RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11405
(76 letters)
>2kr0_A Proteasomal ubiquitin receptor ADRM1; proteasome, 19S regulator,
protein binding; NMR {Homo sapiens}
Length = 411
Score = 97.5 bits (241), Expect = 4e-26
Identities = 44/71 (61%), Positives = 55/71 (77%), Gaps = 3/71 (4%)
Query: 1 MPSGGALFGSTVSRSQ---SKNLVEFKAGKMTMKGKMVHPDKRKGLVYVHQSDDSLMHFC 57
M + GALF S V S+ +K LVEF+AGKM++KG V PDKRKGLVY+ Q+DDSL+HFC
Sbjct: 5 MTTSGALFPSLVPGSRGASNKYLVEFRAGKMSLKGTTVTPDKRKGLVYIQQTDDSLIHFC 64
Query: 58 WKDRQSGSVVE 68
WKDR SG+V +
Sbjct: 65 WKDRTSGNVED 75
>2r2y_A Protein ADRM1; proteasome, ubiquitin, PH-domain, 19S regulator,
receptor, U proteasome-degradation pathway; 1.70A {Mus
musculus} PDB: 2z59_A
Length = 153
Score = 88.6 bits (219), Expect = 1e-24
Identities = 43/69 (62%), Positives = 54/69 (78%), Gaps = 3/69 (4%)
Query: 3 SGGALFGSTVSRSQ---SKNLVEFKAGKMTMKGKMVHPDKRKGLVYVHQSDDSLMHFCWK 59
+ GALF S V S+ +K LVEF+AGKM++KG V PDKRKGLVY+ Q+DDSL+HFCWK
Sbjct: 6 TSGALFPSLVPGSRGSSTKYLVEFRAGKMSLKGTTVTPDKRKGLVYIQQTDDSLIHFCWK 65
Query: 60 DRQSGSVVE 68
DR SG+V +
Sbjct: 66 DRTSGTVED 74
>2z4d_A 26S proteasome regulatory subunit RPN13; PH domain, nuclear
protein; NMR {Saccharomyces cerevisiae}
Length = 96
Score = 73.8 bits (181), Expect = 2e-19
Identities = 8/57 (14%), Positives = 23/57 (40%), Gaps = 5/57 (8%)
Query: 19 NLVEFKAGKMTMK--GKMVHPDKRKGLVYVHQSDD---SLMHFCWKDRQSGSVVEVV 70
+++F+AG ++ P +G + + +++ F W+ + E+
Sbjct: 1 TVIKFRAGVCEYNEDSRLCTPIPVQGEIEIKPNEEEELGFWDFEWRPTEKPVGRELD 57
>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 = 0.010
Identities = 15/76 (19%), Positives = 30/76 (39%), Gaps = 14/76 (18%)
Query: 4 GGAL-FGSTVS----RSQS-KNLVEFKAGKMTMKGKM--VHPDKRKGLVYVHQSDDSLMH 55
+ S V R + + V + G M ++P G V S ++L +
Sbjct: 1774 ADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYG-MIAINP----GRVAASFSQEALQY 1828
Query: 56 FCWK-DRQSGSVVEVV 70
+ +++G +VE+V
Sbjct: 1829 VVERVGKRTGWLVEIV 1844
>3ksr_A Putative serine hydrolase; catalytic triad, structural genomics,
JOIN for structural genomics, JCSG; 2.69A {Xanthomonas
campestris PV}
Length = 290
Score = 27.9 bits (62), Expect = 0.22
Identities = 7/27 (25%), Positives = 15/27 (55%)
Query: 21 VEFKAGKMTMKGKMVHPDKRKGLVYVH 47
+E G+ + G ++ P G+++VH
Sbjct: 9 IEIPVGQDELSGTLLTPTGMPGVLFVH 35
>2kwr_A NMB1343, putative uncharacterized protein; ADP
ribosyltransferase, transferase; NMR {Neisseria
meningitidis serogroup B} PDB: 2kxi_A
Length = 153
Score = 26.7 bits (58), Expect = 0.58
Identities = 12/34 (35%), Positives = 14/34 (41%)
Query: 25 AGKMTMKGKMVHPDKRKGLVYVHQSDDSLMHFCW 58
GK GK H K VY HQ + L C+
Sbjct: 35 DGKFKYDGKATHGPSVKNAVYAHQIETGLYDGCY 68
>2o2g_A Dienelactone hydrolase; YP_324580.1, structural genomics, JO
center for structural genomics, JCSG, protein structure
INI PSI-2; HET: MSE; 1.92A {Anabaena variabilis}
Length = 223
Score = 26.0 bits (57), Expect = 1.3
Identities = 9/28 (32%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 21 VEFKAGKMTMKGKMVHPDKRKGLV-YVH 47
V G++ +KG +V P+ G+V + H
Sbjct: 15 VSVSVGEVKLKGNLVIPNGATGIVLFAH 42
>1h3i_A Histone H3 lysine 4 specific methyltransferase; 2.1A {Homo
sapiens} SCOP: b.76.2.1 b.85.7.1 PDB: 1mt6_A* 1n6c_A*
1muf_A
Length = 293
Score = 25.5 bits (56), Expect = 1.9
Identities = 7/43 (16%), Positives = 16/43 (37%), Gaps = 6/43 (13%)
Query: 22 EFKAGKMTMKGKMVHPDKRKGLVYVHQSDDSLMH----FCWKD 60
+ G++ + D R ++ Q D++ H + D
Sbjct: 34 TYVDGELNGPAQEYDTDGRL--IFKGQYKDNIRHGVCWIYYPD 74
>1cdo_A Alcohol dehydrogenase; oxidoreductase, oxidoreductase
(CH-OH(D)-NAD(A)); HET: NAD; 2.05A {Gadus callarias}
SCOP: b.35.1.2 c.2.1.1
Length = 374
Score = 23.8 bits (52), Expect = 6.9
Identities = 6/33 (18%), Positives = 15/33 (45%), Gaps = 1/33 (3%)
Query: 5 GALFGSTVSRSQSKNLVE-FKAGKMTMKGKMVH 36
G++FG + +V+ + K+ + + H
Sbjct: 316 GSMFGGFKGKDGVPKMVKAYLDKKVKLDEFITH 348
>1e3i_A Alcohol dehydrogenase, class II; HET: NAD; 2.08A {Mus musculus}
SCOP: b.35.1.2 c.2.1.1 PDB: 1e3e_A* 1e3l_A* 3cos_A*
Length = 376
Score = 23.7 bits (52), Expect = 7.7
Identities = 10/33 (30%), Positives = 13/33 (39%), Gaps = 1/33 (3%)
Query: 5 GALFGSTVSRSQSKNLVE-FKAGKMTMKGKMVH 36
G FG S NLV +K K + + H
Sbjct: 318 GTFFGGWKSVDSVPNLVSDYKNKKFDLDLLVTH 350
>2jhf_A Alcohol dehydrogenase E chain; oxidoreductase, metal coordination,
NAD, zinc, inhibition, acetylation, metal-binding; HET:
NAD; 1.0A {Equus caballus} SCOP: b.35.1.2 c.2.1.1 PDB:
1adc_A* 1adf_A* 1adg_A* 1adb_A* 1bto_A* 1heu_A* 1hf3_A*
1hld_A* 1lde_A* 1ldy_A* 1mg0_A* 1n92_A* 1p1r_A* 1ye3_A
1het_A* 2jhg_A* 2ohx_A* 2oxi_A* 3bto_A* 4dwv_A* ...
Length = 374
Score = 23.3 bits (51), Expect = 9.0
Identities = 10/24 (41%), Positives = 12/24 (50%), Gaps = 1/24 (4%)
Query: 5 GALFGSTVSRSQSKNLVE-FKAGK 27
GA+FG S+ LV F A K
Sbjct: 316 GAIFGGFKSKDSVPKLVADFMAKK 339
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 0.130 0.423
Gapped
Lambda K H
0.267 0.0628 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,090,143
Number of extensions: 47893
Number of successful extensions: 85
Number of sequences better than 10.0: 1
Number of HSP's gapped: 82
Number of HSP's successfully gapped: 13
Length of query: 76
Length of database: 6,701,793
Length adjustment: 45
Effective length of query: 31
Effective length of database: 5,445,348
Effective search space: 168805788
Effective search space used: 168805788
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 (21.8 bits)
S2: 51 (23.6 bits)