RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy423
(255 letters)
>1odh_A MGCM1; transcription factor/DNA, transcription factor, DNA-binding
domain, protein/DNA complex; 2.85A {Mus musculus} SCOP:
d.239.1.1
Length = 174
Score = 218 bits (557), Expect = 1e-72
Identities = 84/146 (57%), Positives = 104/146 (71%), Gaps = 2/146 (1%)
Query: 86 VTEFNSWQEWADGHCRFVYPASSEEAKRHASGWAMRNTNNHNVHILKKSCLGVLVCSRRC 145
V + +QEW D + + +Y + A+RH S WAMRNTNNHN ILKKSCLGV+VCSR C
Sbjct: 27 VKTTDWFQEWPDSYVKHIYSSDDRNAQRHLSSWAMRNTNNHNSRILKKSCLGVVVCSRDC 86
Query: 146 VLPSGDSVHLRPAICDKARKKQTGKPCPNRKCTGRLEIMPCRGHCGYPVTHFWRHTDYGI 205
G ++LRPAICDKAR+KQ K CPN C G L+++PCRGH G+PVT+FWRH I
Sbjct: 87 STEEGRKIYLRPAICDKARQKQQRKSCPN--CNGPLKLIPCRGHGGFPVTNFWRHDGRFI 144
Query: 206 FFQAKGVHDHLRPEAKSTSEARRSLG 231
FFQ+KG HDH RPE K +EARR++
Sbjct: 145 FFQSKGEHDHPRPETKLEAEARRAMK 170
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 28.9 bits (64), Expect = 1.5
Identities = 26/129 (20%), Positives = 34/129 (26%), Gaps = 43/129 (33%)
Query: 10 GSPVMKSVLPYSPRSFRHTADWDINDSVIPRAGRRF----ELLT---------------F 50
GS M + YS ++ D D V P R EL F
Sbjct: 114 GSVGMAIQVNYSSEVKENSVDSDDKAKVPPL--IRIVSGLELSDTKQKGKKFLVIAYEPF 171
Query: 51 E----RLPERLILEDGKVVNMSTLGHAQMVIHPGNRVLLVTEFNS-WQEW-ADG---HCR 101
E LP IL N V E N W A + +
Sbjct: 172 ENIAIELPPNEILFSENN-------------DMDNNNDGVDELNKKCTFWDAISKLYYVQ 218
Query: 102 FVYPASSEE 110
F + + +E
Sbjct: 219 FFFKQAEQE 227
>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 = 27.9 bits (61), Expect = 4.6
Identities = 22/151 (14%), Positives = 47/151 (31%), Gaps = 23/151 (15%)
Query: 14 MKSVLPYSPRSFRHTADWDINDSVIPRAGRRFELLTFERLPERLI---LEDGKVVNMSTL 70
KS+L S H ++ + R F L E ++ +E+ +N L
Sbjct: 42 PKSIL--SKEEIDHII---MSKDAVSGTLRLFWTL--LSKQEEMVQKFVEEVLRINYKFL 94
Query: 71 GHAQMVIHPGNRVLLVTEFNSWQE--WADGHCRFV-YPASSEEAKRHASGWAMRNTNNHN 127
+ + ++ + ++ + D F Y S + + N
Sbjct: 95 -MSPIKTEQRQPSMMTRMYIEQRDRLYNDNQ-VFAKYNVSRLQPYLKLRQALLELRPAKN 152
Query: 128 V--HILK---KSCLGVLVCS---RRCVLPSG 150
V + K+ + + VC +C +
Sbjct: 153 VLIDGVLGSGKTWVALDVCLSYKVQCKMDFK 183
>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 = 27.7 bits (61), Expect = 5.1
Identities = 38/211 (18%), Positives = 65/211 (30%), Gaps = 70/211 (33%)
Query: 64 VVNMSTLGHAQMVIHPGNRVLLVTEFNSWQEWADGHCRFVYPASSEEAKRHASGWAMRNT 123
VV LG PG E S+ + A GH + + A A W
Sbjct: 250 VVTAKLLG-----FTPG-------ELRSYLKGATGHSQGLVTAV---AIAETDSWESFFV 294
Query: 124 NNHN-VHILKKSCLGVLVCSRRC--VLPSGDSVHLRPAICDKARKKQTGKPCPNRKCTG- 179
+ + +L +GV RC P+ L P+I + + + G P P +
Sbjct: 295 SVRKAITVL--FFIGV-----RCYEAYPN---TSLPPSILEDSLENNEGVPSPMLSISNL 344
Query: 180 -RLEI----------MPCRGH--------------CGYPVTHFWRHTDYGIFFQA-KGVH 213
+ ++ +P G P Q+ G++
Sbjct: 345 TQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPP--------------QSLYGLN 390
Query: 214 DHLR-PEAKSTSEARRSLGAGRRVRGLAVLL 243
LR +A S + R + R+++ L
Sbjct: 391 LTLRKAKAPSGLDQSRIPFSERKLKFSNRFL 421
>1nj8_A Proline-tRNA synthetase, proline--tRNA ligase; class-II tRNA
synthetase; 3.20A {Methanocaldococcus jannaschii} SCOP:
c.51.1.1 d.68.5.1 d.104.1.1
Length = 459
Score = 27.3 bits (61), Expect = 5.3
Identities = 6/30 (20%), Positives = 13/30 (43%), Gaps = 6/30 (20%)
Query: 86 VTEFNSWQEWADGHCRFVYPASSEEAKRHA 115
+ E +++E H ++ EEA+
Sbjct: 148 LREIMTFKE---AHTAH---STKEEAENQV 171
>1nj1_A PROR, proline-tRNA synthetase, proline--tRNA ligase;
protein-aminoacyladenylate complex class-II tRNA
synthetase,; HET: 5CA; 2.55A {Methanothermobacter
thermautotrophicusorganism_taxid} SCOP: c.51.1.1
d.68.5.1 d.104.1.1 PDB: 1nj2_A 1nj5_A* 1nj6_A*
Length = 501
Score = 27.4 bits (61), Expect = 5.6
Identities = 7/30 (23%), Positives = 13/30 (43%), Gaps = 6/30 (20%)
Query: 86 VTEFNSWQEWADGHCRFVYPASSEEAKRHA 115
V E +++E H A++ EA+
Sbjct: 180 VREITTFKE---AHTIH---ATASEAEEQV 203
>4acr_A Glypican-1; proteoglycan, glycosaminoglycans, heparan sulfate,
helical B glycoprotein, membrane protein; HET: NAG;
2.55A {Homo sapiens} PDB: 4ad7_A*
Length = 478
Score = 27.4 bits (60), Expect = 6.0
Identities = 12/45 (26%), Positives = 15/45 (33%), Gaps = 5/45 (11%)
Query: 146 VLPSGDSVHLRPAICDKARKKQTGKPCPNRKCTGRLEIMPCRGHC 190
V+ V L P C +A K C G PC +C
Sbjct: 232 VVRKVAQVPLGPE-CSRAVMKLVYCA----HCLGVPGARPCPDYC 271
>3rby_A Uncharacterized protein YLR301W; beta-barrel, unknown function;
HET: PGE; 2.30A {Saccharomyces cerevisiae}
Length = 245
Score = 26.4 bits (57), Expect = 10.0
Identities = 8/64 (12%), Positives = 18/64 (28%), Gaps = 3/64 (4%)
Query: 9 TGSPVMKSVLPYSPRSFRHTADWDINDSV---IPRAGRRFELLTFERLPERLILEDGKVV 65
G+ ++ ++ +V +P R T++ + E G V
Sbjct: 56 AGTNETVKANDQGNGVVTQDFNFWLDTNVYLNVPNTHRGEVNTTWKNWDSGCVEETGAVY 115
Query: 66 NMST 69
Sbjct: 116 PFGA 119
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
0.323 0.137 0.444
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,117,591
Number of extensions: 242761
Number of successful extensions: 438
Number of sequences better than 10.0: 1
Number of HSP's gapped: 437
Number of HSP's successfully gapped: 13
Length of query: 255
Length of database: 6,701,793
Length adjustment: 91
Effective length of query: 164
Effective length of database: 4,160,982
Effective search space: 682401048
Effective search space used: 682401048
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 56 (25.9 bits)