RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4044
(460 letters)
>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 = 62.9 bits (152), Expect = 1e-10
Identities = 72/448 (16%), Positives = 126/448 (28%), Gaps = 167/448 (37%)
Query: 79 FQDLGD--RAFLSLKKF-HLINHFRVPDFLQRGDFLVKIDLSQ----------------- 118
+D+ D ++ LS ++ H+I D + L LS+
Sbjct: 35 CKDVQDMPKSILSKEEIDHIIM---SKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINY 91
Query: 119 -----AYFHVPIRPSHQRFLSVVYRDTLYCMTCLPFGLASAPQVFAKLTNW-------IA 166
+PS + + RD LY + QVFAK +
Sbjct: 92 KFLMSPIKTEQRQPSMMTRMYIEQRDRLY----------NDNQVFAKYNVSRLQPYLKLR 141
Query: 167 NYLRNL--GMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLR----------W----S 210
L L V++ +LG+ + + A+ S + W +
Sbjct: 142 QALLELRPAKNVLID---GVLGSGKTWV-------ALDVCLSYKVQCKMDFKIFWLNLKN 191
Query: 211 VNLERSVLWPVQT-CQYLGIMWNPTLD-SKSLPLEKQSTIQRYLLTLTQIQWWSVALHRS 268
N +VL +Q + W D S ++ L S IQ L L ++ + +
Sbjct: 192 CNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS-IQAELRRL--LKSKP---YEN 245
Query: 269 SPIFPQAPQVFVSTDASNSGWGAIVDNHSLGGVWSDHQEMWHINLKEMFAVRSALERKLP 328
+ ++ N V + F + + L
Sbjct: 246 CLL--------------------VLLN-----VQN----AKAW---NAFNLSC---KILL 270
Query: 329 VLQDKVVL--IQSDNQTVVSYIHKEGG-TKSFKLLREVEALF---------DL---AVRH 373
+ K V + + T +S H T EV++L DL +
Sbjct: 271 TTRFKQVTDFLSAATTTHISLDHHSMTLTPD-----EVKSLLLKYLDCRPQDLPREVLTT 325
Query: 374 N---ITLMARYIPGKFNTW-------ADSLSRQKELPDWHLLPEVTQHIFAQWGVPEIDL 423
N ++++A I TW D L+ E L P + +F + V
Sbjct: 326 NPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV----- 380
Query: 424 FATANSAAFLVQGGPLKFPDGIN-PIST 450
FP + P
Sbjct: 381 -----------------FPPSAHIPTIL 391
Score = 37.1 bits (85), Expect = 0.012
Identities = 49/313 (15%), Positives = 94/313 (30%), Gaps = 96/313 (30%)
Query: 162 TNWIANYLRNLGMRVIVYLDDLL-LGN-QDS-----------VLLRSQARAAVATLQSLR 208
+ I LR L ++ Y + LL L N Q++ +LL ++ + L +
Sbjct: 227 IHSIQAELRRL-LKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAAT 285
Query: 209 W---SVNLERSVLWPVQT----CQYLGIMWN--PTLDSKSLPL----------EKQSTIQ 249
S++ L P + +YL P + P + +T
Sbjct: 286 TTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWD 345
Query: 250 RYLL----TLTQIQWWSV---------ALHRSSPIFPQAPQVFVSTDASNSGWGAIVDNH 296
+ LT I S+ + +FP P + T
Sbjct: 346 NWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFP--PSAHIPTIL------------ 391
Query: 297 SLGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVSYIHKEGGTKS 356
L +W D + ++ V + L + L++ + I +
Sbjct: 392 -LSLIWFDVIK------SDVMVVVNKLHKYS--------LVEKQPKESTISIP----SIY 432
Query: 357 FKLLREVEALFDLAVRHNITLMARY-IPGKFNTWADSLSRQKELPD----WHLLPEVTQH 411
+L ++E + L H +++ Y IP F++ D H+ H
Sbjct: 433 LELKVKLENEYAL---HR-SIVDHYNIPKTFDSDDLIPPYL----DQYFYSHI----GHH 480
Query: 412 IFAQWGVPEIDLF 424
+ + LF
Sbjct: 481 LKNIEHPERMTLF 493
Score = 34.1 bits (77), Expect = 0.11
Identities = 17/126 (13%), Positives = 36/126 (28%), Gaps = 32/126 (25%)
Query: 65 RVHDLTL-LLSSRDGFQDLGDRAFLSLKKFH--LINHFRVPDFLQRGDFLVKIDLSQAYF 121
+ + L L + L H +++H+ +P D + Y
Sbjct: 427 SIPSIYLELKVKLENEYAL-----------HRSIVDHYNIPKTFDSDDLIPPYLDQYFYS 475
Query: 122 HVPIRPSHQRFLSVVYRDTLYCMTCLPFGLASAPQVFAKLTNWIANYLRNLGM--RVIVY 179
H+ H + + R TL+ VF ++ +R+
Sbjct: 476 HI---GHHLKNIEHPERMTLF------------RMVFLDF-RFLEQKIRHDSTAWNASGS 519
Query: 180 LDDLLL 185
+ + L
Sbjct: 520 ILNTLQ 525
Score = 32.9 bits (74), Expect = 0.24
Identities = 56/357 (15%), Positives = 99/357 (27%), Gaps = 118/357 (33%)
Query: 6 FRQILKAISLKRAIGLLEKREIWDVSTLISWISDHPPNQDSFFEVARHTAILLLLCSGRR 65
R++LK+ + LL + + ++F L C
Sbjct: 234 LRRLLKSKPYENC--LLVLLNVQNAKAW-----------NAF----------NLSC---- 266
Query: 66 VHDLTLLLSSRDGFQDLGDRAFLSLKKFHLINHFRVPDFLQRGDFLVKIDLSQAYFHVPI 125
+LL++R + + D + ++H + L + L Y
Sbjct: 267 ----KILLTTRF--KQVTDFLSAATTTHISLDHHSMT--LTPDEVK---SLLLKYLDCRP 315
Query: 126 R--PSHQRFLSVVYRDTLYCMTCLPFGLASAPQVFAKLTNWIA--NYLRNLGMRVIVYLD 181
+ P T P L+ + + +A + +++ + +
Sbjct: 316 QDLPREVL-------------TTNPRRLSIIA---ESIRDGLATWDNWKHVNCDKLTTII 359
Query: 182 DLLLGNQDSVLLRSQARAAVATLQSLRWSVNLERSVLWPVQTCQYLGIMWNP-------- 233
+ L + R L SV S P L ++W
Sbjct: 360 ESSLNVLEPAEYRKM-------FDRL--SV-FPPSAHIPTIL---LSLIWFDVIKSDVMV 406
Query: 234 ---TLDSKSLPLEKQ---STIQ---RYLLTLTQIQWWSVALHRSSPIFPQAPQVFVSTDA 284
L SL +EKQ STI YL +++ ALHRS V
Sbjct: 407 VVNKLHKYSL-VEKQPKESTISIPSIYLELKVKLE-NEYALHRS----------IVDHYN 454
Query: 285 SNSGWGAIVDNHSLGGVWSDHQEMWHI-------NLKEMFAVRSA-------LERKL 327
+ D+ L + D HI E + LE+K+
Sbjct: 455 IPKTF----DSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKI 507
>1rw3_A POL polyprotein; RNA and DNA dependent DNA polymerase, reverse
transcriptase, transferase, replication; 3.00A {Moloney
murine leukemia virus} SCOP: e.8.1.2
Length = 455
Score = 57.3 bits (139), Expect = 4e-09
Identities = 29/124 (23%), Positives = 61/124 (49%), Gaps = 9/124 (7%)
Query: 113 KIDLSQAYFHVPIRPSHQRFLSVVYRDT------LYCMTCLPFGLASAPQVFAKLTNWI- 165
+DL A+F + + P+ Q + +RD T LP G ++P +F + +
Sbjct: 129 VLDLKDAFFCLRLHPTSQPLFAFEWRDPEMGISGQLTWTRLPQGFKNSPTLFDEALHRDL 188
Query: 166 ANYL-RNLGMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVNLERSVLWPVQTC 224
A++ ++ + ++ Y+DDLLL + + RA + TL +L + + +++ + +
Sbjct: 189 ADFRIQHPDLILLQYVDDLLLAATSELDCQQGTRALLQTLGNLGYRASAKKAQIC-QKQV 247
Query: 225 QYLG 228
+YLG
Sbjct: 248 KYLG 251
Score = 33.1 bits (76), Expect = 0.18
Identities = 10/88 (11%), Positives = 27/88 (30%), Gaps = 14/88 (15%)
Query: 268 SSPI--FPQAPQVF-VSTDASNSGWGAIVDNHSLGGVW----------SDHQEMWHINLK 314
++P P + F + D ++ LG W L+
Sbjct: 334 TAPALGLPDLTKPFELFVDEKQGYAKGVL-TQKLGPWRRPVAYLSKKLDPVAAGWPPCLR 392
Query: 315 EMFAVRSALERKLPVLQDKVVLIQSDNQ 342
+ A+ + + + ++I++ +
Sbjct: 393 MVAAIAVLTKDAGKLTMGQPLVIKAPHA 420
>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 = 52.7 bits (126), Expect = 2e-07
Identities = 84/560 (15%), Positives = 147/560 (26%), Gaps = 216/560 (38%)
Query: 10 LKAISLKRAI----GLLEKREIWDVSTLISWI----------SDHPPNQDSFFE------ 49
+ A S R + G LE V T S+ P + F
Sbjct: 1 MDAYST-RPLTLSHGSLEHV--LLVPTA-SFFIASQLQEQFNKILPEPTEGFAADDEPTT 56
Query: 50 ----VAR---HTAILLLLCSGRRVHDLTLLLSSRDGFQDLGDRAFLSLKKFH-LINHFRV 101
V + + + L+ + +L F+ +L H L
Sbjct: 57 PAELVGKFLGYVSSLVE--PSKVGQFDQVLNLCLTEFE----NCYLEGNDIHALAAKLLQ 110
Query: 102 PDFLQRGDFLVKIDLSQAYFHV------PIRPSHQ-RFLSVVYRDTLYCMTCLPFGLASA 154
+ + +L + Y P V + FG
Sbjct: 111 EN---DTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAI--FG---- 161
Query: 155 PQVFAKLTNWIANYLRNLGMRVIVYLDDLLLGNQD-----SVLLRSQARAAVATLQSLRW 209
Q G Y ++L +D VL+ + + TL L
Sbjct: 162 GQ----------------GN-TDDYFEEL----RDLYQTYHVLVGDLIKFSAETLSELI- 199
Query: 210 SVNLERSVLWPVQTCQYLGIM-W--NPT-------LDSK--SLPLEKQSTIQRYLLTLTQ 257
L+ ++ Q L I+ W NP+ L S S PL + + Q
Sbjct: 200 RTTLDAEKVFT----QGLNILEWLENPSNTPDKDYLLSIPISCPL----------IGVIQ 245
Query: 258 IQWWSVALHRS--SP--IFPQ-------------APQVFVSTDASNSGWGAIVDNHSLG- 299
+ + V +P + A V ++ ++S W + +
Sbjct: 246 LAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTA--VAIA--ETDS-WESFFVSVRKAI 300
Query: 300 ------GVWSDHQEMWHINLKE----------------MFAVR----SALE-------RK 326
GV ++ + +L M ++ ++
Sbjct: 301 TVLFFIGVRC-YEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSH 359
Query: 327 LPVLQDKVV---LIQSDNQTVVSYIHKEGGTKS---FKL-LREVEALFDL---AVRHN-- 374
LP K V L+ VVS G +S L LR+ +A L + +
Sbjct: 360 LP--AGKQVEISLVNGAKNLVVS-----GPPQSLYGLNLTLRKAKAPSGLDQSRIPFSER 412
Query: 375 -ITLMARYIP--GKFNTWADSLSRQKELPDWHLLPEVTQHIFAQWGVPEIDLFATANSAA 431
+ R++P F++ HLL + I DL
Sbjct: 413 KLKFSNRFLPVASPFHS--------------HLLVPASDLINK-------DL----VKNN 447
Query: 432 FLVQGGPLKFP-----DGIN 446
++ P DG +
Sbjct: 448 VSFNAKDIQIPVYDTFDGSD 467
Score = 36.6 bits (84), Expect = 0.023
Identities = 55/279 (19%), Positives = 88/279 (31%), Gaps = 108/279 (38%)
Query: 6 FRQILKAISLKRAIGLLEKREIWDVSTLI----SWISDHPPNQDSFFEVARHTAILLLLC 61
R LK + + GL+ + I SW +SFF R AI +L
Sbjct: 263 LRSYLKGATG-HSQGLV-------TAVAIAETDSW--------ESFFVSVR-KAITVLFF 305
Query: 62 SGRRVHDL----------------------TLLLS----SRDGFQDLGDRAFLSL---KK 92
G R ++ + +LS +++ QD ++ L K+
Sbjct: 306 IGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQ 365
Query: 93 FH--LIN---HFRV---PDFLQRGDF-LVKI----DLSQAYFHVP-----IRPSHQRFLS 134
L+N + V P L + L K L Q+ +P ++ S+ RFL
Sbjct: 366 VEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQS--RIPFSERKLKFSN-RFLP 422
Query: 135 VVYRDTLYCMTCLPF---GLASA-PQVFAKLTN----WIANYLRNLGMRVIVYLDDLLLG 186
V PF L A + L + A + ++ VY D G
Sbjct: 423 V---------AS-PFHSHLLVPASDLINKDLVKNNVSFNAKDI-----QIPVY--DTFDG 465
Query: 187 NQDSVLLRSQARAAVATL--QSLRWSVNLERSVLWPVQT 223
D LR + + + +R V W T
Sbjct: 466 -SD---LRVLSGSISERIVDCIIRLPVK------WETTT 494
Score = 36.6 bits (84), Expect = 0.023
Identities = 24/124 (19%), Positives = 42/124 (33%), Gaps = 32/124 (25%)
Query: 318 AVRSALERKLPVLQDK----VVLIQSDNQTVVSYIHKEGGTKSFKLLREVEALFDLAVRH 373
A + R +D ++ I +N + IH GG K K +RE
Sbjct: 1641 AAQDVWNRADNHFKDTYGFSILDIVINNPVNL-TIH-FGGEKG-KRIRE----------- 1686
Query: 374 NITLMARYIPGKFNTWADSLSRQKELPDWHLLPEVTQHIFAQ-WGVPEIDLFATANS--A 430
Y F T D + +++ E+ +H + + + L AT + A
Sbjct: 1687 ------NYSAMIFETIVDGKLKTEKI-----FKEINEHSTSYTFRSEKGLLSATQFTQPA 1735
Query: 431 AFLV 434
L+
Sbjct: 1736 LTLM 1739
Score = 32.7 bits (74), Expect = 0.33
Identities = 40/234 (17%), Positives = 65/234 (27%), Gaps = 101/234 (43%)
Query: 25 REIWD------VSTL---ISWIS-DHPPNQDSFFEVARHTAILLLLCSGRRVHDLTLLLS 74
+++W+ T I I ++P N F + G+R+ + +
Sbjct: 1643 QDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEK----------GKRIRENYSAMI 1692
Query: 75 SRDGFQDLGDRAFLSLKKFHLINH------FRVPD-------FLQRGDFLVKIDLSQAYF 121
F+ + D + K F IN FR F Q L+ +A F
Sbjct: 1693 ----FETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLM----EKAAF 1744
Query: 122 HVPIR-----PSHQRF-----------------LS-------VVYR-------------- 138
++ P+ F +S V YR
Sbjct: 1745 ED-LKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELG 1803
Query: 139 DTLYCMT-CLP------FGLASAPQV---FAKLTNW---IANYLRNL-GMRVIV 178
+ Y M P F + V K T W I NY N+ + +
Sbjct: 1804 RSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNY--NVENQQYVA 1855
>3hst_B Protein RV2228C/MT2287; ribonuclease H1, RV2228C N-terminal domain,
fusion protein, maltose binding protein, HYDR; HET: MLR
TAR; 2.25A {Mycobacterium tuberculosis}
Length = 141
Score = 40.0 bits (94), Expect = 3e-04
Identities = 24/114 (21%), Positives = 45/114 (39%), Gaps = 7/114 (6%)
Query: 287 SGWGAIVDNHSLGGVWSDHQEMWHI---NLKEMFAVRSALERKLPVLQDKVVLIQSDNQT 343
+G+GA+V V ++ ++ N+ E + + L+ L + D++
Sbjct: 19 AGYGAVVWTADHSTVLAESKQAIGRATNNVAEYRGLIAGLD-DAVKLGATEAAVLMDSKL 77
Query: 344 VVSYIHKEGGTKSFKLLREVEALFDLAVR-HNITLMARYIPGKFNTWADSLSRQ 396
VV + K LL+ LA + I ++P NT+AD L+
Sbjct: 78 VVEQMSGRWKVKHPDLLKLYVQAQALASQFRRINY--EWVPRARNTYADRLAND 129
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded
RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus
tokodaii} PDB: 3aly_A
Length = 149
Score = 33.1 bits (76), Expect = 0.064
Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 2/62 (3%)
Query: 335 VLIQSDNQTVVSYIHKEGGTKSFKLLREVEALFDLAVRHNITLMARYIPGKFNTWADSLS 394
+I+ D+Q V+ ++ E K+ +++ E +L + N TL ++P + N AD LS
Sbjct: 71 PIIKGDSQLVIKQMNGEYKVKAKRIIPLYEKAIELKKKLNATL--IWVPREENKEADRLS 128
Query: 395 RQ 396
R
Sbjct: 129 RV 130
>3fsi_A RT, reverse transcriptase domain; transferase/DNA MMLV RT,
protein-DNA complex, drug-DNA complex; HET: OWL; 1.75A
{Moloney murine leukemia virus} PDB: 1d1u_A 1n4l_A*
1ztt_A 2fjv_A* 2fjw_A 2fjx_A* 2fvp_A 2fvq_A 2fvr_A
2fvs_A 2r2r_A* 2r2s_A* 2r2t_A* 2r2u_A* 1ztw_A* 1i6j_A
1qaj_A* 1d0e_A* 1nnd_A 1mml_A ...
Length = 255
Score = 33.8 bits (77), Expect = 0.098
Identities = 26/105 (24%), Positives = 49/105 (46%), Gaps = 12/105 (11%)
Query: 114 IDLSQAYFHVPIRPSHQRFLSVVYRDT------LYCMTCLPFGLASAPQVF-AKLTNWIA 166
+DL A+F + + P+ Q + +RD T LP G ++P +F L +A
Sbjct: 126 LDLKDAFFCLRLHPTSQPLFAFEWRDPEMGISGQLTWTRLPQGFKNSPTLFDEALHRDLA 185
Query: 167 NY-LRNLGMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSL-RW 209
++ +++ + ++ Y+DDLLL + + A LQ+L
Sbjct: 186 DFRIQHPDLILLQYVDDLLLA---ATSELDCQQGTRALLQTLGNL 227
>2zd1_A Reverse transcriptase/ribonuclease H; P51/P66, hetero dimer, NNRTI,
nonnucleoside inhibitor, AIDS, HIV, rilpivirine,
diarylpyrimidine, DAPY, DNA recombination; HET: T27;
1.80A {Human immunodeficiency virus 1} PDB: 3is9_A*
3irx_A* 2ze2_A* 3bgr_A* 3qlh_A* 3klf_A* 3qo9_A* 1dlo_A
1bqm_A 2be2_A* 1s6q_A* 1s6p_A* 1s9g_A* 1suq_A* 2b5j_A*
2b6a_A* 2ban_A* 1s9e_A* 1hni_A* 1hnv_A* ...
Length = 557
Score = 32.0 bits (73), Expect = 0.41
Identities = 27/122 (22%), Positives = 45/122 (36%), Gaps = 12/122 (9%)
Query: 102 PDFLQRGDFLVKIDLSQAYFHVPIRPSHQRFLSVVYRDTL-------YCMTCLPFGLASA 154
P L++ + +D+ AYF VP+ +++ + Y LP G +
Sbjct: 99 PAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGS 158
Query: 155 PQVFAKLTNWIANYLR--NLGMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVN 212
P +F I N + + Y+DDL +G S L Q R + L+
Sbjct: 159 PAIFQSSMTKILEPFAAQNPDIVIYQYMDDLYVG---SDLEIGQHRTKIEELRQHLLRWG 215
Query: 213 LE 214
L
Sbjct: 216 LT 217
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of
RNA/DNA hybrid; 1.40A {Uncultured organism}
Length = 140
Score = 30.6 bits (70), Expect = 0.41
Identities = 25/139 (17%), Positives = 49/139 (35%), Gaps = 25/139 (17%)
Query: 276 PQVFVSTD-AS--N---SGWGAIVDNHSLGGVWSDHQEMWHI---------NLKEMFAVR 320
++ + TD + N +G G ++ + N+ E A+
Sbjct: 2 NKIIIYTDGGARGNPGPAGIGVVI-------TDEKGNTLHESSAYIGETTNNVAEYEALI 54
Query: 321 SALE---RKLPVLQDKVVLIQSDNQTVVSYIHKEGGTKSFKLLREVEALFDLAVRHNITL 377
ALE L D V ++ D++ +V + K L + + + + L
Sbjct: 55 RALEDLQMFGDKLVDMEVEVRMDSELIVRQMQGVYKVKEPTLKEKFAKIAHIKMERVPNL 114
Query: 378 MARYIPGKFNTWADSLSRQ 396
+ +IP + N AD L +
Sbjct: 115 VFVHIPREKNARADELVNE 133
>1mu2_A HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polymerase, drug
design, transferase; 2.35A {Human immunodeficiency virus
2} SCOP: c.55.3.1 e.8.1.2 PDB: 1mu2_B
Length = 555
Score = 29.7 bits (67), Expect = 2.0
Identities = 24/122 (19%), Positives = 44/122 (36%), Gaps = 12/122 (9%)
Query: 102 PDFLQRGDFLVKIDLSQAYFHVPIRPSHQRFLSVVYRDTL-------YCMTCLPFGLASA 154
P L + + +D+ AYF +P+ + + + Y LP G +
Sbjct: 97 PAGLAKKRRITVLDVGDAYFSIPLHEDFRPYTAFTLPSVNNAEPGKRYIYKVLPQGWKGS 156
Query: 155 PQVFAKLTNWIANYLR--NLGMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVN 212
P +F + R N + +I Y+DD+L+ S + V L+ L +
Sbjct: 157 PAIFQHTMRQVLEPFRKANKDVIIIQYMDDILIA---SDRTDLEHDRVVLQLKELLNGLG 213
Query: 213 LE 214
Sbjct: 214 FS 215
>3net_A Histidyl-tRNA synthetase; aminoacyl-tRNA synthetase, ligase,
structural genomics, PSI- nostoc, protein structure
initiative; 2.70A {Nostoc SP}
Length = 465
Score = 28.4 bits (64), Expect = 4.9
Identities = 10/37 (27%), Positives = 15/37 (40%)
Query: 165 IANYLRNLGMRVIVYLDDLLLGNQDSVLLRSQARAAV 201
++ LR G+ VI + LG Q + R V
Sbjct: 390 VSQQLRQAGLNVITNFEKRQLGKQFQAADKQGIRFCV 426
>3d8k_A PP2C, protein phosphatase 2C; nysgrc, PSI-II, STR genomics, protein
structure initiative, NEW YORK structural research
consortium, nysgxrc; 2.71A {Toxoplasma gondii}
Length = 377
Score = 28.1 bits (62), Expect = 7.2
Identities = 6/43 (13%), Positives = 13/43 (30%), Gaps = 4/43 (9%)
Query: 340 DNQTVVSYIHKEGGTKSFKLLREVEALFDLAVRH----NITLM 378
+ ++ +L +A+ A R NI+
Sbjct: 277 RSHAAIAAAIALYPVSPETVLDAAKAMVVNAKRRKVTKNISTF 319
>3mub_A Alanine racemase; alpha/beta barrel, extended beta-strand domain,
pyridoxal PH cofactor, carba lysine, isomerase; HET: LLP
KCX; 2.00A {Streptococcus pneumoniae} PDB: 3s46_A*
Length = 367
Score = 27.8 bits (63), Expect = 7.8
Identities = 12/34 (35%), Positives = 15/34 (44%), Gaps = 1/34 (2%)
Query: 358 KLLREVEALFDL-AVRHNITLMARYIPGKFNTWA 390
R +AL L A+R NI M +IP A
Sbjct: 4 SPHRPTKALIHLGAIRQNIQQMGAHIPQGTLKLA 37
>3co8_A Alanine racemase; protein structure initiative II, PSI-II, PLP, TIM
barrel, structural genomics, NEW YORK SGX center for
structural genomics; HET: PLP; 1.70A {Oenococcus oeni}
Length = 380
Score = 27.8 bits (63), Expect = 8.7
Identities = 4/29 (13%), Positives = 10/29 (34%), Gaps = 1/29 (3%)
Query: 358 KLLREVEALFDL-AVRHNITLMARYIPGK 385
+ R F ++ +N+ + K
Sbjct: 5 AIHRSTRIEFSKSSLAYNVQYTKQVSGAK 33
>2rjg_A Alanine racemase; alpha/beta barrel, cell shape, cell WALL
biogenesis/degradat isomerase, peptidoglycan synthesis,
pyridoxal phosphate; HET: KCX PLP; 2.40A {Escherichia
coli} PDB: 2rjh_A* 3b8v_A* 3b8u_A* 3b8t_A* 3b8w_A*
Length = 379
Score = 27.8 bits (63), Expect = 8.9
Identities = 7/40 (17%), Positives = 15/40 (37%), Gaps = 1/40 (2%)
Query: 346 SYIHKEGGTKSFKLLREVEALFDL-AVRHNITLMARYIPG 384
+ H G ++ + + A+RHN+ + P
Sbjct: 7 HHHHSSGLVPRGSHMQAATVVINRRALRHNLQRLRELAPA 46
>2icw_G Mycoplasma arthritidis mitogen; TCR, MHC, superantigen,
protein-protein complex, immune system; 2.41A
{Mycoplasma arthritidis} SCOP: a.202.1.1 PDB: 2oje_D
1r5i_D 3kph_A
Length = 213
Score = 27.3 bits (60), Expect = 9.5
Identities = 19/68 (27%), Positives = 35/68 (51%), Gaps = 1/68 (1%)
Query: 20 GLLEKREIWDVSTL-ISWISDHPPNQDSFFEVARHTAILLLLCSGRRVHDLTLLLSSRDG 78
GLLE +EI+++ L +S + D + + E + +L + +DL+ +S
Sbjct: 68 GLLEYKEIFNMMFLKLSVVFDTQRKEANNVEQIKRNIAILDEIMAKADNDLSYFISQNKN 127
Query: 79 FQDLGDRA 86
FQ+L D+A
Sbjct: 128 FQELWDKA 135
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
0.324 0.137 0.430
Gapped
Lambda K H
0.267 0.0837 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,080,538
Number of extensions: 416470
Number of successful extensions: 1252
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1245
Number of HSP's successfully gapped: 32
Length of query: 460
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 363
Effective length of database: 3,993,456
Effective search space: 1449624528
Effective search space used: 1449624528
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 59 (26.3 bits)