RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1929
(95 letters)
>3kv1_A Transcriptional repressor; alpha-beta structure, structural
genomics, PSI-2, protein ST initiative, midwest center
for structural genomics, MCSG; HET: MSE; 1.70A {Vibrio
fischeri}
Length = 267
Score = 32.1 bits (73), Expect = 0.013
Identities = 7/47 (14%), Positives = 19/47 (40%), Gaps = 3/47 (6%)
Query: 23 THQIAEAQLEKNARLRDAFGISEYFVEGSSLDPTRREKEALAQAAAK 69
H + QLE+ +L + F + + + + ++ +A +
Sbjct: 4 FHPVYSVQLEQ--KLVEKFNLKRALISLDQPNTNEQ-RKQVAALVSS 47
>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 = 31.9 bits (72), Expect = 0.018
Identities = 13/67 (19%), Positives = 26/67 (38%), Gaps = 10/67 (14%)
Query: 16 SYISVKETHQIAEAQLEKNAR---LRDAFGISEYF-VEGSSLDPTRREKE-ALAQAA--- 67
Y+ + H +A A+L + ++ I Y + P ++ AL +A
Sbjct: 94 CYLEGNDIHALA-AKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEG 152
Query: 68 -AKKYAL 73
A+ A+
Sbjct: 153 NAQLVAI 159
Score = 31.9 bits (72), Expect = 0.019
Identities = 21/119 (17%), Positives = 36/119 (30%), Gaps = 40/119 (33%)
Query: 2 VRFQRH----SSPLSRVGSYISVKE---THQIA-----EAQLEK-----NARLRDAFGIS 44
VR S P S + + E + ++ + Q++ N+ L +
Sbjct: 308 VRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVE 367
Query: 45 -------EYFV-EG--SSLDPTRREKEALAQAAAKKYALVRTPSPELGDRSKTKKRKRK 93
+ V G SL L K + PS D+S+ +RK
Sbjct: 368 ISLVNGAKNLVVSGPPQSL-------YGLNLTLRK----AKAPSGL--DQSRIPFSERK 413
>3nze_A Putative transcriptional regulator, sugar-binding; structural
genomics, PSI-2, protein structure initiative; 1.70A
{Arthrobacter aurescens}
Length = 267
Score = 30.6 bits (69), Expect = 0.045
Identities = 8/40 (20%), Positives = 18/40 (45%), Gaps = 2/40 (5%)
Query: 30 QLEKNARLRDAFGISEYFVEGSSLDPTRREKEALAQAAAK 69
+LE ++R+ +G+ + V + +A AA+
Sbjct: 11 ELES--QIRNQYGVDVHVVPVLDTLNEAETLDRVAMQAAR 48
>2okg_A Central glycolytic gene regulator; alpha/beta/alpha sandwich,
rossmann-like fold, structural genomics, PSI-2, protein
structure initiative; HET: MSE G3H; 1.65A {Bacillus
subtilis} SCOP: c.124.1.8 PDB: 3bxe_A* 3bxf_A* 3bxg_A*
3bxh_A*
Length = 255
Score = 29.4 bits (66), Expect = 0.14
Identities = 8/40 (20%), Positives = 17/40 (42%), Gaps = 2/40 (5%)
Query: 30 QLEKNARLRDAFGISEYFVEGSSLDPTRREKEALAQAAAK 69
LEK L++ + + + D + K+ + +AA
Sbjct: 11 LLEK--TLKERLNLKDAIIVSGDSDQSPWVKKEMGRAAVA 48
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.8 bits (63), Expect = 0.20
Identities = 10/22 (45%), Positives = 13/22 (59%), Gaps = 2/22 (9%)
Query: 59 EKEALA--QAAAKKYALVRTPS 78
EK+AL QA+ K YA P+
Sbjct: 18 EKQALKKLQASLKLYADDSAPA 39
>3efb_A Probable SOR-operon regulator; alpha-beta-alpha sandwich, center
for structural genomics of infectious diseases, csgid,
transcription; HET: MSE; 2.00A {Shigella flexneri 2A}
SCOP: c.124.1.8
Length = 266
Score = 28.3 bits (63), Expect = 0.29
Identities = 8/52 (15%), Positives = 20/52 (38%), Gaps = 3/52 (5%)
Query: 18 ISVKETHQIAEAQLEKNARLRDAFGISEYFVEGSSLDPTRREKEALAQAAAK 69
I++ LE+ +L+ FG+ + V + + + + A+
Sbjct: 4 IAIN-YDYNENLWLEQ--QLKQKFGLKDVVVVSGNDEDEETQLAMMGLHGAQ 52
>2w48_A Sorbitol operon regulator; SORC, activator, repressor, DNA-binding,
transcription, transcription regulator, transcription
regulation; 3.20A {Klebsiella pneumoniae}
Length = 315
Score = 27.8 bits (62), Expect = 0.49
Identities = 12/52 (23%), Positives = 20/52 (38%), Gaps = 3/52 (5%)
Query: 18 ISVKETHQIAEAQLEKNARLRDAFGISEYFVEGSSLDPTRREKEALAQAAAK 69
I++ LE+ +L+ FG+ E V S + A+ Q A
Sbjct: 53 IAIN-YDYNENLWLEQ--QLKQKFGLKEAVVASSDGLLEEEQLSAMGQHGAL 101
>3byp_A CZRB protein; membrane protein, zinc transporter, transport
protein; 1.70A {Thermus thermophilus} SCOP: d.52.9.1
PDB: 3byr_A
Length = 94
Score = 26.5 bits (59), Expect = 0.79
Identities = 11/48 (22%), Positives = 21/48 (43%), Gaps = 6/48 (12%)
Query: 14 VGSYISVKETHQIAEAQLEKNARLRDAFGISEYFVEGSSLDPTRREKE 61
V V+E H++ + +LE+ L AF + + ++P K
Sbjct: 50 VRGDTPVEEAHRLCD-ELER--ALAQAFPGLQATIH---VEPEGERKR 91
>2o0m_A Transcriptional regulator, SORC family; structural genomics,
protein structure initiative, midwest center for
structural genomics, MCSG; 1.60A {Enterococcus faecalis}
SCOP: c.124.1.8
Length = 345
Score = 26.4 bits (58), Expect = 1.7
Identities = 5/35 (14%), Positives = 8/35 (22%)
Query: 35 ARLRDAFGISEYFVEGSSLDPTRREKEALAQAAAK 69
+ FGI V D ++
Sbjct: 99 KEMTQYFGIQRCIVVAGDSDIQKKVLSDFGDVLTN 133
>2p3y_A Hypothetical protein VPA0735; structural genomics, PSI-2, protein
ST initiative, northeast structural genomics consortium,
NESG; 1.80A {Vibrio parahaemolyticus} SCOP: e.65.1.1
Length = 491
Score = 25.6 bits (55), Expect = 3.3
Identities = 7/30 (23%), Positives = 16/30 (53%)
Query: 47 FVEGSSLDPTRREKEALAQAAAKKYALVRT 76
+G +PT +K+ L +A+ A+ ++
Sbjct: 271 IEKGKPFNPTEEQKKILLEASKVGRAMAQS 300
>2l52_A Methanosarcina acetivorans SAMP1 homolog; beta-grAsp fold,
protein binding, E1-like, SAMP activator, ELSA,
adenylation, ubiquitin; NMR {Methanosarcina
acetivorans}
Length = 99
Score = 24.8 bits (54), Expect = 3.6
Identities = 9/35 (25%), Positives = 13/35 (37%), Gaps = 6/35 (17%)
Query: 35 ARLRDAFGISEYFVEGSSLDPTRREKEALAQAAAK 69
A LR+A G E + G + + L K
Sbjct: 12 ANLREAAGTPELPLSGEKV------IDVLLSLTDK 40
>1ml8_A Hypothetical protein (CRP region); structural genomics, PSI,
protein structure initiative, MIDW center for structural
genomics, MCSG; 2.60A {Escherichia coli} SCOP: d.227.1.2
Length = 134
Score = 24.5 bits (53), Expect = 5.0
Identities = 6/27 (22%), Positives = 10/27 (37%), Gaps = 2/27 (7%)
Query: 45 EYFVEGSSLDPTRREKEALAQAAAKKY 71
+ V G L + +A+KY
Sbjct: 88 HFIVTGRDLKDAAVAR--AVDLSAEKY 112
>3h90_A Ferrous-iron efflux pump FIEF; membrane protein, zinc transporter,
cell inner membrane, cell membrane, ION transport, iron
transport; 2.90A {Escherichia coli k-12} PDB: 2qfi_A
Length = 283
Score = 24.4 bits (54), Expect = 7.4
Identities = 6/35 (17%), Positives = 17/35 (48%), Gaps = 3/35 (8%)
Query: 14 VGSYISVKETHQIAEAQLEKNARLRDAFGISEYFV 48
+ + + + H +A+ Q+E+ + F S+ +
Sbjct: 244 MEDSLPLVQAHMVAD-QVEQ--AILRRFPGSDVII 275
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
0.313 0.127 0.339
Gapped
Lambda K H
0.267 0.0834 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,402,096
Number of extensions: 74643
Number of successful extensions: 134
Number of sequences better than 10.0: 1
Number of HSP's gapped: 134
Number of HSP's successfully gapped: 25
Length of query: 95
Length of database: 6,701,793
Length adjustment: 62
Effective length of query: 33
Effective length of database: 4,970,691
Effective search space: 164032803
Effective search space used: 164032803
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (23.2 bits)