RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9383
(133 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 = 36.2 bits (83), Expect = 0.002
Identities = 26/145 (17%), Positives = 42/145 (28%), Gaps = 57/145 (39%)
Query: 8 SEF--FVSFSISPLGMRHFSELLDQ-LQFFE--FIGRRD-------------KFQDQSSF 49
+F +VS + P + F ++L+ L FE ++ D ++
Sbjct: 62 GKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKE 121
Query: 50 VIKQY-DNVEGADQPDLILEMLARLSQSILRENDLENSKRGLDLGLSRGFSGSQAAKHLM 108
+IK Y A +P + S S L G
Sbjct: 122 LIKNYITARIMAKRP------FDKKSNSAL----FRAVGEG------------------- 152
Query: 109 GLAAANYA--GGPGRRRRSDSDQYL 131
A A GG G ++D Y
Sbjct: 153 --NAQLVAIFGGQG-----NTDDYF 170
Score = 35.4 bits (81), Expect = 0.003
Identities = 31/137 (22%), Positives = 46/137 (33%), Gaps = 27/137 (19%)
Query: 10 FFVSF-SIS-PLGMRHFSELLD--QLQFFEFIGRRDKFQDQSSFVIKQYDNVEGADQPDL 65
F F ++ P H S LL + + + + + I YD +G+D L
Sbjct: 416 FSNRFLPVASPF---H-SHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVL 471
Query: 66 ILEMLARLSQSILREN-DLENSKRG-----LDLGLSRGFSGSQAAKHLMGLAAANYAG-G 118
+ R+ I+R E + + LD G G SG L L N G G
Sbjct: 472 SGSISERIVDCIIRLPVKWETTTQFKATHILDFGPG-GASG------LGVLTHRNKDGTG 524
Query: 119 -----PGRRRRSDSDQY 130
G + D Y
Sbjct: 525 VRVIVAGTLDINPDDDY 541
>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 = 32.5 bits (73), Expect = 0.037
Identities = 16/67 (23%), Positives = 27/67 (40%), Gaps = 16/67 (23%)
Query: 39 RRDKFQDQSSFVIKQYDNVEGADQPDLILEMLARLSQSI---------------LRENDL 83
K Q + F I + N++ + P+ +LEML +L I LR + +
Sbjct: 172 LSYKVQCKMDFKI-FWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSI 230
Query: 84 ENSKRGL 90
+ R L
Sbjct: 231 QAELRRL 237
>3k5w_A Carbohydrate kinase; 11206B,helicobacter pylori,PSI-II, NYSGXRC, ,
structural genomics, protein structure initiative; 2.60A
{Helicobacter pylori}
Length = 475
Score = 27.1 bits (61), Expect = 2.0
Identities = 6/30 (20%), Positives = 11/30 (36%), Gaps = 3/30 (10%)
Query: 94 LSRGFSGSQAAK---HLMGLAAANYAGGPG 120
LS+ ++ AA LA+ +
Sbjct: 425 LSQNYTPLDAAINASLAHALASLEFKNNYA 454
>1vpb_A Putative modulator of DNA gyrase; structural genomics, joint for
structural genomics, JCSG, protein structure initiative
hydrolase; 1.75A {Bacteroides thetaiotaomicron} SCOP:
d.283.1.1
Length = 451
Score = 26.8 bits (60), Expect = 2.1
Identities = 8/44 (18%), Positives = 19/44 (43%), Gaps = 4/44 (9%)
Query: 59 GADQPDLILEMLARLSQSI-LRENDLENSKRGLDLGLS-RGFSG 100
G ++L + + S LR+ ++ ++ + GLS +
Sbjct: 33 GCQAAKVLLY--SSSNTSFELRDAKMDRLQQASEGGLSLSLYVD 74
>3qtd_A PMBA protein; putative modulator of gyrase (PMBA), structural
genomics, PS biology, midwest center for structural
genomics, MCSG; 2.70A {Pseudomonas aeruginosa}
Length = 449
Score = 26.8 bits (60), Expect = 2.4
Identities = 8/44 (18%), Positives = 18/44 (40%), Gaps = 4/44 (9%)
Query: 59 GADQPDLILEMLARLSQSI-LRENDLENSKRGLDLGLS-RGFSG 100
GA ++ + S +R+ ++E + D G ++G
Sbjct: 31 GASACEVAVS--LEQGLSTSVRQGEVETVEFNRDQGFGITLYAG 72
>3b0p_A TRNA-dihydrouridine synthase; TIM barrel, oxidoreductase; HET: FMN;
1.70A {Thermus thermophilus} PDB: 3b0u_X* 3b0v_C*
Length = 350
Score = 26.4 bits (59), Expect = 3.3
Identities = 9/40 (22%), Positives = 16/40 (40%), Gaps = 9/40 (22%)
Query: 94 LSRGFSGSQAAKHLMGLAAANYAGGPGRRR-RSDSDQYLS 132
+ +G +H++ L + G P R R + LS
Sbjct: 266 VLKGTPPWAVLRHMLNL----FRGRPKGRLWR----RLLS 297
>3tv9_A Putative peptide maturation protein; structural genomics, center
for structural genomics of infec diseases, csgid,
alpha-beta, cytosol; 2.50A {Shigella flexneri}
Length = 457
Score = 26.1 bits (58), Expect = 4.7
Identities = 7/44 (15%), Positives = 16/44 (36%), Gaps = 4/44 (9%)
Query: 59 GADQPDLILEMLARLSQSI-LRENDLENSKRGLDLGLS-RGFSG 100
+D ++ + S+ R ++EN + D L +
Sbjct: 42 KSDGAEVAVS--KTTGISVSTRYGEVENVEFNSDGALGITVYHQ 83
>3n12_A Chitinase A, chinctu2; zinc atoms, complex, hydrolase; 1.20A
{Bacillus cereus} PDB: 3n11_A 3n15_A* 3n13_A* 3n17_A*
3n18_A* 3n1a_A*
Length = 333
Score = 25.3 bits (55), Expect = 8.5
Identities = 7/26 (26%), Positives = 13/26 (50%)
Query: 95 SRGFSGSQAAKHLMGLAAANYAGGPG 120
+ F ++ + ++GL AA A G
Sbjct: 239 NNIFPALRSDQVMIGLPAAPAAAPSG 264
>3fxb_A Trap dicarboxylate transporter, DCTP subunit; periplasmic substrate
binding protein, selectivity helix, TR membrane; HET:
4CS; 2.90A {Silicibacter pomeroyi dss-3}
Length = 326
Score = 25.0 bits (55), Expect = 9.8
Identities = 7/37 (18%), Positives = 19/37 (51%)
Query: 40 RDKFQDQSSFVIKQYDNVEGADQPDLILEMLARLSQS 76
R F++ ++ V ++ + G ++ +M A L+ +
Sbjct: 288 RSCFKEAAAEVEAKFIEMTGDSGAAILKQMKADLAAT 324
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
0.320 0.136 0.377
Gapped
Lambda K H
0.267 0.0735 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,949,799
Number of extensions: 104821
Number of successful extensions: 234
Number of sequences better than 10.0: 1
Number of HSP's gapped: 232
Number of HSP's successfully gapped: 20
Length of query: 133
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 50
Effective length of database: 4,384,350
Effective search space: 219217500
Effective search space used: 219217500
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: 52 (23.8 bits)