RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12800
(134 letters)
>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 = 30.8 bits (69), Expect = 0.14
Identities = 23/137 (16%), Positives = 39/137 (28%), Gaps = 58/137 (42%)
Query: 5 SNESLESSGKKSRRPSFISG-RSFASASRILNQHFPNLQLTKSKSGDTSKHT-------- 55
S ES S +K+ F G R + +PN L S D+ ++
Sbjct: 288 SWESFFVSVRKAITVLFFIGVRC--------YEAYPNTSLPPSILEDSLENNEGVPSPML 339
Query: 56 ----LSADSLDS------KGQSPEMH--------RRSFV---------GFN-------AG 81
L+ + + ++ V G N A
Sbjct: 340 SISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAP 399
Query: 82 NG---TRSYEYYPYSQR 95
+G +R P+S+R
Sbjct: 400 SGLDQSRI----PFSER 412
Score = 29.6 bits (66), Expect = 0.32
Identities = 26/121 (21%), Positives = 42/121 (34%), Gaps = 34/121 (28%)
Query: 27 FASASRILNQHFPNLQLTKSKSGDT--SKHTLSADSLDSKGQSPEMHRRSFVGFNAGN-- 82
+ +++L P +L G T S+ ++A ++ S E SF +
Sbjct: 249 YVVTAKLLGFT-PG-ELRSYLKGATGHSQGLVTA-VAIAETDSWE----SFFV-SVRKAI 300
Query: 83 ------GTRSYEYYPYSQR--STIRDLVGRGWANGFPGRHIFRIDENIML---ELTLGEI 131
G R YE YP + S + D + G P ML LT ++
Sbjct: 301 TVLFFIGVRCYEAYPNTSLPPSILEDSLENN--EGVPSP---------MLSISNLTQEQV 349
Query: 132 Q 132
Q
Sbjct: 350 Q 350
>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 = 30.2 bits (67), Expect = 0.20
Identities = 17/132 (12%), Positives = 37/132 (28%), Gaps = 30/132 (22%)
Query: 25 RSFASASRIL-------------NQHFPNLQLTKSKSGDTSKHTLS--ADSLDSKGQS-- 67
+F + +IL ++ L T S LD + Q
Sbjct: 260 NAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP 319
Query: 68 PEMHRR-----SFVGFNAGNGTRSYEYYPYSQRSTIRDLVGRGWANGFPG--RH------ 114
E+ S + + +G +++ + + + ++ P R
Sbjct: 320 REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLS 379
Query: 115 IFRIDENIMLEL 126
+F +I L
Sbjct: 380 VFPPSAHIPTIL 391
Score = 29.8 bits (66), Expect = 0.26
Identities = 17/114 (14%), Positives = 34/114 (29%), Gaps = 33/114 (28%)
Query: 33 ILNQHFPNLQLTK--SKSGDTSKHTLSADSLDSKGQSPEMHRRSFVGFNAGNGTRSYEY- 89
++N+ L + K S ++ + +HR V + N ++++
Sbjct: 407 VVNK-LHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRS-IV--DHYNIPKTFDSD 462
Query: 90 ---------YPYSQRSTIRDLVGRGWANGFPGRHIFRIDENIMLELTLGEIQLD 134
Y YS G H+ I+ + L + LD
Sbjct: 463 DLIPPYLDQYFYS----------------HIGHHLKNIEHPERMTL-FRMVFLD 499
Score = 27.1 bits (59), Expect = 2.2
Identities = 16/109 (14%), Positives = 31/109 (28%), Gaps = 26/109 (23%)
Query: 50 DTSKHTLSADSLDSKGQSPEMHRRSFVGFNA--GNGTRSYEY---------YP------- 91
D K LS + +D S + + F + Y
Sbjct: 40 DMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIK 99
Query: 92 --YSQRSTIRDL----VGRGWANG--FPGRHIFRIDENIMLELTLGEIQ 132
Q S + + R + + F ++ R+ + L L E++
Sbjct: 100 TEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELR 148
>3v22_V Ribosome modulation factor; stress response, small subunit H
movement, stationary phase, ribosome hibernation; 3.00A
{Escherichia coli} PDB: 3v24_V
Length = 61
Score = 25.2 bits (55), Expect = 2.4
Identities = 15/53 (28%), Positives = 21/53 (39%), Gaps = 2/53 (3%)
Query: 64 KGQSPEMHRRSFV-GFNAGNGTRSYEYYPYSQRSTIRDLVGRGWANGFPGRHI 115
K Q + R+ G+ AG RS E PY + +G GW R +
Sbjct: 2 KRQKRDRLERAHQRGYQAGIAGRSKEMCPYQTLNQRSQWLG-GWREAMADRVV 53
>2rh8_A Anthocyanidin reductase; flavonoids, rossmann fold, short chain
dehydrogenase/reductase, oxidoreductase; 2.22A {Vitis
vinifera} PDB: 3hfs_A
Length = 338
Score = 26.4 bits (59), Expect = 3.4
Identities = 9/46 (19%), Positives = 16/46 (34%), Gaps = 8/46 (17%)
Query: 23 SGRSFASAS--------RILNQHFPNLQLTKSKSGDTSKHTLSADS 60
SGR A+ + L++ +P ++ K L S
Sbjct: 260 SGRYICCAANTSVPELAKFLSKRYPQYKVPTDFGDFPPKSKLIISS 305
>2jrm_A Ribosome modulation factor; solution structure, structural
genomics, PSI-2, protein initiative, northeast
structural genomics consortium; NMR {Vibrio
parahaemolyticus}
Length = 65
Score = 24.8 bits (54), Expect = 3.6
Identities = 15/47 (31%), Positives = 20/47 (42%), Gaps = 2/47 (4%)
Query: 64 KGQSPEMHRRSFV-GFNAGNGTRSYEYYPYSQRSTIRDLVGRGWANG 109
K Q + R+ G+ AG RS E PY Q +G GW +
Sbjct: 2 KRQKRDRLERAQSQGYKAGLNGRSQEACPYQQVDARSYWLG-GWRDA 47
>1yvl_A Signal transducer and activator of transcription 1-alpha/beta;
signaling protein; HET: PTR; 3.00A {Homo sapiens}
Length = 683
Score = 26.0 bits (56), Expect = 5.7
Identities = 8/26 (30%), Positives = 13/26 (50%)
Query: 29 SASRILNQHFPNLQLTKSKSGDTSKH 54
S + L F +LQL + K+ T +
Sbjct: 395 STNGSLAAEFRHLQLKEQKNAGTRTN 420
>1bf5_A Signal transducer and activator of transcription 1-alpha/beta;
complex (SH2 domain/DNA), SH2 domain, transcription
factor; HET: DNA PTR; 2.90A {Homo sapiens} SCOP:
a.47.1.1 b.2.5.5 d.93.1.1
Length = 575
Score = 26.0 bits (56), Expect = 5.8
Identities = 8/26 (30%), Positives = 13/26 (50%)
Query: 29 SASRILNQHFPNLQLTKSKSGDTSKH 54
S + L F +LQL + K+ T +
Sbjct: 260 STNGSLAAEFRHLQLKEQKNAGTRTN 285
>3p8c_B NCK-associated protein 1; actin polymerization, protein binding;
2.29A {Homo sapiens}
Length = 1128
Score = 25.5 bits (55), Expect = 7.0
Identities = 10/67 (14%), Positives = 30/67 (44%), Gaps = 4/67 (5%)
Query: 10 ESSGKKSRRPSFISGRSFASASRILNQHFPNLQLTKSKSGDTSKHTLSADSLDSKGQSPE 69
++ G +PS++ ++ SA + + + FP ++ + ++ L ++
Sbjct: 36 KACGDPKAKPSYLIDKNLESAVKFIVRKFPAVETRNNNQQLAQLQKEKSEIL----KNLA 91
Query: 70 MHRRSFV 76
++ +FV
Sbjct: 92 LYYFTFV 98
>2rdy_A BH0842 protein; PSI-II, structural genomics, protein structure
initiative, NEW YORK SGX research center for structural
genomics; 2.03A {Bacillus halodurans c-125}
Length = 803
Score = 25.6 bits (55), Expect = 8.0
Identities = 19/104 (18%), Positives = 34/104 (32%), Gaps = 9/104 (8%)
Query: 34 LNQHFPNLQLTKSKSGDTSKHTLSADSLDSKG-QSPEMHRRSFVGFNA--GNGTRSYEYY 90
L +P +T+ + + + + SL+ +G + + A +G R
Sbjct: 591 LVGIYPGRLITEQSAPNLFE--AAKTSLEIRGDEGTGWSLGWKISLWARFKDGNRCERLL 648
Query: 91 PYSQRSTIRDLV----GRGWANGFPGRHIFRIDENIMLELTLGE 130
D G +AN F F+ID N + E
Sbjct: 649 SNMLTLIKEDESMQHRGGVYANLFGAHPPFQIDGNFSATAGIAE 692
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
0.314 0.131 0.376
Gapped
Lambda K H
0.267 0.0613 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,855,384
Number of extensions: 92035
Number of successful extensions: 143
Number of sequences better than 10.0: 1
Number of HSP's gapped: 142
Number of HSP's successfully gapped: 16
Length of query: 134
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 51
Effective length of database: 4,384,350
Effective search space: 223601850
Effective search space used: 223601850
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 52 (24.1 bits)