RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17076
(71 letters)
>3ocm_A Putative membrane protein; structural genomics, PSI-2, protein
structure initiative, MI center for structural
genomics, MCSG; HET: ADP; 1.80A {Bordetella
parapertussis}
Length = 173
Score = 29.8 bits (68), Expect = 0.034
Identities = 12/52 (23%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 19 ALKKDEVNIISGALEMTQKKVEEIMTKLDDCYMLDIETILNFTVISEIVRTG 70
A +E N++SG L + ++ + IMT D ++I+ T+ ++
Sbjct: 18 AFGVEERNMVSGVLTLAERSIRSIMTPRTDVSWVNIDDDAA-TIRQQLTAAP 68
>3oi8_A Uncharacterized protein; structural genomics, PSI-2, protein
structure initiative, MI center for structural
genomics, MCSG; HET: ADN; 1.99A {Neisseria meningitidis
serogroup B}
Length = 156
Score = 29.3 bits (67), Expect = 0.052
Identities = 6/51 (11%), Positives = 18/51 (35%), Gaps = 1/51 (1%)
Query: 20 LKKDEVNIISGALEMTQKKVEEIMTKLDDCYMLDIETILNFTVISEIVRTG 70
D + + L+ + +V + M +L + + + ++ T
Sbjct: 21 FDADTLLRLEKVLDFSDLEVRDAMITRSRMNVLKENDSIE-RITAYVIDTA 70
>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 = 29.4 bits (65), Expect = 0.058
Identities = 8/58 (13%), Positives = 19/58 (32%), Gaps = 15/58 (25%)
Query: 1 MKKKFKTGIPMEATSNLVALKKDEVNIISGAL-----EMTQKKVEEIMTKLDDCYMLD 53
+K F L +I + L ++ + V ++ KL +++
Sbjct: 371 YRKMFD---------RLSVFPPS-AHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVE 418
Score = 26.7 bits (58), Expect = 0.60
Identities = 11/75 (14%), Positives = 21/75 (28%), Gaps = 19/75 (25%)
Query: 6 KTGIPMEATSNLVALKKDEVNIISGALEMTQKKVEEIM----TKLD-----DCY-MLDIE 55
T P S + +D + + K+ I+ L+ + L +
Sbjct: 323 LTTNPR-RLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV- 380
Query: 56 TILNF---TVISEIV 67
F I I+
Sbjct: 381 ----FPPSAHIPTIL 391
>3lhh_A CBS domain protein; structural genomics, PSI-2, protein structure
initiative, midwest center for structural genomics,
MCSG, cell membrane; HET: MSE AMP; 2.10A {Shewanella
oneidensis}
Length = 172
Score = 27.8 bits (63), Expect = 0.20
Identities = 6/52 (11%), Positives = 23/52 (44%), Gaps = 1/52 (1%)
Query: 19 ALKKDEVNIISGALEMTQKKVEEIMTKLDDCYMLDIETILNFTVISEIVRTG 70
++ +E ++ + ++ + +M D LD+ L+ + ++++
Sbjct: 24 VIEHNEHAMVKNVFRLDERTISSLMVPRSDIVFLDLNLPLD-ANLRTVMQSP 74
>3oco_A Hemolysin-like protein containing CBS domains; structural
genomics, PSI-2, protein structure initiative, MI
center for structural genomics, MCSG; 2.20A {Oenococcus
oeni}
Length = 153
Score = 27.4 bits (62), Expect = 0.28
Identities = 7/51 (13%), Positives = 20/51 (39%), Gaps = 1/51 (1%)
Query: 20 LKKDEVNIISGALEMTQKKVEEIMTKLDDCYMLDIETILNFTVISEIVRTG 70
+++ N + A EM K ++M ++D++ + + +
Sbjct: 3 ADEEDANFMQRAFEMNDKVASDVMVDRTSMSVVDVDETIA-DALLLYLEEQ 52
>3lv9_A Putative transporter; CBS domain, PSI, MCSG, structural genomics,
protein structur initiative, midwest center for
structural genomics; 2.40A {Clostridium difficile 630}
Length = 148
Score = 26.6 bits (60), Expect = 0.43
Identities = 9/51 (17%), Positives = 20/51 (39%), Gaps = 1/51 (1%)
Query: 20 LKKDEVNIISGALEMTQKKVEEIMTKLDDCYMLDIETILNFTVISEIVRTG 70
+ + E ++ E +KK+ EIM D + +++ + G
Sbjct: 6 IDESEQRLVDNIFEFEEKKIREIMVPRTDMVCIYESDSEE-KILAILKEEG 55
>3h7j_A Bacilysin biosynthesis protein BACB; YWFC, bacilysin synthesis,
anticapsin synthesis, BI-Cu double stranded beta helix,
antibiotic biosynthesis; HET: PPY; 1.87A {Bacillus
subtilis} PDB: 3h7y_A* 3h9a_A*
Length = 243
Score = 24.8 bits (53), Expect = 3.0
Identities = 10/45 (22%), Positives = 16/45 (35%)
Query: 27 IISGALEMTQKKVEEIMTKLDDCYMLDIETILNFTVISEIVRTGE 71
++SG L MT V MT L+ Y+ ++
Sbjct: 60 VVSGELMMTVGDVTRKMTALESAYIAPPHVPHGARNDTDQEVIAI 104
>3cf4_A Acetyl-COA decarboxylase/synthase alpha subunit; methanomicrobia,
iron-nikel-sulfur, 4Fe-NI-4S, oxidoreductas; 2.00A
{Methanosarcina barkeri}
Length = 807
Score = 24.8 bits (53), Expect = 3.2
Identities = 1/24 (4%), Positives = 5/24 (20%)
Query: 5 FKTGIPMEATSNLVALKKDEVNII 28
+ + K + +
Sbjct: 223 KADPEAPLVEIGMGTIDKSKPFLC 246
>3gp4_A Transcriptional regulator, MERR family; structural genomics,
DNA-BI transcription regulator, PSI-2; 1.85A {Listeria
monocytogenes str}
Length = 142
Score = 24.2 bits (53), Expect = 4.3
Identities = 9/43 (20%), Positives = 24/43 (55%)
Query: 6 KTGIPMEATSNLVALKKDEVNIISGALEMTQKKVEEIMTKLDD 48
+ G+ +EA + +AL ++ + + E+ +K+ E+ ++D
Sbjct: 57 RAGLSIEALIDYLALFREGEHTLEARAELLKKQRIELKNRIDV 99
>1jqk_A CODH, carbon monoxide dehydrogenase; rossmann fold, oxidoreductase;
2.80A {Rhodospirillum rubrum} SCOP: e.26.1.2
Length = 639
Score = 23.4 bits (50), Expect = 8.0
Identities = 10/47 (21%), Positives = 22/47 (46%), Gaps = 5/47 (10%)
Query: 5 FKTGIPMEATSNLVALKKDEVNI-ISG----ALEMTQKKVEEIMTKL 46
F T P+ + +NL +K+ VNI ++G ++ ++ +
Sbjct: 238 FGTPQPVVSAANLGVMKRGAVNIAVNGHNPMLSDIICDVAADLRDEA 284
>1oao_A CODH, carbon monoxide dehydrogenase/acetyl-COA synthase beta;
oxidoreductase-transferase complex, electron transfer,
oxidoreductase; 1.90A {Moorella thermoacetica} SCOP:
e.26.1.2 PDB: 1mjg_A 2z8y_A 3i01_A 3i04_A
Length = 674
Score = 23.5 bits (50), Expect = 9.7
Identities = 10/45 (22%), Positives = 20/45 (44%), Gaps = 5/45 (11%)
Query: 7 TGIPMEATSNLVALKKDEVNI-ISG----ALEMTQKKVEEIMTKL 46
T P+ + +N+ L D+VN + G E+ + E+ +
Sbjct: 258 TPQPVVSEANMGVLDPDQVNFVLHGHNPLLSEIIVQAAREMEGEA 302
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
0.316 0.132 0.345
Gapped
Lambda K H
0.267 0.0777 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,024,487
Number of extensions: 49404
Number of successful extensions: 159
Number of sequences better than 10.0: 1
Number of HSP's gapped: 159
Number of HSP's successfully gapped: 24
Length of query: 71
Length of database: 6,701,793
Length adjustment: 41
Effective length of query: 30
Effective length of database: 5,557,032
Effective search space: 166710960
Effective search space used: 166710960
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 (23.3 bits)