RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16822
(97 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 = 32.7 bits (74), Expect = 0.011
Identities = 11/73 (15%), Positives = 22/73 (30%), Gaps = 24/73 (32%)
Query: 9 HGLDLIKVVSSP---PGLSALKTPQCSSEVMETRNKSCPVCMEPFNTLAKSLPYARCNQS 65
GL++++ + +P P L S P+ P + + Y
Sbjct: 211 QGLNILEWLENPSNTPDKDYL--------------LSIPISC-PLIGVIQLAHYV----- 250
Query: 66 RLVCSISGLQFNE 78
+ + G E
Sbjct: 251 -VTAKLLGFTPGE 262
Score = 26.9 bits (59), Expect = 1.2
Identities = 14/60 (23%), Positives = 21/60 (35%), Gaps = 22/60 (36%)
Query: 16 VVSSPP----GL-SALKTPQCSSEVMETRNKSC-----------PVCMEPFNTLAKSLPY 59
VVS PP GL L+ + S + ++R PV PF++
Sbjct: 378 VVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPV-ASPFHS-----HL 431
>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 = 31.0 bits (69), Expect = 0.041
Identities = 15/103 (14%), Positives = 29/103 (28%), Gaps = 29/103 (28%)
Query: 4 SQPLAHGLDLIKVVSSPPGLSALKTPQCSSEVMETRNKS----------CPVCMEPFNT- 52
S+P + L ++ V + +A C ++ TR K + ++ +
Sbjct: 240 SKPYENCLLVLLNVQNAKAWNAFN-LSCKI-LLTTRFKQVTDFLSAATTTHISLDHHSMT 297
Query: 53 ---------LAK-------SLPYARCNQSRLVCSISGLQFNEY 79
L K LP + SI +
Sbjct: 298 LTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDG 340
>3vth_A Hydrogenase maturation factor; carbamoyltransfer, maturation of
[NIFE]-hydrogenase, carbamoylphosphate, iron, HYPE; HET:
APC AP2; 2.00A {Thermoanaerobacter tengcongensis} PDB:
3vti_A
Length = 761
Score = 27.4 bits (61), Expect = 0.66
Identities = 9/44 (20%), Positives = 19/44 (43%), Gaps = 8/44 (18%)
Query: 29 PQCSSEVMETRNK-------SCPVCMEPFNTLAKSLPYARCNQS 65
C E+ + +++ +C C P ++ + +PY R S
Sbjct: 115 EDCLRELKDPKDRRYRYPFINCTNC-GPRFSIIEDIPYDRAKTS 157
>2y1n_A E3 ubiquitin-protein ligase; ligase-transferase complex, ubiquitin
ring E3 ligase; HET: PTR; 2.00A {Homo sapiens} PDB:
2y1m_A* 4a4c_A* 4a4b_A* 1fbv_A* 3vgo_A 4a49_A* 2k4d_A
2ldr_A*
Length = 389
Score = 27.0 bits (59), Expect = 1.1
Identities = 5/20 (25%), Positives = 8/20 (40%)
Query: 31 CSSEVMETRNKSCPVCMEPF 50
C + E+ + CP C
Sbjct: 358 CLTSWQESEGQGCPFCRCEI 377
>1chc_A Equine herpes virus-1 ring domain; viral protein; NMR {Equid
herpesvirus 1} SCOP: g.44.1.1
Length = 68
Score = 25.1 bits (55), Expect = 1.7
Identities = 8/23 (34%), Positives = 14/23 (60%)
Query: 36 METRNKSCPVCMEPFNTLAKSLP 58
M T + CP+C+E + + +LP
Sbjct: 1 MATVAERCPICLEDPSNYSMALP 23
Score = 24.7 bits (54), Expect = 3.0
Identities = 6/30 (20%), Positives = 15/30 (50%)
Query: 39 RNKSCPVCMEPFNTLAKSLPYARCNQSRLV 68
+N +CP+C P ++ ++ +L+
Sbjct: 39 QNPTCPLCKVPVESVVHTIESDSEFGDQLI 68
>1p91_A Ribosomal RNA large subunit methyltransferase A; RLMA, RRMA, 23S
rRNA, NESG, structural genomics, PSI, protein structure
initiative; HET: SAM; 2.80A {Escherichia coli} SCOP:
c.66.1.33
Length = 269
Score = 26.0 bits (57), Expect = 2.2
Identities = 7/22 (31%), Positives = 10/22 (45%), Gaps = 3/22 (13%)
Query: 43 CPVCMEPFNTLAKSLPYARCNQ 64
CP+C +P + S C Q
Sbjct: 5 CPLCHQPLSREKNSY---ICPQ 23
>2ckl_B Ubiquitin ligase protein RING2; BMI1, RING1B, polycomb, E3-ligase,
nuclear protein, chromosomal protein, transcription
regulation; 2.0A {Mus musculus} PDB: 3rpg_C 2h0d_B
Length = 165
Score = 25.3 bits (55), Expect = 3.5
Identities = 6/20 (30%), Positives = 9/20 (45%)
Query: 31 CSSEVMETRNKSCPVCMEPF 50
C + + NK CP C +
Sbjct: 81 CIITALRSGNKECPTCRKKL 100
>3l11_A E3 ubiquitin-protein ligase RNF168; E3 ligase, ring domain, DNA
damage, chromatin regulator, chromosomal protein, DNA
repair, metal-binding; 2.12A {Homo sapiens}
Length = 115
Score = 24.5 bits (53), Expect = 4.5
Identities = 6/41 (14%), Positives = 14/41 (34%)
Query: 31 CSSEVMETRNKSCPVCMEPFNTLAKSLPYARCNQSRLVCSI 71
C +E + CP C ++ + + + +I
Sbjct: 41 CFQSTVEKASLCCPFCRRRVSSWTRYHTRRNSLVNVELWTI 81
>2ecy_A TNF receptor-associated factor 3; metal binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 66
Score = 24.0 bits (52), Expect = 5.0
Identities = 4/22 (18%), Positives = 9/22 (40%)
Query: 30 QCSSEVMETRNKSCPVCMEPFN 51
C + ++ + + C C E
Sbjct: 40 SCMAALLSSSSPKCTACQESIV 61
>3ttc_A HYPF, transcriptional regulatory protein; Zn finger, nucleotide
binding, hydrogenase maturation factor transferase;
HET: ADP; 1.86A {Escherichia coli} PDB: 3tsp_A* 3tsu_A*
3ttf_A* 3ttd_A 3tsq_A
Length = 657
Score = 25.1 bits (55), Expect = 5.3
Identities = 10/44 (22%), Positives = 18/44 (40%), Gaps = 8/44 (18%)
Query: 29 PQCSSEVMETRNK-------SCPVCMEPFNTLAKSLPYARCNQS 65
P C +E+ + +C C P T+ +++PY R
Sbjct: 21 PACLAEMNTPGERRYRYPFINCTHC-GPRFTIIRAMPYDRPFTV 63
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 24.6 bits (53), Expect = 6.9
Identities = 8/62 (12%), Positives = 21/62 (33%), Gaps = 8/62 (12%)
Query: 17 VSSPPGLSALKTPQCSSEVMETRNKSCPVCMEPFNTLAKSLPYARCNQSRLVCSISGLQF 76
+ + + K + CP C + + ++ +VC++ GL
Sbjct: 1 MMTRESID--KRAGRRGPNLNIVLT-CPECKVYPPKIVER--FSE---GDVVCALCGLVL 52
Query: 77 NE 78
++
Sbjct: 53 SD 54
>3ng2_A RNF4, snurf, ring finger protein 4; ring domain, E3 ligase,
ubiquitylation, sumoylation, zinc-FI metal binding
protein; 1.80A {Rattus norvegicus}
Length = 71
Score = 23.6 bits (51), Expect = 7.3
Identities = 5/25 (20%), Positives = 16/25 (64%)
Query: 32 SSEVMETRNKSCPVCMEPFNTLAKS 56
++ + + SCP+CM+ ++ + ++
Sbjct: 2 TTGLRPSGTVSCPICMDGYSEIVQN 26
>1rmd_A RAG1; V(D)J recombination, antibody, MAD, ring finger, zinc
binuclear cluster, zinc finger, DNA-binding protein;
2.10A {Mus musculus} SCOP: g.37.1.1 g.44.1.1
Length = 116
Score = 23.7 bits (51), Expect = 9.2
Identities = 5/22 (22%), Positives = 7/22 (31%)
Query: 30 QCSSEVMETRNKSCPVCMEPFN 51
C ++ CP C P
Sbjct: 48 ICILRCLKVMGSYCPSCRYPCF 69
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
0.315 0.131 0.393
Gapped
Lambda K H
0.267 0.0544 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,328,401
Number of extensions: 58902
Number of successful extensions: 248
Number of sequences better than 10.0: 1
Number of HSP's gapped: 247
Number of HSP's successfully gapped: 55
Length of query: 97
Length of database: 6,701,793
Length adjustment: 63
Effective length of query: 34
Effective length of database: 4,942,770
Effective search space: 168054180
Effective search space used: 168054180
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: 41 (21.6 bits)
S2: 51 (23.8 bits)