RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4851
(62 letters)
>2wp8_J Exosome complex exonuclease DIS3; nucleus, hydrolase, RNA-binding,
exonucle binding, mitochondrion, rRNA processing; 3.00A
{Saccharomyces cerevisiae}
Length = 977
Score = 69.4 bits (170), Expect = 3e-16
Identities = 25/47 (53%), Positives = 27/47 (57%)
Query: 15 RYPQGHFVRALGPIGDKDTENEVLLLEHDVPHSKFSDLVLSYLPPMP 61
+YP GHFVR LG I E E LLLEHDV + FS VL LP
Sbjct: 437 KYPLGHFVRDLGTIESAQAETEALLLEHDVEYRPFSKKVLECLPAEG 483
>2vnu_D Exosome complex exonuclease RRP44; hydrolase-RNA complex, RNA
degradation, RNA-binding, RNA Pro; HET: 1PE; 2.30A
{Saccharomyces cerevisiae} SCOP: b.40.4.5 b.40.4.5
b.40.4.5 b.40.4.16
Length = 760
Score = 68.9 bits (169), Expect = 4e-16
Identities = 25/47 (53%), Positives = 27/47 (57%)
Query: 15 RYPQGHFVRALGPIGDKDTENEVLLLEHDVPHSKFSDLVLSYLPPMP 61
+YP GHFVR LG I E E LLLEHDV + FS VL LP
Sbjct: 220 KYPLGHFVRDLGTIESAQAETEALLLEHDVEYRPFSKKVLECLPAEG 266
>2id0_A Exoribonuclease 2; RNAse, exonuclease, hydrolyase, mRNA decay, RNR
family, hydrolase; 2.35A {Escherichia coli} SCOP:
b.40.4.5 b.40.4.5 b.40.4.5 b.40.4.16 PDB: 2ix0_A* 2ix1_A
Length = 644
Score = 35.6 bits (83), Expect = 3e-04
Identities = 7/46 (15%), Positives = 14/46 (30%), Gaps = 1/46 (2%)
Query: 13 HMRYPQGHFVRALGPIGDKDTENEVLLLEHDVPHSKFSDLVLSYLP 58
R + + D V L H++ + D V + +
Sbjct: 139 GDRSFYAELTQYITFGDDHFVPWWVTLARHNLEK-EAPDGVATEML 183
>2r7d_A Ribonuclease II family protein; structural genomics, PSI-2,
structure initiative, northeast structural genomics
consort NESG; 1.80A {Deinococcus radiodurans R1} SCOP:
b.40.4.5 b.40.4.16 PDB: 2r7f_A
Length = 469
Score = 34.6 bits (80), Expect = 7e-04
Identities = 7/56 (12%), Positives = 21/56 (37%), Gaps = 4/56 (7%)
Query: 10 IIHHMRYPQGHFVRALGPIGDKDTENEVLL---LEHDVPHSKFSDLVLSYLPPMPW 62
++ R + +R L + + +LL + + ++D + + L +
Sbjct: 16 LLARGRADKSRVLRDLKLPETPEAAHALLLRLGVWDEART-PYADRLRAALNAVEL 70
>1r45_A Exoenzyme C3, mono-ADP-ribosyltransferase C3; binary toxin, C3
exoenzyme; 1.57A {Clostridium phage c-st} SCOP:
d.166.1.1 PDB: 1r4b_A
Length = 204
Score = 29.3 bits (65), Expect = 0.051
Identities = 8/30 (26%), Positives = 12/30 (40%)
Query: 10 IIHHMRYPQGHFVRALGPIGDKDTENEVLL 39
I+ + G + PI + EVLL
Sbjct: 147 IVTKFKVTNGSKGGYIDPISYFPGQLEVLL 176
>2wn4_A ADP-ribosyltransferase enzymatic component; CDTA, ACTIN-ADPRT,
binary toxin; 1.85A {Clostridium difficile} PDB: 2wn5_A
2wn7_A* 2wn8_A 2wn6_A*
Length = 463
Score = 28.8 bits (63), Expect = 0.072
Identities = 10/30 (33%), Positives = 13/30 (43%)
Query: 10 IIHHMRYPQGHFVRALGPIGDKDTENEVLL 39
I+ + P+G L I E EVLL
Sbjct: 404 IVLRITIPKGSPGAYLSAIPGYAGEYEVLL 433
>2j3x_A C2 toxin component I; ADP-ribosyltransferase; 1.75A {Clostridium
botulinum} PDB: 2j3v_A 2j3z_A
Length = 431
Score = 28.8 bits (63), Expect = 0.074
Identities = 7/30 (23%), Positives = 11/30 (36%)
Query: 10 IIHHMRYPQGHFVRALGPIGDKDTENEVLL 39
I +R +G + E E+LL
Sbjct: 363 FIFRLRLSEGAIGAFIYGFSGFQDEQEILL 392
>3nts_A VSDC; mono-ADP ribosyltransferase toxin, transferase; 3.40A
{Aeromonas hydrophila}
Length = 241
Score = 27.9 bits (61), Expect = 0.14
Identities = 10/40 (25%), Positives = 15/40 (37%), Gaps = 4/40 (10%)
Query: 10 IIHHMRYPQGHFVRALGPIGDKDTENEVLLLEHDVPHSKF 49
+ +R P GH R LG E E+L ++
Sbjct: 164 TLLKIRLPAGHGGRLLGDAAHFKGEAEMLFP----TQTRL 199
>2gwm_A 65 kDa virulence protein; SPVB, ADP-ribosyltransferase,
transferase, toxin; 1.50A {Salmonella typhimurium} PDB:
2gwl_A*
Length = 200
Score = 27.9 bits (61), Expect = 0.17
Identities = 10/37 (27%), Positives = 17/37 (45%), Gaps = 4/37 (10%)
Query: 13 HMRYPQGHFVRALGPIGDKDTENEVLLLEHDVPHSKF 49
++ +GH R LG + E E+L P++K
Sbjct: 125 NIYLEKGHKGRILGDVAHFKGEAEMLFP----PNTKL 157
>1qs1_A ADP-ribosyltransferase; alpha-beta protein, binary toxin,
insecticial protein; 1.50A {Bacillus cereus} SCOP:
d.166.1.1 d.166.1.1 PDB: 1qs2_A*
Length = 462
Score = 28.0 bits (61), Expect = 0.18
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 10 IIHHMRYPQGHFVRALGPIGDKDTENEVLL 39
II ++ P+G L IG +E E+LL
Sbjct: 402 IILRLQVPKGSTGAYLSAIGGFASEKEILL 431
>1giq_A IOTA toxin component IA; enzymatic component; HET: NAD; 1.80A
{Clostridium perfringens} SCOP: d.166.1.1 d.166.1.1 PDB:
1gir_A* 3buz_A*
Length = 413
Score = 27.5 bits (60), Expect = 0.22
Identities = 10/30 (33%), Positives = 12/30 (40%)
Query: 10 IIHHMRYPQGHFVRALGPIGDKDTENEVLL 39
II + P+ L I E EVLL
Sbjct: 354 IILRINIPKDSPGAYLSAIPGYAGEYEVLL 383
>2c8e_E Exoenzyme C3, mono-ADP-ribosyltransferase C3; C3 exoenzyme, ARTT
motif, bacterial toxins, glycosyltransferase; 1.60A
{Clostridium botulinum} PDB: 2c8f_E* 1g24_A 1gzf_A*
1uzi_A* 2c89_A 2c8a_A 2a9k_B* 2a78_B* 1gze_A 2c8b_X
2c8c_A* 2c8d_A 2c8h_A* 2c8g_A*
Length = 211
Score = 26.7 bits (58), Expect = 0.47
Identities = 7/30 (23%), Positives = 12/30 (40%)
Query: 10 IIHHMRYPQGHFVRALGPIGDKDTENEVLL 39
II + +G + PI + +LL
Sbjct: 148 IITKFKVAKGSKAGYIDPISAFAGQLNMLL 177
>3bw8_A Exoenzyme C3, mono-ADP-ribosyltransferase C3; C3LIM, RHO,
ribosylating toxin, ARTT, C3BOT, C3CER, C3STAU,
glycosyltransferase, NAD; 1.80A {Clostridium limosum}
Length = 217
Score = 26.3 bits (57), Expect = 0.52
Identities = 9/30 (30%), Positives = 12/30 (40%)
Query: 10 IIHHMRYPQGHFVRALGPIGDKDTENEVLL 39
II + G + PI + EVLL
Sbjct: 160 IITKFKVLDGSKAGYIEPISTFKGQLEVLL 189
>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 = 26.0 bits (56), Expect = 0.73
Identities = 10/35 (28%), Positives = 18/35 (51%), Gaps = 9/35 (25%)
Query: 28 IGDKDTENEVLL---------LEHDVPHSKFSDLV 53
I D D + E L+ +E ++ SK++DL+
Sbjct: 534 ICDNDPKYERLVNAILDFLPKIEENLICSKYTDLL 568
>2bov_B Mono-ADP-ribosyltransferase C3; C3BOT, exoenzyme, RAla, GTPase,
ribosylating toxin, GTP-binding, lipoprotein,
prenylation; HET: GDP; 2.66A {Clostridium botulinum}
Length = 251
Score = 26.0 bits (56), Expect = 0.76
Identities = 8/30 (26%), Positives = 13/30 (43%)
Query: 10 IIHHMRYPQGHFVRALGPIGDKDTENEVLL 39
II + +G + PI + E+LL
Sbjct: 188 IITKFKVAKGSKAGYIDPISAFAGQLEMLL 217
>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 = 25.8 bits (56), Expect = 0.97
Identities = 14/65 (21%), Positives = 26/65 (40%), Gaps = 20/65 (30%)
Query: 7 KPLIIHH--MRY----PQGHFVRA--LGPIGDKDTENEVL------LLEHDVPHSKFSDL 52
+PL + H + + P F A L ++ N++L D P + ++L
Sbjct: 7 RPLTLSHGSLEHVLLVPTASFFIASQL-----QEQFNKILPEPTEGFAADDEPTTP-AEL 60
Query: 53 VLSYL 57
V +L
Sbjct: 61 VGKFL 65
>3fve_A DAP epimerase, diaminopimelate epimerase; alpha/beta, amino-acid
biosynthesis, isomerase, lysine biosy; 2.60A
{Mycobacterium tuberculosis}
Length = 290
Score = 24.5 bits (54), Expect = 2.4
Identities = 4/26 (15%), Positives = 9/26 (34%), Gaps = 3/26 (11%)
Query: 5 LIKPLIIHHMRYPQG---HFVRALGP 27
+ P+ ++P G + A
Sbjct: 184 VGAPVSFDGAQFPDGVNVEVLTAPVD 209
>1s16_A Topoisomerase IV subunit B; two-domain protein complexed with
ADPNP; HET: ANP; 2.10A {Escherichia coli} SCOP: d.14.1.3
d.122.1.2
Length = 390
Score = 23.6 bits (52), Expect = 4.6
Identities = 5/25 (20%), Positives = 12/25 (48%)
Query: 11 IHHMRYPQGHFVRALGPIGDKDTEN 35
++++ + G V+ L +G N
Sbjct: 136 VYNIAFENGEKVQDLQVVGTCGKRN 160
>1k9a_A Carboxyl-terminal SRC kinase; COOH-terminal SRC kinase, CSK, SFK,
signal transduction, SH2, SH3, SRC homology, tyrosine
kinase; 2.50A {Rattus norvegicus} SCOP: b.34.2.1
d.93.1.1 d.144.1.7 PDB: 1jeg_A
Length = 450
Score = 23.5 bits (51), Expect = 5.2
Identities = 7/50 (14%), Positives = 14/50 (28%), Gaps = 3/50 (6%)
Query: 3 FALIKPLIIHHMRYPQGHFVRALGPIGDKDTENEVLLLEHD---VPHSKF 49
F + L+ H+ G R + P + T + +
Sbjct: 146 FENLMQLVEHYTTDADGLCTRLIKPKVMEGTVAAQDEFYRSGWALNMKEL 195
>3lnu_A Topoisomerase IV subunit B; PARE, ATP-binding, nucleotide-BI
topoisomerase; 2.20A {Xanthomonas oryzae PV} PDB:
3lps_A*
Length = 408
Score = 23.2 bits (51), Expect = 6.4
Identities = 6/25 (24%), Positives = 10/25 (40%)
Query: 11 IHHMRYPQGHFVRALGPIGDKDTEN 35
H M + G+ L +G +N
Sbjct: 155 EHRMEFRDGNAASKLEVVGTVGKKN 179
>1w66_A Lipoyltransferase; lipoate-protein ligase B, lipoic acid,
acyltransferase, mycobacterium tuberculosis structural
proteomics project; HET: DKA; 1.08A {Mycobacterium
tuberculosis} SCOP: d.104.1.3
Length = 232
Score = 23.0 bits (50), Expect = 8.6
Identities = 5/14 (35%), Positives = 7/14 (50%)
Query: 30 DKDTENEVLLLEHD 43
+ +LLLEH
Sbjct: 39 VAGGADTLLLLEHP 52
>2qhs_A Lipoyltransferase; globular protein; HET: OCA; 1.50A {Thermus
thermophilus} PDB: 2qht_A 2qhu_A 2qhv_A
Length = 237
Score = 22.7 bits (49), Expect = 9.2
Identities = 5/16 (31%), Positives = 8/16 (50%)
Query: 28 IGDKDTENEVLLLEHD 43
+ + +LLLEH
Sbjct: 47 VVAGNRPPTLLLLEHP 62
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
0.326 0.146 0.473
Gapped
Lambda K H
0.267 0.0462 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 990,558
Number of extensions: 43363
Number of successful extensions: 112
Number of sequences better than 10.0: 1
Number of HSP's gapped: 112
Number of HSP's successfully gapped: 22
Length of query: 62
Length of database: 6,701,793
Length adjustment: 33
Effective length of query: 29
Effective length of database: 5,780,400
Effective search space: 167631600
Effective search space used: 167631600
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (24.1 bits)