RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12253
(149 letters)
>3ngq_A CCR4-NOT transcription complex subunit 6-like; alpha/beta sandwich
fold, hydrolase; HET: 1PS; 1.80A {Homo sapiens} PDB:
3ngo_A 3ngn_A
Length = 398
Score = 72.7 bits (177), Expect = 4e-16
Identities = 27/85 (31%), Positives = 37/85 (43%), Gaps = 12/85 (14%)
Query: 67 LGLTSAYRHRTANNQEPQYTTWKIREEGEVCHTIDYVFYSQDKFDVEAVLDMPSGEQIGR 126
L SAY + YT + +G IDY+FYS+ +VE VL + +
Sbjct: 307 FQLKSAYENNL-----MPYTNYTFDFKG----VIDYIFYSKTHMNVEGVLGPLDPQWLVE 357
Query: 127 DR---IPSLRYPSDHFSLVCDLTLK 148
+ P PSDHFSL+ L L
Sbjct: 358 NNITGCPHPHIPSDHFSLLTQLELH 382
>3l1w_A Uncharacterized protein; APC29019.2, conserved protein,
enterococcus faecalis V583, PSI-2, MCSG, structural
genomics; 1.60A {Enterococcus faecalis}
Length = 257
Score = 70.0 bits (171), Expect = 2e-15
Identities = 18/153 (11%), Positives = 40/153 (26%), Gaps = 27/153 (17%)
Query: 14 VAVLLVLRNKKTQEEICIATTHLKARNG-------ALLSTLRNEQEPTEPIY-------- 58
+A+ + + + HL + ++ +++ P
Sbjct: 111 IALWGLFKETTQNTPFLVINVHLDHISAHARLAGMTVILEELHDKIAQYPTLLMGDFNAE 170
Query: 59 --NTVMNHETLGLTSAYRHRTANNQEPQYTTWKIREEGEVCHTIDYVFYSQDKFDVEAVL 116
V + T + + + IDY++ + A L
Sbjct: 171 SGEEVHQLVQKKFQDSKNLATHYGPRGTFQNFTYTKPWAELEEIDYIYVKGWQVQQTASL 230
Query: 117 DMPSGEQIGRDRIPSLRYPSDHFSLVCDLTLKK 149
R+PSDHF L ++ +
Sbjct: 231 TDS----------IDGRFPSDHFPLEAEVAGEN 253
>3g6s_A Putative endonuclease/exonuclease/phosphatase family protein;
alpha-beta protein, structural genomics, PSI-2; 2.50A
{Bacteroides vulgatus atcc 8482}
Length = 267
Score = 64.6 bits (157), Expect = 2e-13
Identities = 23/159 (14%), Positives = 45/159 (28%), Gaps = 34/159 (21%)
Query: 13 QVAVLLVLRNKKTQEEICIATTHLKARNGA--------LLSTLRNEQ------------- 51
++A ++K T + TH ++ ++
Sbjct: 116 RIATWAKFKDKATGKIFMAVNTHFDHVGEEARRQSALLIIRKIKEIVGERPAVVTGDFNV 175
Query: 52 EPTEPIYNTVMNHETLGLTSAYRH-RTANNQEPQYTTWKIREEGEVCHTIDYVFYSQDKF 110
Y T+ +E + AY+ + + + R E C ID++F +
Sbjct: 176 TDASDAYETITTNE-FVMKDAYKTAARVTGVDYTFHDFA-RIPAEDCEKIDFIFVTPQVL 233
Query: 111 DVEAVLDMPSGEQIGRDRIPSLRYPSDHFSLVCDLTLKK 149
+ E SDH + DL L+
Sbjct: 234 VKSCEIPAEVPE----------ALLSDHNPQLADLELEH 262
>3mpr_A Putative endonuclease/exonuclease/phosphatase FAM protein;
structural genomics, PSI-2, protein structure
initiative; HET: MSE PEG; 1.90A {Bacteroides
thetaiotaomicron}
Length = 298
Score = 60.1 bits (145), Expect = 9e-12
Identities = 24/175 (13%), Positives = 45/175 (25%), Gaps = 41/175 (23%)
Query: 13 QVAVLLVLRNKKTQEEICIATTHL-----KARNGA---LLSTLRNEQ------------- 51
++ + K T E H+ KAR + + ++
Sbjct: 120 RICSWGHFKCKDTGFEFLFFNLHMDHIGKKARVESAFLVQEKMKELGRGKNLPAILTGDF 179
Query: 52 --EPTEPIYNTVMNHETLGLTSAYRHRTANNQEPQYTTWKIREEGEVCHTIDYVFYSQD- 108
+ T Y+ ++ L +Y T ID++F S
Sbjct: 180 NVDQTHQSYDAFVSKG--VLCDSYEK-CDYRYALNGTFNNFDPNSFTESRIDHIFVSPSF 236
Query: 109 --------------KFDVEAVLDMPSGEQIGRDRIPSLRYPSDHFSLVCDLTLKK 149
+ D+ + + R PSDHF + +L
Sbjct: 237 HVKRYGVLTDTYRSVRENSKKEDVRDCPEEITIKAYEARTPSDHFPVKVELVFDL 291
>2ddr_A Sphingomyelin phosphodiesterase; DNAse I like folding, riken
structural genomics/proteomics initiative, RSGI,
structural genomics, hydrolase; 1.40A {Bacillus cereus}
SCOP: d.151.1.3 PDB: 2dds_A 2ddt_A* 2uyr_X
Length = 306
Score = 43.6 bits (102), Expect = 6e-06
Identities = 29/174 (16%), Positives = 53/174 (30%), Gaps = 42/174 (24%)
Query: 17 LLVLRNKKTQEEICIATTHLKARNGA----LLSTLRNEQ-------------EPTEPI-- 57
+ + KK + + THL+A + +++R Q E +
Sbjct: 133 FVYTKIKKNDRFVHVIGTHLQAEDSMCGKTSPASVRTNQLKEIQDFIKNKNIPNNEYVLI 192
Query: 58 ---YNTVMNHETLGLTSAYRH--RTANNQEPQYT----TW--------KIREEGEVCHTI 100
N + S Y +T N P YT TW K +
Sbjct: 193 GGDMNVNKINAENNNDSEYASMFKTLNASVPSYTGHTATWDATTNSIAKYNFPDSPAEYL 252
Query: 101 DYVFYSQDKFDVEAV------LDMPSGEQIGRDRIPSLRYPSDHFSLVCDLTLK 148
DY+ S+D + + P + + SDH+ + +++K
Sbjct: 253 DYIIASKDHANPSYIENKVLQPKSPQWTVTSWFQKYTYNDYSDHYPVEATISMK 306
>3teb_A Endonuclease/exonuclease/phosphatase; PSI-biology, MCSG, midwest
center for structural genomics; 2.99A {Leptotrichia
buccalis c-1013-b}
Length = 266
Score = 37.5 bits (87), Expect = 6e-04
Identities = 21/146 (14%), Positives = 49/146 (33%), Gaps = 39/146 (26%)
Query: 27 EEICIATTHLKARNG------ALLSTLRNEQEPTEPIYNTVM---NHETLGLTSAYR--- 74
++I + H+ N + T+ N + + +M N + +G +AY
Sbjct: 135 QDIEFYSCHMNLPNCETEDMGKNIQTILNRTQNSNLKI--LMGDFNTDAIGNVAAYENIL 192
Query: 75 -------HRTANNQEPQYT------TWKIREEGEVCHTIDYVFYSQDKFDVEAVLDMPSG 121
+ A ++ T W + + +DY+F +++ V+
Sbjct: 193 SQGLFDTYVMAEKKDDGITVDKSIHGWDNDKAKK---RLDYIFSNKE-LKVKES------ 242
Query: 122 EQIGRDRIPSLRYPSDHFSLVCDLTL 147
++ + SDHF + +
Sbjct: 243 -KVIFNNKNK-EIVSDHFGIEVKIEF 266
>3i41_A Beta-hemolysin; beta toxin, sphingomyelinase, toxin; 1.75A
{Staphylococcus aureus} PDB: 3i46_A 3i48_A 3i5v_A*
3k55_A
Length = 317
Score = 36.6 bits (84), Expect = 0.001
Identities = 22/170 (12%), Positives = 48/170 (28%), Gaps = 42/170 (24%)
Query: 17 LLVLRNKKTQEEICIATTHLKARNG----ALLSTLRNEQ--------------------- 51
+ + +K + + + TH ++ + +R EQ
Sbjct: 152 FVYTKIEKNGKNVHVIGTHTQSEDSRCGAGHDRKIRAEQMKEISDFVKKKNIPKDETVYI 211
Query: 52 ------EPTEPIYNTVMNHETLGLTSAYRHRTANNQEPQYTTW-KIREEGEVCHTIDYVF 104
P + ++ + L + + +PQ + K +DY+F
Sbjct: 212 GGDLNVNKGTPEFKDMLKN--LNVNDVLYAGHNSTWDPQSNSIAKYNYPNGKPEHLDYIF 269
Query: 105 YSQDKF-----DVEAVLDMPSGEQIGRDRIPSLRYP-SDHFSLVCDLTLK 148
+D E V + P + + SDH+ + K
Sbjct: 270 TDKDHKQPKQLVNEVVTEKPKPWDVYAAAYYYVYNDFSDHYPIKA--YSK 317
>1zwx_A SMCL, sphingomyelinase-C; dnase1-like fold, beta-hairpin,
hydrolase; 1.90A {Listeria ivanovii} SCOP: d.151.1.3
Length = 301
Score = 35.8 bits (82), Expect = 0.003
Identities = 19/163 (11%), Positives = 43/163 (26%), Gaps = 37/163 (22%)
Query: 17 LLVLRNKKTQEEICIATTHLKARNGALL----STLRNEQ--------------------- 51
++ K + I TH +A + + +R EQ
Sbjct: 133 FAYVKIMKNGKPYHIIGTHTQADDSLISKDTSRAIRAEQMQEIQTFIAKKNIPKDEIIFI 192
Query: 52 ------EPTEPIYNTVMNHETLGLTSAYRHRTANNQEPQYTTWKIREEGEVCHTIDYVFY 105
Y+ ++ + + + + A + K +DY+F
Sbjct: 193 GGDLNVNYGTDEYHDMLKLLNVSSPANFNGQMATWDPTTNSMLKESYPKAAPEYLDYIFV 252
Query: 106 SQDKFDVEAVLDMPSGEQIGRDRIPSLRYP------SDHFSLV 142
+ + + + + S SDH+ +V
Sbjct: 253 ENGHARPHSWHNKVLHTKSPQWSVKSWFKTYTYQDFSDHYPVV 295
>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 = 34.1 bits (77), Expect = 0.015
Identities = 16/84 (19%), Positives = 26/84 (30%), Gaps = 18/84 (21%)
Query: 1 MRIIIMKRGAPRQVAVLLVLRNKKTQEEI------C--IATTHLKARNGAL---LSTLRN 49
+R ++ + LLVL N + + C + TT R + LS
Sbjct: 234 LRRLLKSKPYEN---CLLVLLNVQNAKAWNAFNLSCKILLTT----RFKQVTDFLSAATT 286
Query: 50 EQEPTEPIYNTVMNHETLGLTSAY 73
+ T+ E L Y
Sbjct: 287 THISLDHHSMTLTPDEVKSLLLKY 310
>1wdu_A TRAS1 ORF2P; four-layered alpha/beta sandwich, RNA binding protein;
2.40A {Bombyx mori} SCOP: d.151.1.1
Length = 245
Score = 26.8 bits (58), Expect = 2.9
Identities = 16/70 (22%), Positives = 25/70 (35%), Gaps = 11/70 (15%)
Query: 80 NQEPQYTTWKIREEGEVCHTIDYVFYSQDKFDVEAVLDMPSGEQIGRDRIPSLRYPSDHF 139
N+ T IR +D F ++D D I R+ SDH
Sbjct: 187 NEGDVPTFDTIRGGKRYQSRVDVTFCTEDMLD-----------LIDGWRVDEDLVSSDHN 235
Query: 140 SLVCDLTLKK 149
+V ++ L+K
Sbjct: 236 GMVFNIRLQK 245
>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides,
nucleotides, transferase; HET: 5GP; 1.85A {Coxiella
burnetii}
Length = 205
Score = 26.3 bits (59), Expect = 3.9
Identities = 8/27 (29%), Positives = 13/27 (48%), Gaps = 2/27 (7%)
Query: 85 YTTWKIREEGEVCHTIDYVFYSQDKFD 111
+TT R G+ +DY F + +F
Sbjct: 40 HTTRPKRP-GDQ-EGVDYFFIDETRFQ 64
>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase;
2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A*
2anb_A* 2anc_A 2f3r_A* 2f3t_A*
Length = 219
Score = 26.0 bits (58), Expect = 4.4
Identities = 11/27 (40%), Positives = 15/27 (55%), Gaps = 2/27 (7%)
Query: 85 YTTWKIREEGEVCHTIDYVFYSQDKFD 111
+TT + R GEV H Y F + D+F
Sbjct: 51 HTTRQPRP-GEV-HGEHYFFVNHDEFK 75
>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography,
emerald biostructures, ATP-binding, cytoplasm,
nucleotide-binding; HET: 5GP; 1.95A {Anaplasma
phagocytophilum}
Length = 231
Score = 26.0 bits (58), Expect = 5.1
Identities = 9/27 (33%), Positives = 13/27 (48%), Gaps = 2/27 (7%)
Query: 85 YTTWKIREEGEVCHTIDYVFYSQDKFD 111
TT R+ GE DY F +++F
Sbjct: 61 VTTRAARK-GEK-EGKDYYFVDREEFL 85
>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for
structural genomics of infec diseases, csgid, putative
guanylate kinase; HET: MSE; 2.05A {Listeria
monocytogenes}
Length = 208
Score = 25.5 bits (57), Expect = 6.2
Identities = 11/27 (40%), Positives = 15/27 (55%), Gaps = 2/27 (7%)
Query: 85 YTTWKIREEGEVCHTIDYVFYSQDKFD 111
TT RE GE +DY F S++ F+
Sbjct: 42 MTTRLPRE-GEQ-DGVDYYFRSREVFE 66
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
0.319 0.134 0.392
Gapped
Lambda K H
0.267 0.0839 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,200,473
Number of extensions: 115568
Number of successful extensions: 194
Number of sequences better than 10.0: 1
Number of HSP's gapped: 188
Number of HSP's successfully gapped: 17
Length of query: 149
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 64
Effective length of database: 4,328,508
Effective search space: 277024512
Effective search space used: 277024512
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 (21.8 bits)
S2: 53 (24.0 bits)