RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2931
(95 letters)
>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 = 32.3 bits (73), Expect = 0.015
Identities = 16/77 (20%), Positives = 28/77 (36%), Gaps = 9/77 (11%)
Query: 14 GGQGRGE---KDLSAISKQYSS--RDL--PGHTKLKYREHGQGTNEELRSR--DFRKELE 64
GGQG + ++L + + Y DL L E++ ++ + + LE
Sbjct: 161 GGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLE 220
Query: 65 EREREKDKTARIRAPES 81
DK + P S
Sbjct: 221 NPSNTPDKDYLLSIPIS 237
>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 = 27.5 bits (60), Expect = 0.79
Identities = 6/49 (12%), Positives = 17/49 (34%), Gaps = 1/49 (2%)
Query: 23 LSAISKQYSSRDLPGHTKLKYREHGQGTNEELRSRDF-RKELEEREREK 70
+S I + + ++ R+ N+ + R + + R+
Sbjct: 95 MSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQA 143
>3l6d_A Putative oxidoreductase; structural genomics, protein structure
initiative, oxidoredu PSI-2; HET: MSE; 1.90A
{Pseudomonas putida}
Length = 306
Score = 25.7 bits (57), Expect = 2.3
Identities = 9/40 (22%), Positives = 18/40 (45%), Gaps = 1/40 (2%)
Query: 1 MTTAARPTFEPARGGQGRGEKDLSAISKQYSSRDLPGHTK 40
+ A + A G G++D++A +K ++ GH
Sbjct: 265 VFDAVCQVVQRAAA-MGYGDQDIAATTKSFAREQEEGHHH 303
>1aop_A Sirhp, sulfite reductase hemoprotein; oxidoreductase, siroheme,
[4Fe-4S], snirr, six-electron REDU phosphate complex;
HET: SRM; 1.60A {Escherichia coli} SCOP: d.58.36.1
d.58.36.1 d.134.1.1 d.134.1.1 PDB: 2aop_A* 2gep_A*
3aop_A* 3geo_A* 4aop_A* 4gep_A* 5aop_A* 5gep_A* 6gep_A*
7gep_A* 8gep_A*
Length = 497
Score = 25.7 bits (57), Expect = 2.5
Identities = 13/66 (19%), Positives = 20/66 (30%), Gaps = 10/66 (15%)
Query: 30 YSSRDLPGHTKLKYREHGQGTNEELRSRDFRKELEEREREKDKTARIRAPESHANR---- 85
+ +R + K KY G F+ E+E R K + R +R
Sbjct: 223 WGNRTDRKNAKTKYTLERVGVET------FKAEVERRAGIKFEPIRPYEFTGRGDRIGWV 276
Query: 86 KQKKGK 91
K
Sbjct: 277 KGIDDN 282
>3pn3_A Peptide deformylase 1B, chloroplastic; PDF, N-terminal excision
pathway, N induced-FIT, hydrolase-hydrolase inhibitor
complex; HET: PN3; 1.30A {Arabidopsis thaliana} PDB:
3m6p_A* 3o3j_A* 3pn2_A 3m6o_A* 3pn4_A* 3pn5_A 3m6q_A
3pn6_A 3m6r_A 3cpm_A
Length = 193
Score = 25.6 bits (57), Expect = 2.6
Identities = 9/30 (30%), Positives = 19/30 (63%)
Query: 60 RKELEEREREKDKTARIRAPESHANRKQKK 89
R+ELE E++ ++ + +PE R+++K
Sbjct: 156 REELEALEKKYEEKTGLPSPERVEARQKRK 185
>2gf2_A Hibadh, 3-hydroxyisobutyrate dehydrogenase; structural genomics,
structural genomics consortium, SGC, oxidoreductase;
2.38A {Homo sapiens} PDB: 2i9p_A*
Length = 296
Score = 24.9 bits (55), Expect = 4.7
Identities = 5/34 (14%), Positives = 14/34 (41%), Gaps = 1/34 (2%)
Query: 1 MTTAARPTFEPARGGQGRGEKDLSAISKQYSSRD 34
+ + A + +G +KD S++ + +
Sbjct: 263 LGSLAHQIYRMMCA-KGYSKKDFSSVFQFLREEE 295
>3cky_A 2-hydroxymethyl glutarate dehydrogenase; rossmann fold, two domain
enzyme, oxidoreductase; 2.30A {Eubacterium barkeri}
Length = 301
Score = 24.8 bits (55), Expect = 4.9
Identities = 13/39 (33%), Positives = 19/39 (48%), Gaps = 3/39 (7%)
Query: 1 MTTAARPTFEPARGGQGRGEKDLSAISKQYSSRDLPGHT 39
MT A FE R G G +D+SA+ K + + G +
Sbjct: 261 MTAMATQIFEGGRA-MGLGREDMSAVIKVW--EQMTGVS 296
>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein,
mostly mixed alpha-beta structures, one domain is
entirely helical; HET: DNA; 2.20A {Thermus aquaticus}
SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A*
1fw6_A* 1ewr_A*
Length = 765
Score = 24.7 bits (55), Expect = 6.4
Identities = 10/23 (43%), Positives = 12/23 (52%), Gaps = 5/23 (21%)
Query: 53 ELR-----SRDFRKELEEREREK 70
LR + ELEERERE+
Sbjct: 410 ALRAAHREGVAYFLELEERERER 432
>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA
binding, DNA repair, mismatch recognition; HET: DNA ADP;
2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12
c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A*
1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*
Length = 800
Score = 24.4 bits (54), Expect = 6.9
Identities = 9/23 (39%), Positives = 13/23 (56%), Gaps = 5/23 (21%)
Query: 53 ELR-----SRDFRKELEEREREK 70
E R + D+ + LE RERE+
Sbjct: 435 EWRALADGATDYLERLEVRERER 457
>2wue_A 2-hydroxy-6-OXO-6-phenylhexa-2,4-dienoate hydrolase BPHD; HET:
KEK; 1.80A {Mycobacterium tuberculosis} PDB: 2wud_A*
2wuf_A* 2wug_A* 2vf2_A
Length = 291
Score = 24.2 bits (53), Expect = 9.0
Identities = 13/52 (25%), Positives = 20/52 (38%), Gaps = 15/52 (28%)
Query: 1 MTTAARPTFEPARGGQGRGEKDLSAISKQYSSRDLPGHTKLKYREHGQGTNE 52
MT TFE + +++ D+ G KL Y E G G ++
Sbjct: 1 MTATEELTFES---------------TSRFAEVDVDGPLKLHYHEAGVGNDQ 37
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
0.308 0.127 0.350
Gapped
Lambda K H
0.267 0.0658 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,364,415
Number of extensions: 69571
Number of successful extensions: 147
Number of sequences better than 10.0: 1
Number of HSP's gapped: 141
Number of HSP's successfully gapped: 30
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 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 51 (23.6 bits)