RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13516
(284 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 = 37.5 bits (86), Expect = 0.005
Identities = 47/315 (14%), Positives = 90/315 (28%), Gaps = 83/315 (26%)
Query: 18 LIYTVRIGLKSPFTPAVGYYYYC------GQILSKSSNERLQLILKAEE---SYKPCSGI 68
L+ ++ + P Y Q+ +K + RLQ LK + +P +
Sbjct: 94 LMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNV 153
Query: 69 DCY---------LPVIE--RDLKP---FAQGIY-------EKEMSLLKDKGTLYQIIDHT 107
+ ++ K I+ ++L+ L ID
Sbjct: 154 LIDGVLGSGKTWV-ALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPN 212
Query: 108 VHKIGSCMFPARCAGIEHFLHKVKNDVTDLEFVINTRDYPQ---VHRH--QSKPLPMFSF 162
I+ +H ++ ++ L + ++ Y V + +K F+
Sbjct: 213 WTSRSDHSSN-----IKLRIHSIQAELRRL---LKSKPYENCLLVLLNVQNAKAWNAFNL 264
Query: 163 S-K----TGDYSDIMYPAWAFWEGGPAIKLYPTGIGRWDKHRKALSQEAAKYPWSKKLNK 217
S K T + T D H L+ + K K L+
Sbjct: 265 SCKILLTTRFKQVT-----------DFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC 313
Query: 218 GFFRGSRTSSERDPLIKLSRENSKLIDAAYTKN-----QAWK-SDADTSNSEIILSIK-- 269
R +P LS +I A ++ WK + D + I S+
Sbjct: 314 RPQDLPREVLTTNPRR-LS-----II-AESIRDGLATWDNWKHVNCDKLTTIIESSLNVL 366
Query: 270 ----FSPMY----IF 276
+ M+ +F
Sbjct: 367 EPAEYRKMFDRLSVF 381
Score = 33.3 bits (75), Expect = 0.092
Identities = 30/241 (12%), Positives = 67/241 (27%), Gaps = 51/241 (21%)
Query: 36 YYYYCGQILSKSSN---ERLQLILKAEESYKPCSGIDCYLP---VIERDLKPFAQGIYEK 89
+ + S++ L ++ + + L ++E+ K I
Sbjct: 374 MFDRLS-VFPPSAHIPTILLS-LIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI 431
Query: 90 EMSLLKDKGTLYQIIDHTVHKIGSCMFPARCAGIEHFLHKVKNDVTDLEFVINTRDYPQV 149
+ L Y + H+ ++H+ D DL Y
Sbjct: 432 YLELKVKLENEYAL-----HR--------SI--VDHYNIPKTFDSDDL-IPPYLDQYFYS 475
Query: 150 H--RH--QSKPLPMFS-FSKTGDYSD-------IMYPAWAFWEGGPAIKLYPTGIGRWDK 197
H H + + F + D I + + A+ G + + +
Sbjct: 476 HIGHHLKNIEHPERMTLFRMV--FLDFRFLEQKIRHDSTAWNASGSILNT----LQQLKF 529
Query: 198 HRKALSQEAAKYPWSKKLN--KGFFRGSRTSSERDPL-----IKLSRENSKLIDAAYTKN 250
++ + KY + +N F + I L E+ + + A+ +
Sbjct: 530 YKPYICDNDPKY--ERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQV 587
Query: 251 Q 251
Q
Sbjct: 588 Q 588
>2h7c_A Liver carboxylesterase 1; enzyme, cholesteryl esterase, hydrolase;
HET: NAG NDG SIA COA; 2.00A {Homo sapiens} SCOP:
c.69.1.1 PDB: 2dqy_A* 2dr0_A* 2dqz_A* 1mx1_A* 1mx5_A*
1mx9_A* 4ab1_A* 1ya4_A* 1yah_A* 1yaj_A* 1ya8_A* 2hrr_A*
2hrq_A* 3k9b_A* 1k4y_A*
Length = 542
Score = 29.3 bits (66), Expect = 1.5
Identities = 10/43 (23%), Positives = 17/43 (39%)
Query: 134 VTDLEFVINTRDYPQVHRHQSKPLPMFSFSKTGDYSDIMYPAW 176
+ D+ F + + + HR P M+ F +S M P
Sbjct: 402 IADVMFGVPSVIVARNHRDAGAPTYMYEFQYRPSFSSDMKPKT 444
>1vr5_A Oligopeptide ABC transporter, periplasmic oligope binding protein;
TM1223, periplasmic oligopepti binding, structural
genomics; HET: EPE; 1.73A {Thermotoga maritima} SCOP:
c.94.1.1
Length = 547
Score = 29.3 bits (66), Expect = 1.7
Identities = 4/27 (14%), Positives = 7/27 (25%)
Query: 20 YTVRIGLKSPFTPAVGYYYYCGQILSK 46
T++ P I+ K
Sbjct: 129 RTLKFVFSDPRYQEWKQMLINTPIVPK 155
>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 = 28.0 bits (61), Expect = 2.1
Identities = 10/37 (27%), Positives = 13/37 (35%), Gaps = 12/37 (32%)
Query: 50 ERLQLILKAEESYKPCSGIDCYLPVIERDLKPFAQGI 86
E+ Q + K + S K Y D P A I
Sbjct: 18 EK-QALKKLQASLKL------YAD----DSAP-ALAI 42
>1xoc_A Oligopeptide-binding protein APPA; oligopeptide, APPA, transport,
transport protein; 1.55A {Bacillus subtilis} SCOP:
c.94.1.1
Length = 520
Score = 28.4 bits (64), Expect = 3.2
Identities = 7/27 (25%), Positives = 7/27 (25%)
Query: 20 YTVRIGLKSPFTPAVGYYYYCGQILSK 46
Y V LK IL K
Sbjct: 135 YEVLFKLKYKDGNFYNNALDSTAILPK 161
>1wu7_A Histidyl-tRNA synthetase; ligase, structural genomics, dimer; 2.40A
{Thermoplasma acidophilum} SCOP: c.51.1.1 d.104.1.1
Length = 434
Score = 27.6 bits (62), Expect = 4.8
Identities = 7/40 (17%), Positives = 12/40 (30%)
Query: 50 ERLQLILKAEESYKPCSGIDCYLPVIERDLKPFAQGIYEK 89
+ L+LK E P Y+ + + K
Sbjct: 315 AVISLLLKRENVQIPREKKSVYICRVGKINSSIMNEYSRK 354
>3rqt_A Putative uncharacterized protein; ligand binding component,
ABC-type import system, nickel, SI DI-peptides,
structural genomics; HET: MSE HIS EPE; 1.50A
{Staphylococcus aureus}
Length = 486
Score = 27.6 bits (62), Expect = 4.9
Identities = 6/46 (13%), Positives = 12/46 (26%), Gaps = 1/46 (2%)
Query: 6 MYFDFDIAIIIVLIYTVRIGLKSPFTPAVGYY-YYCGQILSKSSNE 50
+ + I+ I + I S + V I +
Sbjct: 112 VKYSLPISSITAKGQKLTIKTNSAYPELVSELANPFMAIYDTDAKS 157
>4e51_A Histidine--tRNA ligase; seattle structural genomics center for
infectious disease, S aminoacylation, tRNA activation,
charged tRNA; HET: HIS; 2.65A {Burkholderia
thailandensis}
Length = 467
Score = 27.2 bits (61), Expect = 6.6
Identities = 14/61 (22%), Positives = 22/61 (36%), Gaps = 9/61 (14%)
Query: 29 PFTPAVGYYYYCGQILSKSSNERLQLILKAEESYKPCSGIDCYLPVIERDLKPFAQGIYE 88
T A G+ G ER+ +LK E G+D Y+ + A + E
Sbjct: 325 KPTAACGWA--MGI-------ERILELLKEEHLVPEQEGVDVYVVHQGDAAREQAFIVAE 375
Query: 89 K 89
+
Sbjct: 376 R 376
>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein,
mostly mixed alpha-beta structures, one domain is
entirely helical; HET: DNA; 2.20A {Thermus aquaticus}
SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A*
1fw6_A* 1ewr_A*
Length = 765
Score = 26.7 bits (60), Expect = 9.9
Identities = 5/15 (33%), Positives = 10/15 (66%)
Query: 94 LKDKGTLYQIIDHTV 108
L+ + TL+ ++D T
Sbjct: 266 LRGQDTLFSVLDETR 280
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 0.138 0.427
Gapped
Lambda K H
0.267 0.0747 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,391,983
Number of extensions: 250225
Number of successful extensions: 414
Number of sequences better than 10.0: 1
Number of HSP's gapped: 411
Number of HSP's successfully gapped: 10
Length of query: 284
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 191
Effective length of database: 4,105,140
Effective search space: 784081740
Effective search space used: 784081740
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: 57 (25.7 bits)