RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2327
(97 letters)
>1ct5_A Protein (yeast hypothetical protein, selenoMet); TIM barrel,
pyridoxal-5'-phosphate, selenomethionine, structural
genomics, PSI; HET: PLP; 2.00A {Saccharomyces
cerevisiae} SCOP: c.1.6.2 PDB: 1b54_A*
Length = 256
Score = 90.3 bits (225), Expect = 5e-24
Identities = 24/60 (40%), Positives = 29/60 (48%)
Query: 5 IKGTLEKVEQACARRPQELQWSRPRLVAVSKTKPKELIIEAYNGGQRHFGENYVQELLEK 64
+ E V S+ L+ VSK KP I Y+ G R FGENYVQEL+EK
Sbjct: 18 YESVREVVNAEAKNVHVNENASKILLLVVSKLKPASDIQILYDHGVREFGENYVQELIEK 77
>3sy1_A UPF0001 protein YGGS; engineered protein, structural genomics,
PSI-biology, protei structure initiative; HET: MES;
1.47A {Escherichia coli} PDB: 1w8g_A*
Length = 245
Score = 83.3 bits (207), Expect = 2e-21
Identities = 27/62 (43%), Positives = 36/62 (58%), Gaps = 5/62 (8%)
Query: 3 AAIKGTLEKVEQACARRPQELQWSRPRLVAVSKTKPKELIIEAYNGGQRHFGENYVQELL 62
A ++ + C R P+E+ LVAVSKTKP I EA + GQR F E+YVQE +
Sbjct: 10 AQVRDKISAAATRCGRSPEEI-----TLVAVSKTKPASAIAEAIDAGQRQFSEHYVQEGV 64
Query: 63 EK 64
+K
Sbjct: 65 DK 66
>3cpg_A Uncharacterized protein; unknown protein, TIM barrel, monomer,
structural genomics, PSI-2, protein structure
initiative; 1.71A {Bifidobacterium adolescentis
ATCC15703}
Length = 282
Score = 80.4 bits (199), Expect = 4e-20
Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 5/62 (8%)
Query: 3 AAIKGTLEKVEQACARRPQELQWSRPRLVAVSKTKPKELIIEAYNGGQRHFGENYVQELL 62
+ + E+ R + RL+A +KT+ I+ A + G R GEN QE+
Sbjct: 30 HRVLDRIAAAEEQAGREAGSV-----RLLAATKTRDIGEIMAAIDAGVRMIGENRPQEVT 84
Query: 63 EK 64
K
Sbjct: 85 AK 86
>3r79_A Uncharacterized protein; PSI-biology, structural genomics, NEW
YORK structural genomi research consortium, TIM barrel;
HET: PLP; 1.90A {Agrobacterium tumefaciens}
Length = 244
Score = 78.7 bits (195), Expect = 1e-19
Identities = 22/62 (35%), Positives = 29/62 (46%), Gaps = 5/62 (8%)
Query: 3 AAIKGTLEKVEQACARRPQELQWSRPRLVAVSKTKPKELIIEAYNGGQRHFGENYVQELL 62
++ + V + R+ + LVAVSKT E I + GQR FGEN VQE
Sbjct: 11 EDVRQRIADVAEKSGRKAAD-----VALVAVSKTFDAEAIQPVIDAGQRVFGENRVQEAQ 65
Query: 63 EK 64
K
Sbjct: 66 GK 67
>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 = 40.8 bits (95), Expect = 2e-05
Identities = 16/85 (18%), Positives = 31/85 (36%), Gaps = 20/85 (23%)
Query: 13 EQACARRPQELQWSRPRLVAVSKTKPKELIIEAYNGGQ--RHFGENYVQELLEKGHDPEI 70
+A +S ++ + P L I + GG+ + ENY + E D
Sbjct: 1647 NRADNHFKDTYGFS---ILDIVINNPVNLTI--HFGGEKGKRIRENYSAMIFETIVD--- 1698
Query: 71 SIQLKSRGKTAVKEV---VDERAPS 92
GK +++ ++E + S
Sbjct: 1699 -------GKLKTEKIFKEINEHSTS 1716
Score = 33.9 bits (77), Expect = 0.005
Identities = 14/51 (27%), Positives = 23/51 (45%), Gaps = 8/51 (15%)
Query: 15 ACARRPQELQWSRPRLVAVSKTKPKELIIEAYNGGQRHFG--ENYVQELLE 63
A+RP + + S L +L+ A GGQ G ++Y +EL +
Sbjct: 131 IMAKRPFD-KKSNSALFRAVGEGNAQLV--AIFGGQ---GNTDDYFEELRD 175
>3a52_A Cold-active alkaline phosphatase; hydrolase; 2.20A {Shewanella}
Length = 400
Score = 30.8 bits (70), Expect = 0.046
Identities = 7/18 (38%), Positives = 11/18 (61%)
Query: 48 GGQRHFGENYVQELLEKG 65
GG+++F E V + KG
Sbjct: 143 GGRKYFSEALVSQFSAKG 160
>4e6r_A Cytoplasmic protein NCK2; SH3 domain, protein binding, structural
genomics, joint CENT structural genomics, JCSG, protein
structure initiative; HET: MLY; 2.20A {Homo sapiens}
PDB: 2frw_A 2js0_A
Length = 58
Score = 26.7 bits (59), Expect = 0.47
Identities = 14/47 (29%), Positives = 18/47 (38%)
Query: 17 ARRPQELQWSRPRLVAVSKTKPKELIIEAYNGGQRHFGENYVQELLE 63
A R EL V V + +YNG F NYV E ++
Sbjct: 12 AEREDELSLVXGSRVTVMEXCSDGWWRGSYNGQIGWFPSNYVLEEVD 58
>2zic_A Dextran glucosidase; TIM barrel, (beta/alpha)8-barrel, hydrolase;
2.20A {Streptococcus mutans} PDB: 2zid_A*
Length = 543
Score = 26.3 bits (59), Expect = 1.6
Identities = 8/25 (32%), Positives = 11/25 (44%), Gaps = 3/25 (12%)
Query: 56 NYVQELLEKGHDPEI---SIQLKSR 77
NY +E G E SI++ R
Sbjct: 374 NYAKEAFTNGKSMETIMDSIRMIGR 398
>2ze0_A Alpha-glucosidase; TIM barrel, glucoside hydrolase, extremophIle,
hydrolase; 2.00A {Geobacillus SP}
Length = 555
Score = 26.0 bits (58), Expect = 1.9
Identities = 5/25 (20%), Positives = 6/25 (24%), Gaps = 3/25 (12%)
Query: 56 NYVQELLEKGHDPEI---SIQLKSR 77
+ KG E I R
Sbjct: 387 RLYELERAKGRTHEEAMTIIWKTGR 411
>3kop_A Uncharacterized protein; protein with A cyclophilin-like fold,
structural genomics, J center for structural genomics,
JCSG; 1.90A {Arthrobacter SP}
Length = 188
Score = 25.9 bits (56), Expect = 2.0
Identities = 11/33 (33%), Positives = 18/33 (54%)
Query: 59 QELLEKGHDPEISIQLKSRGKTAVKEVVDERAP 91
+ L +G I+I L+ RG T ++D+ AP
Sbjct: 13 ENLYFQGMARYINITLEKRGVTCKALLLDDVAP 45
>3fbq_A Conserved domain protein; structural GEN PSI2, MCSG, protein
structure initiative, midwest center FO structural
genomics, unknown function; 2.71A {Bacillus anthracis}
Length = 292
Score = 25.9 bits (56), Expect = 2.6
Identities = 9/49 (18%), Positives = 17/49 (34%)
Query: 35 KTKPKELIIEAYNGGQRHFGENYVQELLEKGHDPEISIQLKSRGKTAVK 83
+LI+ + H EN+ G + +I + K K +
Sbjct: 234 NENATKLIVTPRVHLRVHTPENHGGVEYVNGKEKKIEVPNKEAKKKDIV 282
>3eq2_A Probable two-component response regulator; adaptor sigmas,
signaling protein; 3.40A {Pseudomonas aeruginosa} PDB:
3f7a_A
Length = 394
Score = 24.5 bits (53), Expect = 6.6
Identities = 4/27 (14%), Positives = 8/27 (29%)
Query: 42 IIEAYNGGQRHFGENYVQELLEKGHDP 68
I++ G E + E +
Sbjct: 338 ILDVLPGATLKEKEASLPEQVAAAGGT 364
>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 = 24.8 bits (53), Expect = 6.7
Identities = 15/78 (19%), Positives = 33/78 (42%), Gaps = 15/78 (19%)
Query: 28 PRLVAVSKTKPKELIIE--AYNGGQRHF------GENYVQELLEKGHDPEI-----SIQL 74
P+ + +SK + +I+ A +G R F E VQ+ +E+ I+
Sbjct: 42 PKSI-LSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKT 100
Query: 75 KSRGKTAVKEV-VDERAP 91
+ R + + + +++R
Sbjct: 101 EQRQPSMMTRMYIEQRDR 118
>3fef_A Putative glucosidase LPLD; gulosidase, structural genomics, unknown
function, glycosidase, hydrolase, manganese,
metal-binding, NAD, PSI- 2; 2.20A {Bacillus subtilis}
Length = 450
Score = 24.7 bits (53), Expect = 7.2
Identities = 7/47 (14%), Positives = 17/47 (36%), Gaps = 12/47 (25%)
Query: 2 EAAIKGTLEKVEQACARRPQELQWSRPRLVAVSKTKPKEL---IIEA 45
+A + QA P LV + ++ ++L +++
Sbjct: 401 DAGLTKDTGLAFQAFLNDP---------LVQIDRSDAEQLFNDMLQC 438
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
0.312 0.130 0.372
Gapped
Lambda K H
0.267 0.0632 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,485,013
Number of extensions: 79280
Number of successful extensions: 183
Number of sequences better than 10.0: 1
Number of HSP's gapped: 182
Number of HSP's successfully gapped: 18
Length of query: 97
Length of database: 6,701,793
Length adjustment: 63
Effective length of query: 34
Effective length of database: 4,942,770
Effective search space: 168054180
Effective search space used: 168054180
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 (21.9 bits)
S2: 51 (23.6 bits)