHPKI 126
Query: 188 YASRESHYSVFKAARMYRMECVKVDCLISGEIDCADFKAKLLQNKDKPAIINVNIGTTVK 247
+H+S K M +E + ID K +++ D II GTT
Sbjct: 127 IVPITAHFSFEKGREMMDLEYIYAPIKEDYTIDEKFVK-DAVEDYDVDGII-GIAGTTEL 184
Query: 248 GAVDDLDLVIQTLEESGFTQDRFYIHCDGALFGLMMPFVKKAPKVS-------FKKPIGS 300
G +D+++ + + +E+ YIH D A GL++PF+ K F + S
Sbjct: 185 GTIDNIEELSKIAKENNI-----YIHVDAAFGGLVIPFLDDKYKKKGVNYKFDFSLGVDS 239
Query: 301 VSVSGHKFVGCPMPCGVQITR-MEHINVLSSNVEYL-ASRDATIMGSRNGHAPIFLWYTL 358
+++ HK CP+P G + + + + L + YL +R ATI+G+R G + L
Sbjct: 240 ITIDPHKMGHCPIPSGGILFKDIGYKRYLDVDAPYLTETRQATILGTRVGFGGACTYAVL 299
Query: 359 NRKGYKGFQKEVQKCLRNAHYLKDRLLDAGISAMLNELSSTVVFERPQDEEFVRR----- 413
G +G +K V +C+ N YL +L + ++ + + V E +E ++
Sbjct: 300 RYLGREGQRKIVNECMENTLYLYKKLKENNFKPVIEPILNIVAIEDEDYKEVCKKLRDRG 359
Query: 414 WQL-ACQGNIA-HVVVMPNVTIDKLDDFLNELIE 445
+ C A +VVMP++ + +D+F+ L
Sbjct: 360 IYVSVCNCVKALRIVVMPHIKREHIDNFIEILNS 393
>2dgk_A GAD-beta, GADB, glutamate decarboxylase beta; gadbd1-14,
autoinhibition, substituted aldamine, lyase; HET: PLP;
1.90A {Escherichia coli} PDB: 2dgm_A* 1pmo_A* 2dgl_A*
1pmm_A* 3fz6_A* 3fz7_A 3fz8_A* 1xey_A*
Length = 452
Score = 225 bits (575), Expect = 9e-69
Identities = 74/374 (19%), Positives = 121/374 (32%), Gaps = 51/374 (13%)
Query: 121 INNLGDPFIESNYGVH-----SRQFEVGVLDWFARLW---ELENNEYWGYITNCGTEGNL 172
++ L D I N+ S ++ ++ A LW +N + G T +E +
Sbjct: 58 VHKLMDLSINKNWIDKEEYPQSAAIDLRCVNMVADLWHAPAPKNGQAVGTNTIGSSEACM 117
Query: 173 HGILVGREVF----------PDGILYASRESHYSVFKAARMYRMECVKVDCLISGEIDCA 222
G + + + D K AR + +E ++
Sbjct: 118 LGGMAMKWRWRKRMEAAGKPTDKPNLVCGPVQICWHKFARYWDVELREIPM--RPGQLFM 175
Query: 223 DFKAKLLQNKDKPAIINVNIGTTVKGAVDDLDLVIQTLEESGFTQDR-FYIHCDGALFGL 281
D K + + + G T G + + L++ +H D A G
Sbjct: 176 DPKRMIEACDENTIGVVPTFGVTYTGNYEFPQPLHDALDKFQADTGIDIDMHIDAASGGF 235
Query: 282 MMPFVKKAPKVSFK-KPIGSVSVSGHKFVGCPMPCGVQITRMEHI--NVLSSNVEYLASR 338
+ PFV F+ + S+S SGHKF P+ CG I R E L NV+YL +
Sbjct: 236 LAPFVAPDIVWDFRLPRVKSISASGHKFGLAPLGCGWVIWRDEEALPQELVFNVDYLGGQ 295
Query: 339 DA--TIMGSRNGHAPIFLWYTLNRKGYKGFQKEVQKCLRNAHYLKDRLLDAG----ISAM 392
I SR I +Y R G +G+ K + A YL D + G I
Sbjct: 296 IGTFAINFSRPAGQVIAQYYEFLRLGREGYTKVQNASYQVAAYLADEIAKLGPYEFICTG 355
Query: 393 LNELSSTVVFERPQDEEFV-------------RRWQL---ACQGNIAH-----VVVMPNV 431
+ V + +D E R WQ+ G ++
Sbjct: 356 RPDEGIPAVCFKLKDGEDPGYTLYDLSERLRLRGWQVPAFTLGGEATDIVVMRIMCRRGF 415
Query: 432 TIDKLDDFLNELIE 445
+D + L +
Sbjct: 416 EMDFAELLLEDYKA 429
>3hbx_A GAD 1, glutamate decarboxylase 1; calmodulin-binding, lyase,
pyridoxal phosphate; HET: LLP; 2.67A {Arabidopsis
thaliana}
Length = 502
Score = 194 bits (495), Expect = 1e-56
Identities = 63/367 (17%), Positives = 125/367 (34%), Gaps = 46/367 (12%)
Query: 119 FSINNLGDPFIESNYGVHSRQFEVGVLDWFARLW---ELENNEYWGYITNCGTEGNLHGI 175
N D Y V + + + ++ A L+ E G T +E +
Sbjct: 79 SINKNYVDMDE---YPV-TTELQNRCVNMIAHLFNAPLEEAETAVGVGTVGSSEAIMLAG 134
Query: 176 LVGREVFPDGI-----------LYASRESHYSVFKAARMYRMECVKVDCLISGEIDCADF 224
L + + + + K AR + +E +V S D
Sbjct: 135 LAFKRKWQNKRKAEGKPVDKPNIVTGANVQVCWEKFARYFEVELKEVKL--SEGYYVMDP 192
Query: 225 KAKLLQNKDKPAIINVNIGTTVKGAVDDLDLVIQTLEESGFTQD-RFYIHCDGALFGLMM 283
+ + + + +G+T+ G +D+ L+ L E IH D A G +
Sbjct: 193 QQAVDMVDENTICVAAILGSTLNGEFEDVKLLNDLLVEKNKETGWDTPIHVDAASGGFIA 252
Query: 284 PFVKKAPKVSFKKP-IGSVSVSGHKFVGCPMPCGVQITRMEHI--NVLSSNVEYLASRDA 340
PF+ + F+ P + S++VSGHK+ G I R + L ++ YL +
Sbjct: 253 PFLYPELEWDFRLPLVKSINVSGHKYGLVYAGIGWVIWRNKEDLPEELIFHINYLGADQP 312
Query: 341 --TIMGSRNGHAPIFLWYTLNRKGYKGFQKEVQKCLRNAHYLKDRLLDAGISAMLNELS- 397
T+ S+ I +Y L R G++G++ ++ C N L++ L ++++
Sbjct: 313 TFTLNFSKGSSQVIAQYYQLIRLGHEGYRNVMENCRENMIVLREGLEKTERFNIVSKDEG 372
Query: 398 -STVVFERPQDEEFV----------RRWQLACQGN--------IAHVVVMPNVTIDKLDD 438
V F W + + VV+ + + +
Sbjct: 373 VPLVAFSLKDSSCHTEFEISDMLRRYGWIVPAYTMPPNAQHITVLRVVIREDFSRTLAER 432
Query: 439 FLNELIE 445
+ ++ +
Sbjct: 433 LVIDIEK 439
>3mad_A Sphingosine-1-phosphate lyase; carboxy-lyase activity, pyridoxal
phosphate; HET: LLP; 2.00A {Symbiobacterium
thermophilum} PDB: 3maf_A* 3mau_A* 3mbb_A*
Length = 514
Score = 149 bits (377), Expect = 1e-39
Identities = 67/375 (17%), Positives = 125/375 (33%), Gaps = 41/375 (10%)
Query: 100 LGYPYNLDFDYGALAQ--LQHFSINNLGDPFIESNYGVHSRQFEVGVLDWFARLW--ELE 155
G Y+ D + A S +N P + + +FE V+ A + +
Sbjct: 102 SGAVYHGDEHHIAFLNEVYALQSQSNPLHPDL----WPSTAKFEAEVVAMTAHMLGGDAA 157
Query: 156 NNEYWGYITNCGTEGNLHGILVGREVFPD--GI----LYASRESHYSVFKAARMYRMECV 209
G +T+ GTE L + R+ GI +H + KAA+ + ++ V
Sbjct: 158 GGTVCGTVTSGGTESLLLAMKTYRDWARATKGITAPEAVVPVSAHAAFDKAAQYFGIKLV 217
Query: 210 KVDCLISGEIDCADFKAKLLQNKDKPAIINVNIGTTVKGAVDDLDLVIQTLEESGFTQDR 269
+ D A + + N ++ + G VD + + E G
Sbjct: 218 RTPLDADYRADVAAMREAITPN---TVVVAGSAPGYPHGVVDPIPEIAALAAEHGI---- 270
Query: 270 FYIHCDGALFGLMMPFVKKA----PKVSFKKP-IGSVSVSGHKFVGCPMPCGVQITRMEH 324
H D L G ++P+ ++ P F+ + SVS HK+ V + R
Sbjct: 271 -GCHVDACLGGFILPWAERLGYPVPPFDFRLEGVTSVSADTHKYGYGAKGTSVILYRRPD 329
Query: 325 I--NVLSSNVEYLASRDA--TIMGSRNGHAPIFLWYTLNRKGYKGFQKEVQKCLRNAHYL 380
+ ++ T GSR G W + G +G+ ++ L+ A L
Sbjct: 330 LLHYQYFIAADWPGGLYFSPTFAGSRPGALSATAWAAMLSLGEEGYLDATRRILQAADRL 389
Query: 381 KDRLLDAGISAMLNELSSTVVFERPQDEEFV-------RRWQLACQ---GNIAHVVVMPN 430
K + +L + + + + R W+L + + +
Sbjct: 390 KAGVRAIPSLKILGDPLWVIAVASDELNIYQVMEEMAGRGWRLNGLHRPPAFHVALTLRH 449
Query: 431 VTIDKLDDFLNELIE 445
+D FL +L +
Sbjct: 450 TEPGVVDRFLADLQD 464
>3mc6_A Sphingosine-1-phosphate lyase; carboxy-lyase activity, pyridoxyl
phosphate; HET: LLP; 3.15A {Saccharomyces cerevisiae}
Length = 497
Score = 141 bits (357), Expect = 4e-37
Identities = 67/377 (17%), Positives = 127/377 (33%), Gaps = 41/377 (10%)
Query: 98 HHLGYPYNLDFDYGALAQ--LQHFSINNLGDPFIESNYGVHSRQFEVGVLDWFARLWELE 155
G Y+ D L + + + N P + + R+ E V+ R++
Sbjct: 68 KVSGAVYHGGDDLIHLQTIAYEKYCVANQLHPDV---FPA-VRKMESEVVSMVLRMFNAP 123
Query: 156 NNEYWGYITNCGTEGNLHGILVGREVFPD--GI----LYASRESHYSVFKAARMYRMECV 209
++ G T+ GTE L L + GI + A +H KAA + M+
Sbjct: 124 SDTGCGTTTSGGTESLLLACLSAKMYALHHRGITEPEIIAPVTAHAGFDKAAYYFGMKLR 183
Query: 210 KVDCLISGEIDCADFKAKLLQNKDKPAIINVNIGTTVKGAVDDLDLVIQTLEESGFTQDR 269
V+ D ++ + G DD++ + + ++
Sbjct: 184 HVEL--DPTTYQVDLGKVKKFINKNTVLLVGSAPNFPHGIADDIEGLGKIAQKYKL---- 237
Query: 270 FYIHCDGALFGLMMPFVKKA-----PKVSFKKP-IGSVSVSGHKFVGCPMPCGVQITRME 323
+H D L ++ F++KA P + F+ P + S+S HK+ P V + R
Sbjct: 238 -PLHVDSCLGSFIVSFMEKAGYKNLPLLDFRVPGVTSISCDTHKYGFAPKGSSVIMYRNS 296
Query: 324 HI--NVLSSNVEYLASRDA--TIMGSRNGHAPIFLWYTLNRKGYKGFQKEVQKCLRNAHY 379
+ + N + T+ GSR G + W T+ G G+ + Q+ + A
Sbjct: 297 DLRMHQYYVNPAWTGGLYGSPTLAGSRPGAIVVGCWATMVNMGENGYIESCQEIVGAAMK 356
Query: 380 LKDRLLDA--GISAMLNELSSTVVFERPQDEEFV-------RRWQLACQGNIA--HVVVM 428
K + + + M N S + F + W H+
Sbjct: 357 FKKYIQENIPDLDIMGNPRYSVISFSSKTLNIHELSDRLSKKGWHFNALQKPVALHMAFT 416
Query: 429 PNVTIDKLDDFLNELIE 445
++ +D+ + L
Sbjct: 417 R-LSAHVVDEICDILRT 432
>2okj_A Glutamate decarboxylase 1; PLP-dependent decarboxylase, lyase; HET:
LLP PLZ; 2.30A {Homo sapiens} PDB: 2okk_A*
Length = 504
Score = 112 bits (281), Expect = 9e-27
Identities = 75/343 (21%), Positives = 120/343 (34%), Gaps = 52/343 (15%)
Query: 81 MAGVLARYRKTLMERTKHH----LGY-PYNLDFDYGALAQLQHFSINNLGDPFIESNYGV 135
+ +L R TL + LD G + + N + + V
Sbjct: 73 LEQILVDCRDTLKYGVRTGHPRFFNQLSTGLDI-IGLAGEWLTSTANTNMFTYEIAPVFV 131
Query: 136 HSRQFEVGVLDWFARLWELENNEYWGYITNCGTEGNLHGILVGRE------------VFP 183
E L + + + G + G N++ I+ R P
Sbjct: 132 ---LMEQITLKKMREIVGWSSKDGDGIFSPGGAISNMYSIMAARYKYFPEVKTKGMAAVP 188
Query: 184 DGILYASRESHYSVFKAARMY---RMECVKVDCLISGEIDCADFKAKLLQNKDK---PAI 237
+L+ S +SHYS+ KA + + C G+I ADF+AK+L+ K K P
Sbjct: 189 KLVLFTSEQSHYSIKKAGAALGFGTDNVILIKCNERGKIIPADFEAKILEAKQKGYVPFY 248
Query: 238 INVNIGTTVKGAVDDLDLVIQTLEESGFTQDRFYIHCDGALFGLMMPFVKKAPKVSFKKP 297
+N GTTV GA D + + E+ ++H D A G ++ K K+
Sbjct: 249 VNATAGTTVYGAFDPIQEIADICEKYN-----LWLHVDAAWGGGLLMSRKHRHKL---NG 300
Query: 298 IG---SVSVSGHKFVGCPMPCGVQITR--MEHINVLSSNVEYLAS-----------RDAT 341
I SV+ + HK +G + C + + YL D
Sbjct: 301 IERANSVTWNPHKMMGVLLQCSAILVKEKGILQGCNQMCAGYLFQPDKQYDVSYDTGDKA 360
Query: 342 IMGSRNGHAPIFLWYTLNRKGYKGFQKEVQKCLRNAHYLKDRL 384
I R+ W KG GF+ ++ KCL A YL ++
Sbjct: 361 IQCGRHVDI-FKFWLMWKAKGTVGFENQINKCLELAEYLYAKI 402
>2jis_A Cysteine sulfinic acid decarboxylase; pyridoxal phosphate,
alternative splicing, pyridoxal phosphate (PLP),
structural genomics consortium (SGC); HET: PLP; 1.6A
{Homo sapiens}
Length = 515
Score = 109 bits (274), Expect = 7e-26
Identities = 62/346 (17%), Positives = 115/346 (33%), Gaps = 59/346 (17%)
Query: 81 MAGVLARYRKTLMERTKHH----LGY-PYNLDFDYGALAQLQHFSINNLGDPFIESNYGV 135
+L R R + K LD + ++ S+N + + V
Sbjct: 89 QKQILERCRAVIRYSVKTGHPRFFNQLFSGLDP-HALAGRIITESLNTSQYTYEIAPVFV 147
Query: 136 HSRQFEVGVLDWFARLWELENNEYWGYITNCGTEGNLHGILVGRE-VFPDG--------- 185
E VL L + + G G+ N++ + + R +PD
Sbjct: 148 ---LMEEEVLRKLRALVGWSSGD--GIFCPGGSISNMYAVNLARYQRYPDCKQRGLRTLP 202
Query: 186 --ILYASRESHYSVFKAARM---YRMECVKVDCLISGEIDCADFKAKLLQNKDK---PAI 237
L+ S+E HYS+ K A V G++ D + ++ + + P +
Sbjct: 203 PLALFTSKECHYSIQKGAAFLGLGTDSVRVVKADERGKMVPEDLERQIGMAEAEGAVPFL 262
Query: 238 INVNIGTTVKGAVDDLDLVIQTLEESGFTQDRFYIHCDGALFGLMMPFVKKAPKVSFKKP 297
++ GTTV GA D L+ + + G ++H D A G ++ +
Sbjct: 263 VSATSGTTVLGAFDPLEAIADVCQRHG-----LWLHVDAAWGGSVLLSQTHRHLLD---- 313
Query: 298 IG-----SVSVSGHKFVGCPMPCGVQITR---MEHINVLSSNVEYLAS-----------R 338
G SV+ + HK + + C + + S YL
Sbjct: 314 -GIQRADSVAWNPHKLLAAGLQCSALLLQDTSNLLKRCHGSQASYLFQQDKFYDVALDTG 372
Query: 339 DATIMGSRNGHAPIFLWYTLNRKGYKGFQKEVQKCLRNAHYLKDRL 384
D + R + LW +G +G ++ + + A YL + +
Sbjct: 373 DKVVQCGRRVDC-LKLWLMWKAQGDQGLERRIDQAFVLARYLVEEM 417
>1js3_A DDC;, DOPA decarboxylase; carbidopa, parkinson'S disease, vitamin;
HET: PLP 142; 2.25A {Sus scrofa} SCOP: c.67.1.6 PDB:
1js6_A* 3rch_A* 3rbl_A 3rbf_A*
Length = 486
Score = 108 bits (272), Expect = 1e-25
Identities = 69/430 (16%), Positives = 134/430 (31%), Gaps = 78/430 (18%)
Query: 81 MAGVLARYRKTLMERTKH-----HLGY-PYNLDFDYGALAQLQHFSINNLGDPFIESNYG 134
+L K +M H Y P + LA + +I +G + S
Sbjct: 53 FEDILQDVEKIIMPGVTHWHSPYFFAYFPTASSY-PAMLADMLCGAIGCIGFSWAASPAC 111
Query: 135 VHSRQFEVGVLDWFARLWEL-------ENNEYWGYITNCGTEGNLHGILVGRE------- 180
+ E ++DW ++ +L E E G I +E L +L R
Sbjct: 112 T---ELETVMMDWLGKMLQLPEAFLAGEAGEGGGVIQGSASEATLVALLAARTKVVRRLQ 168
Query: 181 ----------VFPDGILYASRESHYSVFKAARMYRMECVKVDCLISGEIDCADFKAKLLQ 230
V + YAS ++H SV +A + ++ + + + + L +
Sbjct: 169 AASPGLTQGAVLEKLVAYASDQAHSSVERAGLIGGVKLKAIPSDGKFAMRASALQEALER 228
Query: 231 NKDK---PAIINVNIGTTVKGAVDDLDLVIQTLEESGFTQDRFYIHCDGALFGLMMPFVK 287
+K P + +GTT + D+L V E ++H D A G
Sbjct: 229 DKAAGLIPFFVVATLGTTSCCSFDNLLEVGPICHEED-----IWLHVDAAYAGSAF---- 279
Query: 288 KAPKV-SFKKPIG---SVSVSGHKFVGCPMPCGVQITR--MEHINVLSSNVEYLASRDAT 341
P+ + S + + HK++ C + + + YL
Sbjct: 280 ICPEFRHLLNGVEFADSFNFNPHKWLLVNFDCSAMWVKRRTDLTGAFKLDPVYLKHSHQG 339
Query: 342 IMGSRN-GHAPI-----F----LWYTLNRKGYKGFQKEVQKCLRNAHYLKDRLLDAGISA 391
+ H + F +W+ G KG Q ++K ++ +H + +L
Sbjct: 340 SGLITDYRHWQLPLGRRFRSLKMWFVFRMYGVKGLQAYIRKHVQLSHEFEAFVLQDPRFE 399
Query: 392 MLNELS-STVVF-ERPQDE---EFVRRWQLACQGNIAH-----------VVVMPNVTIDK 435
+ E++ V F + D + R A + ++ + V
Sbjct: 400 VCAEVTLGLVCFRLKGSDGLNEALLERINSARKIHLVPCRLRGQFVLRFAICSRKVESGH 459
Query: 436 LDDFLNELIE 445
+ +
Sbjct: 460 VRLAWEHIRG 469
>2qma_A Diaminobutyrate-pyruvate transaminase and L-2,4- diaminobutyrate
decarboxylase; structural genomics, APC91511.1,
glutamate decarboxylase; HET: MSE; 1.81A {Vibrio
parahaemolyticus}
Length = 497
Score = 106 bits (266), Expect = 8e-25
Identities = 58/282 (20%), Positives = 104/282 (36%), Gaps = 51/282 (18%)
Query: 141 EVGVLDWFARLWELENNEYWGYITNCGTEGNLHGILVGRE------------------VF 182
E V++W ++L + + G T+ GT+ N G+++ R+
Sbjct: 142 EQKVVNWLCDKYDL-SEKADGIFTSGGTQSNQMGLMLARDWIADKLSGHSIQKLGLPDYA 200
Query: 183 PDGILYASRESHYSVFKAARMY---RMECVKVDCLISGEIDCADFKAKLLQNKDK---PA 236
+ S++SH++V K+A + VD G +D + Q K + P
Sbjct: 201 DKLRIVCSKKSHFTVQKSASWMGLGEKAVMTVDANADGTMDITKLDEVIAQAKAEGLIPF 260
Query: 237 IINVNIGTTVKGAVDDLDLVIQTLEESGFTQDRFYIHCDGALFGLMMPFVKKAPKVSFKK 296
I GTT GA+DDLD + + ++H DGA G ++ ++
Sbjct: 261 AIVGTAGTTDHGAIDDLDFIADMAVKHD-----MWMHVDGAYGGALI-LSSHKSRLK--- 311
Query: 297 PIG-----SVSVSGHKFVGCPMPCGVQITR-MEHINVLSSNVEYLAS--------RDATI 342
G S+SV HK + CG + + L + +YL D +I
Sbjct: 312 --GVERAHSISVDFHKLFYQTISCGALLVNDKSNFKFLLHHADYLNREHDELPNLVDKSI 369
Query: 343 MGSRNGHAPIFLWYTLNRKGYKGFQKEVQKCLRNAHYLKDRL 384
++ A + ++ T+ G K L + D +
Sbjct: 370 ATTKRFDA-LKVFMTMQNVGPKALGDMYDHLLAQTLEVADMI 410
>4e1o_A HDC, histidine decarboxylase; lyase; HET: PLP PVH; 1.80A {Homo
sapiens}
Length = 481
Score = 105 bits (263), Expect = 1e-24
Identities = 64/368 (17%), Positives = 117/368 (31%), Gaps = 77/368 (20%)
Query: 141 EVGVLDWFARLWEL--------ENNEYWGYITNCGTEGNLHGILVGRE------------ 180
E+ V+DW A++ L +++ G + + +E L +L R+
Sbjct: 120 EMNVMDWLAKMLGLPEHFLHHHPSSQGGGVLQSTVSESTLIALLAARKNKILEMKTSEPD 179
Query: 181 -----VFPDGILYASRESHYSVFKAARMYRMECVKVDCLISGEIDCADFKAKLLQNKDK- 234
+ + YAS ++H SV KA + ++ + + + + + ++K +
Sbjct: 180 ADESSLNARLVAYASDQAHSSVEKAGLISLVKMKFLPVDDNFSLRGEALQKAIEEDKQRG 239
Query: 235 --PAIINVNIGTTVKGAVDDLDLVIQTLEESGFTQDRFYIHCDGALFGLMMPFVKKAPKV 292
P + +GTT A D L + G ++H D A G P+
Sbjct: 240 LVPVFVCATLGTTGVCAFDCLSELGPICAREG-----LWLHIDAAYAGTAF----LCPEF 290
Query: 293 -SFKKPIG---SVSVSGHKFVGCPMPCGVQITR--MEHINVLSSNVEYLAS--------- 337
F K I S + + K++ C + + S N YL
Sbjct: 291 RGFLKGIEYADSFTFNPSKWMMVHFDCTGFWVKDKYKLQQTFSVNPIYLRHANSGVATDF 350
Query: 338 RDATIMGSRNGHAPIF----LWYTLNRKGYKGFQKEVQKCLRNAHYLKDRLL-DAGISAM 392
I SR F LW+ + G K Q V+ A Y + + D
Sbjct: 351 MHWQIPLSRR-----FRSVKLWFVIRSFGVKNLQAHVRHGTEMAKYFESLVRNDPSFEIP 405
Query: 393 LNELSSTVVF-ERPQDE---EFVRRWQLACQGNIAH-----------VVVMPNVTIDKLD 437
VVF + + ++ A + + V T D +
Sbjct: 406 AKRHLGLVVFRLKGPNSLTENVLKEIAKAGRLFLIPATIQDKLIIRFTVTSQFTTRDDIL 465
Query: 438 DFLNELIE 445
N + +
Sbjct: 466 RDWNLIRD 473
>3k40_A Aromatic-L-amino-acid decarboxylase; PLP dependent protein, alpha
beta protein, alternative splicing, catecholamine
biosynthesis, lyase; HET: LLP; 1.75A {Drosophila
melanogaster}
Length = 475
Score = 101 bits (254), Expect = 2e-23
Identities = 70/434 (16%), Positives = 135/434 (31%), Gaps = 89/434 (20%)
Query: 81 MAGVLARYRKTLMERTKH-----HLGYPYNLDFDYGALAQLQHFSINNLGDPFIESNYGV 135
V+ + +M H Y + +A + +I +G +I S
Sbjct: 53 WQDVMQDIERVIMPGVTHWHSPKFHAYFPTANSYPAIVADMLSGAIACIGFTWIASPACT 112
Query: 136 HSRQFEVGVLDWFARLWEL-------ENNEYWGYITNCGTEGNLHGILVGRE-------- 180
EV ++DW ++ EL + G I +E L +L +
Sbjct: 113 E---LEVVMMDWLGKMLELPAEFLACSGGKGGGVIQGTASESTLVALLGAKAKKLKEVKE 169
Query: 181 ---------VFPDGILYASRESHYSVFKAARM--YRMECVKVDCLISGEIDCADFKAKLL 229
+ + Y S ++H SV +A + ++ V+ + + + A + +
Sbjct: 170 LHPEWDEHTILGKLVGYCSDQAHSSVERAGLLGGVKLRSVQSE---NHRMRGAALEKAIE 226
Query: 230 QNKDK---PAIINVNIGTTVKGAVDDLDLVIQTLEESGFTQDRFYIHCDGALFGLMMPFV 286
Q+ + P V +GTT A D LD + +IH D A G
Sbjct: 227 QDVAEGLIPFYAVVTLGTTNSCAFDYLDECGPVGNKHN-----LWIHVDAAYAGSAF--- 278
Query: 287 KKAPKV-SFKKPIG---SVSVSGHKFVGCPMPCGVQITR--MEHINVLSSNVEYLAS--- 337
P+ K I S + + HK++ C + +N + + YL
Sbjct: 279 -ICPEYRHLMKGIESADSFNFNPHKWMLVNFDCSAMWLKDPSWVVNAFNVDPLYLKHDMQ 337
Query: 338 ------RDATIMGSRNGHAPIF----LWYTLNRKGYKGFQKEVQKCLRNAHYLKDRLLDA 387
R I R F LW+ L G + Q +++ A D +
Sbjct: 338 GSAPDYRHWQIPLGRR-----FRALKLWFVLRLYGVENLQAHIRRHCNFAKQFGDLCVAD 392
Query: 388 GISAMLNELS-STVVF-ERPQDE---EFVRRWQLACQGNIAH-----------VVVMPNV 431
+ E++ V F + +E ++R ++ +
Sbjct: 393 SRFELAAEINMGLVCFRLKGSNERNEALLKRINGRGHIHLVPAKIKDVYFLRMAICSRFT 452
Query: 432 TIDKLDDFLNELIE 445
+ ++ E+
Sbjct: 453 QSEDMEYSWKEVSA 466
>2z67_A O-phosphoseryl-tRNA(SEC) selenium transferase; selenocysteine
biosynthesis, seven-stranded BETE-strand, PYR
5'-phosphate; HET: PLP; 2.50A {Methanococcus
maripaludis} SCOP: c.67.1.9
Length = 456
Score = 99.7 bits (248), Expect = 8e-23
Identities = 43/339 (12%), Positives = 99/339 (29%), Gaps = 47/339 (13%)
Query: 137 SRQFEVGVLDWFARLWELENNEYWGYITNCGTEGNLHGIL-VGREVFPDGILYASRESHY 195
+ ++ T T ++ L R+ + ++ SH
Sbjct: 128 ASIMYALTNKILESFFKQLGLNVHAIATPISTGMSISLCLSAARKKYGSNVVIYPYASHK 187
Query: 196 SVFKAARMYRMECVKVDCLISGE---IDCADFKAKLLQNKDKPAIINV--NIGTTVKGAV 250
S KA M V+ ++ G+ + D + + + + V +
Sbjct: 188 SPIKAVSFVGMNMRLVETVLDGDRVYVPVEDIENAIKKEIELGNRPCVLSTLTFFPPRNS 247
Query: 251 DDLDLVIQTLEESGFTQDRFYIHCDGALFGLMMPFVKKAPKVSFKKPIGSVSVSGHKFVG 310
DD+ + + E +GA + + + + K +FK + +V S K +
Sbjct: 248 DDIVEIAKICENYDI-----PHIINGA-YAIQNNYYLEKLKKAFKYRVDAVVSSSDKNLL 301
Query: 311 CPMPCGVQITRMEHINVLSSNVEYLASRDATIMGSRNGHAPIFLWYTLNRKGYKGFQKEV 370
P+ G+ V S++ E++ + G + + +L G K + + V
Sbjct: 302 TPIGGGL---------VYSTDAEFIKEISLSYPGRASATPVVNTLVSLLSMGSKNYLELV 352
Query: 371 QKCLRNAHYLKDRLLDAGISAMLNEL----SSTVVFERPQDEEFV------------RRW 414
+ + L + L D L D + R
Sbjct: 353 KNQKNSKKLLDELLNDLSKKTGGKFLDVESPIASCISVNSDPVEIAAKLYNLRVTGPRGI 412
Query: 415 QLACQGNIAHVVVMP----------NVTIDKLDDFLNEL 443
+ ++ V + + + +++L
Sbjct: 413 KKTDHFGNCYLGTYTHDYIVMNAAIGVRTEDIVNSVSKL 451
>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 = 57.0 bits (137), Expect = 1e-08
Identities = 91/546 (16%), Positives = 150/546 (27%), Gaps = 231/546 (42%)
Query: 13 LAEKF-GPVFDPTAVVAEPVPPVVTENGH-----ELKHKTAEKEIVLGKNVHASCFSVTE 66
L KF G + V+ V P ++ G L E + G ++HA +
Sbjct: 60 LVGKFLG--Y-----VSSLVEP--SKVGQFDQVLNLCLTEFENCYLEGNDIHA--LAAKL 108
Query: 67 PEADDEFTGDKEA-----YMAGVLARYRKTLMERTKHHL------------------GYP 103
+ +D + A ++A+ + +++ L G
Sbjct: 109 LQENDTTLVKTKELIKNYITARIMAK--RPFDKKSNSALFRAVGEGNAQLVAIFGGQGNT 166
Query: 104 --YNLDFD--------YGALAQ-LQHFSINNLGDPFIESNYGVHSRQFEVG--VLDWFAR 150
Y F+ Y L L FS L I + + F G +L+W
Sbjct: 167 DDY---FEELRDLYQTYHVLVGDLIKFSAETL-SELIRTTLDA-EKVFTQGLNILEW--- 218
Query: 151 LWELEN------NEY-------W---G------YITNC---G-TEGNLHGILVGREVFPD 184
LEN +Y G Y+ G T G L L G
Sbjct: 219 ---LENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQ 275
Query: 185 GILYA-------SRESHYSVFKAARMYRM------ECVKV------------DCLISGE- 218
G++ A S ES + + + C + D L + E
Sbjct: 276 GLVTAVAIAETDSWESFFVS--VRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEG 333
Query: 219 -----IDCADFKAKLLQ------NKDKPA-----IINVNIGTT---VKGAVDDLDLVIQT 259
+ ++ + +Q N PA I VN G V G L + T
Sbjct: 334 VPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVN-GAKNLVVSGPPQSLYGLNLT 392
Query: 260 LEE----SGFTQDRFYIHCDGALFGLMMPFVKKAPKVSFKKPIGSVSVSGHKF--VGCPM 313
L + SG Q R +PF ++ K S ++F V P
Sbjct: 393 LRKAKAPSGLDQSR-------------IPFSERKLKFS------------NRFLPVASP- 426
Query: 314 PCGVQITRMEHINVLSSNVEYLASRDATIMGSRNGHAPIFLWYTLNRKGYKGFQKEVQKC 373
H S L A+ + +++ +
Sbjct: 427 ---------FH----SH---LLV--PASDLINKDLVKNNVSF------------------ 450
Query: 374 LRNAHYLK----------D-RLLDAGISAMLNELSSTVVFERPQDEEFVRRWQLACQGNI 422
NA ++ D R+L IS + + + P W+ Q
Sbjct: 451 --NAKDIQIPVYDTFDGSDLRVLSGSISERIVDC----IIRLPVK------WETTTQFKA 498
Query: 423 AHVVVM 428
H++
Sbjct: 499 THILDF 504
Score = 49.7 bits (118), Expect = 2e-06
Identities = 73/490 (14%), Positives = 147/490 (30%), Gaps = 174/490 (35%)
Query: 42 LKHKTAEKEIVLGKNVH--AS----CFSVTEPEADDEFTGDKE-AYMAGVLARYRKTLME 94
L H + E +++ AS F+ PE + F D E A ++ ++
Sbjct: 11 LSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKF------ 64
Query: 95 RTKHHLGY------PYNL-DFDYGALAQLQHFSINNLGDPFIESNYGVHSRQFEVGVLDW 147
LGY P + FD L F E+ Y
Sbjct: 65 -----LGYVSSLVEPSKVGQFDQVLNLCLTEF----------ENCY-------------- 95
Query: 148 FARLWELENNEYWGYITNCGTEGNLHGILVGREVFPDGILYASRE--SHYSVFKAARMYR 205
LE N ++H + D L ++E +Y A
Sbjct: 96 ------LEGN-------------DIHALAAKLLQENDTTLVKTKELIKNY--ITA----- 129
Query: 206 MECVKVDCLISGEIDCADFKAKLLQN-KDKPAII--------NVN--------IGTTVKG 248
+++ + L + + A + N + + T
Sbjct: 130 -------RIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHV 182
Query: 249 AVDDL-DLVIQTLEE---SGFTQDRFYIH-CDGALFG-LMMPFVKKAPKVSFKKPIGSVS 302
V DL +TL E + ++ + + + L P P + + S+
Sbjct: 183 LVGDLIKFSAETLSELIRTTLDAEKVFTQGLN--ILEWLENP--SNTPDKDY---LLSIP 235
Query: 303 VSGHKFVGCPMPCGVQITRMEHINVLSSNVEYLASRDATIMGSRNGH-APIFLWYTLNRK 361
+S CP+ + + ++ H Y+ + A ++G G T + +
Sbjct: 236 IS------CPL---IGVIQLAH---------YVVT--AKLLGFTPGELRSYLKGATGHSQ 275
Query: 362 G------------YKGFQKEVQKCLRNAHYLKDRLLDAGISAMLNELSSTVVFERPQDEE 409
G ++ F V+K + ++ R +A L +++ + ++ E
Sbjct: 276 GLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEA---YPNTSLPPSILEDSLENNE 332
Query: 410 FVRRWQLACQGNIAHVVVMPNVTIDKLDDFLNELIENRSTWYEDGKRQPP----CIAADI 465
V L+ +T +++ D++N+ N P I+
Sbjct: 333 GVPSPMLSISN----------LTQEQVQDYVNKT--N--------SHLPAGKQVEISLVN 372
Query: 466 GSENCVCAAH 475
G++N V +
Sbjct: 373 GAKNLVVSGP 382
>3hl2_A O-phosphoseryl-tRNA(SEC) selenium transferase; selenocysteine,
sepsecs, protein-RNA complex, alternative splicing,
cytoplasm, protein biosynthesis, pyridoxal phosphate,
selenium; HET: PLR SEP; 2.81A {Homo sapiens}
Length = 501
Score = 55.1 bits (132), Expect = 3e-08
Identities = 30/202 (14%), Positives = 67/202 (33%), Gaps = 24/202 (11%)
Query: 190 SRESHYSVFKAARMYRMECVKVDCLISGEIDCADFKA--KLLQNKDKPAIINVNIGTTVK 247
R S FK+ E V ++ ++ G+ D KA +Q I+ ++ T+
Sbjct: 168 PRIDQKSCFKSMITAGFEPVVIENVLEGDELRTDLKAVEAKVQELGPDCILCIHSTTSCF 227
Query: 248 G--AVDDLDLVIQTLEESG---FTQDRFYIHCDGALFGLMMPFVKKAPKVSFKKPIGSVS 302
D L+ + + + + M +++ +V I +
Sbjct: 228 APRVPDRLEELAVICANYDIPHIVNNAYGVQSSKC-----MHLIQQGARV---GRIDAFV 279
Query: 303 VSGHKFVGCPMPCGVQITRMEHINVLSSNVEYLASRDATIMGSRNGHAPIFLWYTLNRKG 362
S K P+ + + N ++ G + + + TL G
Sbjct: 280 QSLDKNFMVPVGGAI---------IAGFNDSFIQEISKMYPGRASASPSLDVLITLLSLG 330
Query: 363 YKGFQKEVQKCLRNAHYLKDRL 384
G++K +++ YL +++
Sbjct: 331 SNGYKKLLKERKEMFSYLSNQI 352
>3bc8_A O-phosphoseryl-tRNA(SEC) selenium transferase; disorder-order
transition, phosphate-loop, pyridoxal phospha
selenocysteine synthase (SECS, sepsecs); HET: LLP; 1.65A
{Mus musculus} SCOP: c.67.1.9 PDB: 3bca_A* 3bcb_A*
Length = 450
Score = 53.5 bits (128), Expect = 7e-08
Identities = 30/203 (14%), Positives = 67/203 (33%), Gaps = 26/203 (12%)
Query: 190 SRESHYSVFKAARMYRMECVKVDCLISGE---IDCADFKAKLLQNKDKPAIINVNIGTTV 246
R S FK+ E V ++ ++ G+ D +AK+ + + I+ ++ T
Sbjct: 150 PRIDQKSCFKSMVTAGFEPVVIENVLEGDELRTDLKAVEAKIQELGPE-HILCLHSTTAC 208
Query: 247 KGAV--DDLDLVIQTLEESG---FTQDRFYIHCDGALFGLMMPFVKKAPKVSFKKPIGSV 301
D L+ + + + + M +++ +V I +
Sbjct: 209 FAPRVPDRLEELAVICANYDIPHVVNNAYGLQSSKC-----MHLIQQGARV---GRIDAF 260
Query: 302 SVSGHKFVGCPMPCGVQITRMEHINVLSSNVEYLASRDATIMGSRNGHAPIFLWYTLNRK 361
S K P+ + + N ++ G + + + TL
Sbjct: 261 VQSLDKNFMVPVGGAI---------IAGFNEPFIQDISKMYPGRASASPSLDVLITLLSL 311
Query: 362 GYKGFQKEVQKCLRNAHYLKDRL 384
G G++K +++ YL +L
Sbjct: 312 GCSGYRKLLKERKEMFVYLSTQL 334
>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 = 36.8 bits (84), Expect = 0.019
Identities = 41/310 (13%), Positives = 81/310 (26%), Gaps = 91/310 (29%)
Query: 19 PVFDPTAV-------VAEPVPPVVTENGHELKHKTAEKEIVLGKNVHASCFSVTEPEADD 71
VF+ V V + ++++ E+ H K+ V G + E
Sbjct: 23 SVFEDAFVDNFDCKDVQDMPKSILSKE--EIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQ 80
Query: 72 EFTGDKEAYMAGVLA-RYRKTLMERTKHHLGYPYNLDFDYG------------------- 111
+F + L + + + Y D Y
Sbjct: 81 KFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKL 140
Query: 112 --ALAQLQHFSINNLGDPFIESNYGVHSRQFEVG------------VLDWFARLWELENN 157
AL +L+ N + G V + +++
Sbjct: 141 RQALLELRP-----------AKNVLID------GVLGSGKTWVALDVCLSYKVQCKMDFK 183
Query: 158 EYWGYITNCGTEGNLHGILVG--REVFPDGILYASRESHY-----SVFKAARMYRMECVK 210
+W + NC + + +L ++ P+ + S+ S+ R
Sbjct: 184 IFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPY 243
Query: 211 VDCLI-------SGEIDCADFKAKLLQNKDKPAIINVNIGTTVKGAVDDLDLVIQT---L 260
+CL+ + + + K+L + T K D L T L
Sbjct: 244 ENCLLVLLNVQNAKAWNAFNLSCKIL------------LTTRFKQVTDFLSAATTTHISL 291
Query: 261 EE--SGFTQD 268
+ T D
Sbjct: 292 DHHSMTLTPD 301
Score = 28.3 bits (62), Expect = 6.5
Identities = 35/225 (15%), Positives = 62/225 (27%), Gaps = 74/225 (32%)
Query: 113 LAQLQHFSINNLGDPFIESNYGVHSRQFEVGVLDWFARLWELENNEYWGYITNCGTEGNL 172
+ +L +S+ P ES + S E+ +LEN E L
Sbjct: 408 VNKLHKYSLVE-KQPK-ESTISIPSIYLEL--------KVKLEN------------EYAL 445
Query: 173 HGILVGR----EVFPDGILYASRESHYSVF------KAARMYRMECVKVDCLISGEIDCA 222
H +V + F L Y K + +
Sbjct: 446 HRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFL------- 498
Query: 223 DFKAKLLQNKDKPAIINVNIGTTVKGAVDDLDLVIQTLEESGFTQDRFYIHCDG-----A 277
DF + L+ K I + + G++ + +Q L+ + YI CD
Sbjct: 499 DF--RFLEQK----IRHDSTAWNASGSILNT---LQQLKFY-----KPYI-CDNDPKYER 543
Query: 278 LFGLMMPFVKKAPKVSFKKPIGSVSVSGHKFVGCPMPCGVQITRM 322
L ++ F+ K + ++I M
Sbjct: 544 LVNAILDFLPKI---------------EENLICSKYTDLLRIALM 573
>1xvi_A MPGP, YEDP, putative mannosyl-3-phosphoglycerate phosphatase;
hypothetical protein, conserved protein, phophatase-like
domain; HET: 1PE PG4 PGE; 2.26A {Escherichia coli K12}
SCOP: c.108.1.10
Length = 275
Score = 29.2 bits (65), Expect = 2.5
Identities = 19/129 (14%), Positives = 32/129 (24%), Gaps = 1/129 (0%)
Query: 121 INNLGDPFIESNYGVHSRQFEVGVLDWFARLWELENNEYWGYITNCGTEGNLHGILVGRE 180
+ G P I N V + +D F R+ ++ + N E +
Sbjct: 63 LGLQGLPLIAENGAVIQLAEQWQEIDGFPRIISGISHGEISLVLNTLREKEHFKFTTFDD 122
Query: 181 VFPDGILYASRESHYSVFKAA-RMYRMECVKVDCLISGEIDCADFKAKLLQNKDKPAIIN 239
V I + S + + D A LQ +
Sbjct: 123 VDDATIAEWTGLSRSQAALTQLHEASVTLIWRDSDERMAQFTARLNELGLQFMQGARFWH 182
Query: 240 VNIGTTVKG 248
V + K
Sbjct: 183 VLDASAGKD 191
>3jux_A Protein translocase subunit SECA; protein translocation, ATPase,
conformational change, peptide binding, ATP-binding,
cell inner membrane; HET: ADP; 3.10A {Thermotoga
maritima} PDB: 3din_A*
Length = 822
Score = 29.2 bits (66), Expect = 3.9
Identities = 10/23 (43%), Positives = 14/23 (60%), Gaps = 6/23 (26%)
Query: 333 EYLASRDATIMGSRNGHAPIFLW 355
+YLA RDA MG P++L+
Sbjct: 126 DYLARRDALWMG------PVYLF 142
>1wyu_B Glycine dehydrogenase subunit 2 (P-protein); alpha(2)beta(2)
tetramer, riken structural genomics/proteomi initiative,
RSGI; HET: PLP; 2.10A {Thermus thermophilus} SCOP:
c.67.1.7 PDB: 1wyt_B* 1wyv_B*
Length = 474
Score = 29.1 bits (66), Expect = 4.1
Identities = 7/28 (25%), Positives = 12/28 (42%)
Query: 201 ARMYRMECVKVDCLISGEIDCADFKAKL 228
A M + ++ GE+D K +L
Sbjct: 173 ASMAGYQVREIPSGPEGEVDLEALKREL 200
>1tf5_A Preprotein translocase SECA subunit; ATPase, helicase,
translocation, secretion, protein transport; 2.18A
{Bacillus subtilis} SCOP: a.162.1.1 a.172.1.1 c.37.1.19
c.37.1.19 PDB: 1tf2_A 3iqy_A 1m6n_A 1m74_A* 3iqm_A
3jv2_A* 2ibm_A* 3dl8_A 1sx0_A 1sx1_A 1tm6_A
Length = 844
Score = 29.1 bits (66), Expect = 4.3
Identities = 10/12 (83%), Positives = 10/12 (83%)
Query: 333 EYLASRDATIMG 344
EYLASRDA MG
Sbjct: 134 EYLASRDAEQMG 145
>3r8n_C 30S ribosomal protein S3; protein biosynthesis, RNA, tRNA, transfer
RNA, 16S ribosomal subunit, RRF; 3.00A {Escherichia
coli} PDB: 2gyb_C 2gy9_C* 2ykr_C 3fih_C* 2wwl_C 3oar_C
3oaq_C 3ofb_C 3ofa_C 3ofp_C 3ofx_C 3ofy_C 3ofo_C 3r8o_C
4a2i_C
Length = 206
Score = 28.3 bits (64), Expect = 4.3
Identities = 14/53 (26%), Positives = 19/53 (35%), Gaps = 12/53 (22%)
Query: 355 WYTLNRKGYKGFQKEVQKCLRNAHYLKDRLLDAGISAMLNELSSTVVFERPQD 407
W+ N K + K +R YL L A + S +V ERP
Sbjct: 21 WFA-NTKEFADNLDSDFK-VRQ--YLTKELAKASV--------SRIVIERPAK 61
>3i1m_C 30S ribosomal protein S3; ribosome structure, protein-RNA complex,
ribonucleoprotein, ribosomal protein, RNA-binding,
rRNA-binding, antibiotic resistance; 3.19A {Escherichia
coli k-12} PDB: 1vs7_C* 3e1a_O 3e1c_O 1vs5_C 3i1o_C
3i1q_C 3i1s_C 3i1z_C 3i21_C 3izv_G* 3izw_G* 3kc4_C
3or9_C 3ora_C 3sfs_C* 3uoq_C* 2qal_C* 1p6g_C 1p87_C
2aw7_C ...
Length = 233
Score = 28.3 bits (64), Expect = 4.3
Identities = 14/53 (26%), Positives = 19/53 (35%), Gaps = 12/53 (22%)
Query: 355 WYTLNRKGYKGFQKEVQKCLRNAHYLKDRLLDAGISAMLNELSSTVVFERPQD 407
W+ N K + K +R YL L A + S +V ERP
Sbjct: 22 WFA-NTKEFADNLDSDFK-VRQ--YLTKELAKASV--------SRIVIERPAK 62
>2vqe_C 30S ribosomal protein S3; tRNA-binding, rRNA-binding,
metal-binding, zinc-finger, translation; HET: TM2 PAR;
2.5A {Thermus thermophilus} PDB: 1gix_F* 1hnw_C* 1hnx_C*
1hnz_C* 1hr0_C 1ibk_C* 1ibl_C* 1ibm_C 1j5e_C 1jgo_F*
1jgp_F* 1jgq_F* 1ml5_F* 1n32_C* 1n33_C* 1n34_C 1n36_C
1xmo_C* 1xmq_C* 1xnq_C* ...
Length = 239
Score = 28.4 bits (64), Expect = 4.5
Identities = 15/53 (28%), Positives = 22/53 (41%), Gaps = 12/53 (22%)
Query: 355 WYTLNRKGYKGFQKEVQKCLRNAHYLKDRLLDAGISAMLNELSSTVVFERPQD 407
WY +K Y+ E Q+ +R L+ L AG+ + V ER D
Sbjct: 22 WYA-GKKQYRHLLLEDQR-IRG--LLEKELYSAGL--------ARVDIERAAD 62
>1wyu_A Glycine dehydrogenase (decarboxylating) subunit 1; alpha(2)beta(2)
tetramer, riken structural genomics/proteomi initiative,
RSGI; HET: PLP; 2.10A {Thermus thermophilus} SCOP:
c.67.1.7 PDB: 1wyt_A* 1wyv_A*
Length = 438
Score = 28.7 bits (65), Expect = 5.1
Identities = 14/54 (25%), Positives = 20/54 (37%), Gaps = 2/54 (3%)
Query: 362 GYKGFQKEVQKCLRNAHYLKDRLLDAGISAMLNELSS--TVVFERPQDEEFVRR 413
G +G ++ K + AH L LL+ P+D E VRR
Sbjct: 338 GPEGLREVALKSVEMAHKLHALLLEVPGVRPFTPKPFFNEFALALPKDPEAVRR 391
>2ol5_A PAI 2 protein; structural genomics, PSI-2, protein structure
initiative, midwest center for structural genomics,
MCSG; 2.50A {Geobacillus stearothermophilus}
Length = 202
Score = 27.9 bits (61), Expect = 5.5
Identities = 15/82 (18%), Positives = 25/82 (30%), Gaps = 16/82 (19%)
Query: 188 YASRESHYSVFKAARMYRMECVKVDCLISGEIDCADFKAKLLQNKDKPAIINVNIGTTVK 247
Y + S Y + + K I + KAKL QN
Sbjct: 126 YEAPGSRYQLSEVDAGMLSGMNKGIQAFKIIIKRIEGKAKLSQNHPA------------- 172
Query: 248 GAVDDLDLVIQTLEESGFTQDR 269
+ +I+ LE+ F ++
Sbjct: 173 ---HRQERIIKQLEQMPFENEK 191
>2zt5_A Glycyl-tRNA synthetase; ligase, AP4A, glycine, ATP, Gly-AMP,
aminoacyl-tRNA synthetase, ATP-binding,
charcot-marie-tooth disease, disease mutation; HET: B4P;
2.50A {Homo sapiens} PDB: 2pme_A* 2zt6_A* 2zt7_A*
2zt8_A* 2zxf_A* 2pmf_A 2q5h_A 2q5i_A
Length = 693
Score = 28.5 bits (63), Expect = 6.0
Identities = 7/29 (24%), Positives = 11/29 (37%)
Query: 431 VTIDKLDDFLNELIENRSTWYEDGKRQPP 459
I +L + +L TW + R P
Sbjct: 643 AEISELPSIVQDLANGNITWADVEARYPL 671
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
0.321 0.137 0.422
Gapped
Lambda K H
0.267 0.0679 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,608,367
Number of extensions: 472286
Number of successful extensions: 1114
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1054
Number of HSP's successfully gapped: 33
Length of query: 476
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 379
Effective length of database: 3,993,456
Effective search space: 1513519824
Effective search space used: 1513519824
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 59 (26.6 bits)