RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1353
(431 letters)
>1yi9_A PAM, peptidyl-glycine alpha-amidating monooxygenase; bioactive
peptide activation, ascorbate, oxidoreductase; 1.70A
{Rattus norvegicus} SCOP: b.121.1.2 b.121.1.2 PDB:
1sdw_A* 3mib_A 3mic_A 3mid_A 3mie_A 3mif_A 3mig_A 3mih_A
3mlj_A 3mlk_A 3mll_A 1yip_A 1phm_A 1opm_A 3phm_A 1yjl_A
1yjk_A
Length = 309
Score = 219 bits (558), Expect = 1e-68
Identities = 68/272 (25%), Positives = 107/272 (39%), Gaps = 24/272 (8%)
Query: 89 IQFESAIQPSSEGIVHHMELFHCIAPPQQDIPLYEGPCSSPEKPPIVESCKSVLAAWAMG 148
I F+ +S VHHM LF C P + + ++L AWA
Sbjct: 49 IDFK---PRASMDTVHHMLLFGCNMPSSTGSYWFCDEGTCT-------DKANILYAWARN 98
Query: 149 ALPFRYPKEAGRPIGGPASNSYVMLEVHYNNPEHI-AGIIDSSGLRLQISKSLRRYDAGI 207
A P R PK G +GG + Y +L+VHY + D SG+ + +++ + AG+
Sbjct: 99 APPTRLPKGVGFRVGGETGSKYFVLQVHYGDISAFRDNHKDCSGVSVHLTRVPQPLIAGM 158
Query: 208 MELGLEYTDKMAVPPRTNYFTLSGYCTSECTTVGLPSKGIKVFGSQLHTHLTGKRVYTRH 267
+ + +PP C + + VF ++HTH GK V
Sbjct: 159 YLMM---SVDTVIPPGEKVVNADISCQYKMY-------PMHVFAYRVHTHHLGKVVSGYR 208
Query: 268 IRNGRELAELNRDNHYSPHFQEIRLLKHPVTVLPGDALITTCVYNTQSRANITLGGFAIT 327
+RNG+ ++ Q ++HPV V GD L CV+ + R T G +
Sbjct: 209 VRNGQWTLIGRQNPQL---PQAFYPVEHPVDVTFGDILAARCVFTGEGRTEATHIGGTSS 265
Query: 328 DEMCVNYIHYYPLVDLEVCKSSVSSDNLRTFF 359
DE+C YI YY + + + + F
Sbjct: 266 DEICNLYIMYYMEAKYALSFMTCTKNVAPDMF 297
>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 = 47.4 bits (112), Expect = 9e-06
Identities = 60/427 (14%), Positives = 116/427 (27%), Gaps = 156/427 (36%)
Query: 78 LVLCDENRHNSIQFESAIQPSSEGIVHHMEL---FHCIAP-PQQDIPLYEGPCSSPEKPP 133
L L H S++ + P++ +L F+ I P P + + P + E
Sbjct: 9 LTL----SHGSLEHVLLV-PTASFF-IASQLQEQFNKILPEPTEGFAADDEPTTPAE--- 59
Query: 134 IVESCKSVLAAWAMGALPFRYPKEAGRPIGGPASNSYVMLEVHYNNPEHIAGIIDSSGLR 193
L ++ +G YV V + + L
Sbjct: 60 --------LVG--------KF-------LG------YVSSLVEPSKVGQFDQV-----LN 85
Query: 194 LQISKSLRRYDAGIME------LGLEYTDKMAVPPRTNYFTLSGYCTSECTTVGLP---- 243
L L ++ +E L + + + Y T+ P
Sbjct: 86 L----CLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITA-RIMAKRPFDKK 140
Query: 244 ---------SKG----IKVFGSQ------------LHTHLTGKRVYTRHIRN-----GRE 273
+G + +FG Q L+ Y + +
Sbjct: 141 SNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQ------TYHVLVGDLIKFSAET 194
Query: 274 LAELNRDN-----HYSPHFQEIRLLKHPVTVLPGDALITTCVYNTQSRANITLGGFAITD 328
L+EL R ++ + L++P D L++ + S I + A
Sbjct: 195 LSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPI----SCPLIGVIQLA--- 247
Query: 329 EMCVNYIHYYPLVDLEVCKSS-VSSDNLRTFFN----YMHDILLAL------------RN 371
HY K + LR++ + ++ A+ +
Sbjct: 248 -------HYV-----VTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVS 295
Query: 372 NILNVSLLFYIFDKIIHSRSQILMNHNSIKASNIW--------LPN--LGIKG--KVDVT 419
+++LF+ I R + S+ S + +P+ L I + V
Sbjct: 296 VRKAITVLFF-----IGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQ 350
Query: 420 VKVRSRN 426
V N
Sbjct: 351 DYVNKTN 357
Score = 45.8 bits (108), Expect = 2e-05
Identities = 63/398 (15%), Positives = 111/398 (27%), Gaps = 145/398 (36%)
Query: 3 LREL---------GLFSLVSQFL--LVSGDVFDIPLNSHGYKLFWSPNYDSGWIKFEVHL 51
LR+L L ++ L L+ + + + G + W++
Sbjct: 173 LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNIL-------EWLE-NPSN 224
Query: 52 TPALNKGDWFA--------IGFSNYGEFSFADYCLVLCDENRHNSIQFESAIQPSS---E 100
TP D+ IG A Y V + S ++ ++ +
Sbjct: 225 TPDK---DYLLSIPISCPLIGV-----IQLAHYV-VTAKLLGFTPGELRSYLKGATGHSQ 275
Query: 101 GIVHHMELFHCIAPPQQDIPLYEGPCSSPEKPPIVESCKSVLAA--WAMGALPFR----Y 154
G+V IA + S + + + +G R Y
Sbjct: 276 GLV----TAVAIA-------------ETDSWESFFVSVRKAITVLFF-IGV---RCYEAY 314
Query: 155 PKEAGRP----------IGGPASNSYVMLEVHYNNPEHIAGIIDSSGLRLQISKSLRRYD 204
P + P G P+ ML + E + ++ + L K +
Sbjct: 315 PNTSLPPSILEDSLENNEGVPSP----MLSISNLTQEQVQDYVNKTNSHLPAGKQV---- 366
Query: 205 AGIMELGLEYTDKMAV---PPRTNYFTLSGYCTS---ECTTVGL-----P-SKGIKVFGS 252
E+ L K V PP++ L G + GL P S+ F +
Sbjct: 367 ----EISLVNGAKNLVVSGPPQS----LYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSN 418
Query: 253 Q-L------HTHLTGKRVYTRHIRNGRELAELNRDNHYSPHFQEIRLLKHPVTVLPGDAL 305
+ L H+HL L + L+K+ V+ D
Sbjct: 419 RFLPVASPFHSHL---------------LVP-------ASDLINKDLVKNNVSFNAKDIQ 456
Query: 306 ITTCVYNTQS-------RANITLGGFAITDEMCVNYIH 336
I VY+T +I+ I D + +
Sbjct: 457 IP--VYDTFDGSDLRVLSGSISE---RIVDCIIRLPVK 489
>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 = 41.8 bits (97), Expect = 4e-04
Identities = 58/386 (15%), Positives = 114/386 (29%), Gaps = 104/386 (26%)
Query: 55 LNKGDWFAIGFSNYGEFSFADYCLVL--CDENRHNSIQFESAIQPSSEGIVHHMELFHCI 112
L I G + L C + +Q + + + L +C
Sbjct: 147 LRPAKNVLI----DGVLGSGKTWVALDVCLSYK---------VQCKMDFKIFWLNLKNCN 193
Query: 113 AP-----PQQDI-----PLYEGPCSSPEKPPI-VESCKSVLAAWAMGALPFRYPKEAGRP 161
+P Q + P + + + S ++ L R K
Sbjct: 194 SPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELR---------RLLKSKPYE 244
Query: 162 IGGPASNSYVML-EVHYNNPEHIAGIIDSSGLRLQISKSLRRYDAGIME-LGLEYTDKMA 219
N ++L V N + ++ L +I + R + + L T ++
Sbjct: 245 ------NCLLVLLNV--QNAK----AWNAFNLSCKILLTTR--FKQVTDFLSAATTTHIS 290
Query: 220 VPPRTNYFT-------LSGYCTSECTTVGLPS---KG----IKVFGSQLHTHLTGKRVYT 265
+ + T L Y +C LP + + + L
Sbjct: 291 LDHHSMTLTPDEVKSLLLKYL--DCRPQDLPREVLTTNPRRLSIIAESIRDGLA-TWDNW 347
Query: 266 RHIRNGRELAELNRD--NHYSPHFQEIRLLKHPVTVLPGDALITT---CVYNTQSRANIT 320
+H+ N +L + N P E R + ++V P A I T + +
Sbjct: 348 KHV-NCDKLTTIIESSLNVLEP--AEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKS-- 402
Query: 321 LGGFAITDEMCVNYIHYYPLVDLEVCKSSVSSDNLRTFFNYMHDILLALRNNILNVSLLF 380
+ VN +H Y LV+ + +S++ + I L L+ + N
Sbjct: 403 ------DVMVVVNKLHKYSLVEKQPKESTI----------SIPSIYLELKVKLEN----- 441
Query: 381 YIFDKIIHSRSQILMNHNSIKASNIW 406
+ +H I+ ++N K +
Sbjct: 442 ---EYALHRS--IVDHYNIPKTFDSD 462
>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 = 30.4 bits (69), Expect = 1.3
Identities = 9/35 (25%), Positives = 16/35 (45%)
Query: 357 TFFNYMHDILLALRNNILNVSLLFYIFDKIIHSRS 391
F +H L R ++ LL Y+ D ++ + S
Sbjct: 179 LFDEALHRDLADFRIQHPDLILLQYVDDLLLAATS 213
>3q87_B N6 adenine specific DNA methylase; SAM-methyltransferase,
methyltransferase, methylation, trans
activator-transferase complex; HET: SAM; 2.00A
{Encephalitozoon cuniculi}
Length = 170
Score = 27.8 bits (62), Expect = 4.7
Identities = 17/108 (15%), Positives = 34/108 (31%), Gaps = 13/108 (12%)
Query: 94 AIQPSSEGIVHHMELFHCIAPPQQDIPLYEGPCSSPEKPPIVESCKSVLAAWAMGALPFR 153
A++ G + +L I D+ ++ PP V + G L
Sbjct: 56 ALESHRGGNLVRADLLCSINQESVDVVVFN--------PPYVPD--TDDPIIGGGYLGRE 105
Query: 154 YPKEAGRPIGGPASNSYVMLEVHYNNPEHIAGIIDSSGLRLQISKSLR 201
R + +L + N P+ + ++ G +I K +
Sbjct: 106 VID---RFVDAVTVGMLYLLVIEANRPKEVLARLEERGYGTRILKVRK 150
>3riq_A Tailspike protein; right handed beta-helix, endorhamnosidase,
lipopolysaccharide, viral protein; 1.50A {Siphovirus
9na}
Length = 543
Score = 28.2 bits (62), Expect = 6.8
Identities = 15/42 (35%), Positives = 16/42 (38%), Gaps = 3/42 (7%)
Query: 34 LFWSPNYDSGW---IKFEVHLTPALNKGDWFAIGFSNYGEFS 72
L SP W I FE H T A G+ G YG S
Sbjct: 177 LVESPRNFIAWESGITFENHHTTAWGTGNKVVGGEIKYGSGS 218
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
0.322 0.139 0.429
Gapped
Lambda K H
0.267 0.0500 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,820,913
Number of extensions: 407869
Number of successful extensions: 709
Number of sequences better than 10.0: 1
Number of HSP's gapped: 701
Number of HSP's successfully gapped: 7
Length of query: 431
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 335
Effective length of database: 4,021,377
Effective search space: 1347161295
Effective search space used: 1347161295
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 (21.9 bits)
S2: 59 (27.0 bits)