RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8045
(115 letters)
>3ppm_A Fatty-acid amide hydrolase 1; protein-inhibitor complex, FAAH,
oxazole, oxadiazole, endoca degradation, membrane
protein; HET: JG1 1DO; 1.78A {Rattus norvegicus} PDB:
2wj2_A* 3k7f_A* 3k83_A* 3k84_A* 3lj6_A* 3lj7_A 3oj8_A*
2wj1_A* 3pr0_A* 2wap_A* 1mt5_A* 2vya_A* 3qk5_A* 3qj8_A*
3qj9_A* 3qkv_A*
Length = 573
Score = 28.6 bits (64), Expect = 0.43
Identities = 10/100 (10%), Positives = 29/100 (29%), Gaps = 14/100 (14%)
Query: 19 DKHKDENDLVKIRALLAEGEKELF-----DTTHPSPIKFPTSPGGVAYER-------EPV 66
+ +++ L ++G + D P ++ + +P+
Sbjct: 360 NNIPYALEVLSTGGLFSDGGRSFLQNFKGDFVDPCLGDLILILRLPSWFKRLLSLLLKPL 419
Query: 67 IPDWV--LDYWHPLERAQYPEYFKRREERKKEFLVWWEKQ 104
P L+ P + + E ++ + W+
Sbjct: 420 FPRLAAFLNNMRPRSAEKLWKLQHEIEMYRQSVIAQWKAM 459
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 26.8 bits (59), Expect = 1.8
Identities = 7/26 (26%), Positives = 11/26 (42%), Gaps = 6/26 (23%)
Query: 76 HP------LERAQYPEYFKRREERKK 95
HP + +Y EY + R+K
Sbjct: 1458 HPDYLYGAITEDRYNEYVAKVSAREK 1483
>3s30_A Hypothetical glycoside hydrolase; galactose-binding domain-like,
structural genomics, joint CE structural genomics, JCSG;
2.46A {Bacteroides vulgatus}
Length = 354
Score = 26.4 bits (57), Expect = 2.2
Identities = 8/43 (18%), Positives = 13/43 (30%)
Query: 19 DKHKDENDLVKIRALLAEGEKELFDTTHPSPIKFPTSPGGVAY 61
+ + D+ I AL E K++ VA
Sbjct: 237 GESTNRKDVFNIYALFYEKTKDVQMLDGHIAKNNYEHENMVAA 279
>3pjx_A Cyclic dimeric GMP binding protein; ggdef-EAL tandem domain,
C-DI-GMP receptor, lyase; 2.00A {Pseudomonas
fluorescens} PDB: 3pjw_A 3pju_A* 3pjt_A* 3pfm_A
Length = 430
Score = 26.3 bits (59), Expect = 2.5
Identities = 7/41 (17%), Positives = 11/41 (26%), Gaps = 6/41 (14%)
Query: 2 YRFYSIEIQAVLLRARFDKHKDENDLVKIRALLAEGEKELF 42
+ + A + H L L + ELF
Sbjct: 177 WACLDQSLVADVGDDH---HAWHRLL---DQALNQRRFELF 211
>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine
rich repeat domain, type three effector, salmonella
virulence factor; 1.90A {Salmonella typhimurium}
Length = 622
Score = 26.4 bits (58), Expect = 2.9
Identities = 6/34 (17%), Positives = 12/34 (35%), Gaps = 2/34 (5%)
Query: 67 IPDWVL--DYWHPLERAQYPEYFKRREERKKEFL 98
+W+L H + + PE E++
Sbjct: 532 FREWILQWGPLHRVLERKAPERVNALREKQISDY 565
>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold,
ligase; 2.80A {Shigella flexneri 2A}
Length = 571
Score = 25.7 bits (56), Expect = 4.8
Identities = 11/42 (26%), Positives = 16/42 (38%), Gaps = 2/42 (4%)
Query: 59 VAYEREPVIPDWVL--DYWHPLERAQYPEYFKRREERKKEFL 98
V E DW WH + + + + EE+K E L
Sbjct: 468 VRSREENEFTDWFSLWGPWHAVLKRTEADRWALAEEQKYEML 509
>1vpm_A Acyl-COA hydrolase; NP_241664.1, structural genomics, joint for
structural genomics, JCSG, protein structure initiative
hydrolase; HET: COA; 1.66A {Bacillus halodurans} SCOP:
d.38.1.1 PDB: 3sps_A
Length = 169
Score = 25.3 bits (56), Expect = 4.9
Identities = 9/36 (25%), Positives = 13/36 (36%), Gaps = 3/36 (8%)
Query: 62 EREPV-IPDWVLDYWHPLERAQYPEYFKRREERKKE 96
+P +P E+ Y R+E RKK
Sbjct: 132 SGKPKPVPQVEPQ--TEEEKRLYETAPARKENRKKR 165
>1y7u_A Acyl-COA hydrolase; structural genomics, coenzyme A, protein
structure initiative, PSI, midwest center for structural
GE MCSG; HET: COA; 2.80A {Bacillus cereus} SCOP:
d.38.1.1
Length = 174
Score = 24.9 bits (55), Expect = 5.7
Identities = 9/36 (25%), Positives = 14/36 (38%), Gaps = 3/36 (8%)
Query: 62 EREPV-IPDWVLDYWHPLERAQYPEYFKRREERKKE 96
E PV +P + D E+ + R E+R
Sbjct: 128 ENNPVPVPRVIPD--TEEEKESHRIAVLRAEQRHIR 161
>3ro5_A Nucleocapsid protein; influenza nucleoprotein, viral protein; HET:
LGH; 2.66A {Influenza a virus} PDB: 2wfs_A 2iqh_A*
2q06_A
Length = 499
Score = 25.2 bits (54), Expect = 7.5
Identities = 26/115 (22%), Positives = 42/115 (36%), Gaps = 19/115 (16%)
Query: 3 RFYSIEIQAVLLRARFDKHKDENDLVKIRALLA--EGEKELFDTTHPSPIKFPTSPGGVA 60
RFY I++ L + ++ +N L R +L+ + + + HPS K P GG
Sbjct: 31 RFY-IQMCTELKLSDYEGRLIQNSLTIERMVLSAFDERRNKYLEEHPSAGKDPKKTGGPI 89
Query: 61 YEREPVIPDWVLDYWHPLERAQYPEYFKRREERKKEFLVWWEKQYGKPSSEGHGH 115
Y R V W E +R +W + G ++ G H
Sbjct: 90 YRR-------VDGKWRRELILYDKEEIRR---------IWRQANNGDDATAGLTH 128
>2fq3_A Transcription regulatory protein SWI3; four-helix bundle; 1.40A
{Saccharomyces cerevisiae} SCOP: a.4.1.18
Length = 104
Score = 24.4 bits (53), Expect = 7.8
Identities = 7/19 (36%), Positives = 9/19 (47%)
Query: 76 HPLERAQYPEYFKRREERK 94
H +E PE+F R K
Sbjct: 26 HSIEVQSLPEFFTNRIPSK 44
>2e6k_A Transketolase; structural genomics, NPPSFA, national project
protein structural and functional analyses; 2.09A
{Thermus thermophilus}
Length = 651
Score = 24.7 bits (55), Expect = 8.2
Identities = 21/128 (16%), Positives = 33/128 (25%), Gaps = 52/128 (40%)
Query: 22 KDENDLVKIRALLAEGEKELFDTTHPSPIKFPT----------------SPGG---VAYE 62
+D NDL +R + + P+ I + P G V
Sbjct: 220 EDVNDLEALRKAIKLAKL----DERPTLIAVRSHIGFGSPKQDSAKAHGEPLGPEAVEAT 275
Query: 63 REP--------VIPDWVLDYWHPLER----------------AQYPEY---FKRREERKK 95
R V+P+ V + E+ YP+ RR
Sbjct: 276 RRNLGWPYPPFVVPEEVYRHMDMREKGRAWQEAWEKALEAYARAYPDLHQELMRRLRG-- 333
Query: 96 EFLVWWEK 103
E E+
Sbjct: 334 ELPPLPEE 341
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 0.139 0.447
Gapped
Lambda K H
0.267 0.0470 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,979,601
Number of extensions: 111924
Number of successful extensions: 265
Number of sequences better than 10.0: 1
Number of HSP's gapped: 262
Number of HSP's successfully gapped: 45
Length of query: 115
Length of database: 6,701,793
Length adjustment: 78
Effective length of query: 37
Effective length of database: 4,523,955
Effective search space: 167386335
Effective search space used: 167386335
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 (21.7 bits)
S2: 51 (24.1 bits)