RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6392
(198 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 = 47.0 bits (111), Expect = 2e-06
Identities = 26/106 (24%), Positives = 37/106 (34%), Gaps = 31/106 (29%)
Query: 5 LYLSQPLFTGADQRRQY----PPLSL----LQLQKF-----IDTNRIDPS--KPIDLAAL 49
+ +S L G + PP SL L L+K +D +RI S K
Sbjct: 366 VEIS--LVNG---AKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKL----KF 416
Query: 50 CNTGLYTFEPFHNHYGVNLTDEGADNFKAKINIEVQWTSE----PV 91
N L PFH+H L K + V + ++ PV
Sbjct: 417 SNRFLPVASPFHSHL---LVPASDLINKDLVKNNVSFNAKDIQIPV 459
Score = 26.9 bits (59), Expect = 5.5
Identities = 11/65 (16%), Positives = 24/65 (36%), Gaps = 22/65 (33%)
Query: 114 LYYSNPESRGYLADPEQISWQR--FALAQKYGYTLPEIEKDPDFEMLSMRKDPRQ--VFY 169
LY ++ ++ + W R YG+++ +I + +P + +
Sbjct: 1635 LYKTSKAAQ-------DV-WNRADNHFKDTYGFSILDI----------VINNPVNLTIHF 1676
Query: 170 GLEPG 174
G E G
Sbjct: 1677 GGEKG 1681
>3r8s_L 50S ribosomal protein L15; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
3fik_L 2wwq_L 3oat_L* 3oas_L* 3ofd_L 3ofc_L 3ofr_L*
3ofz_L* 3og0_L 3ofq_L 3r8t_L 3i1n_L 1p85_J 1p86_J 1vs8_L
1vs6_L 2aw4_L 2awb_L 1vt2_L 2i2v_L ...
Length = 143
Score = 32.4 bits (75), Expect = 0.037
Identities = 12/82 (14%), Positives = 20/82 (24%), Gaps = 13/82 (15%)
Query: 18 RRQYPPLSLLQLQKFIDTNRIDPSKPIDLAALCNTGLYTFEPFHNHYGVNLTDEGADNFK 77
+ L L K +DL L + + G
Sbjct: 70 AAITAEIRLSDLAKVEGGV-------VDLNTLKAANIIG----IQIEFAKVILAG--EVT 116
Query: 78 AKINIEVQWTSEPVIAAIERNG 99
+ + ++ AAIE G
Sbjct: 117 TPVTVRGLRVTKGARAAIEAAG 138
>3bbo_N Ribosomal protein L15; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 257
Score = 32.1 bits (73), Expect = 0.076
Identities = 10/82 (12%), Positives = 24/82 (29%), Gaps = 6/82 (7%)
Query: 18 RRQYPPLSLLQLQKFIDTNRIDPSKPIDLAALCNTGLYTFEPFHNHYGVNLTDEGADNFK 77
+Y ++L ++ + + L L + + + +G
Sbjct: 139 LPKYVNVNLTDIENA----GFQDGEEVSLETLKAKRVINPSGRERKLPLKILADG--ELS 192
Query: 78 AKINIEVQWTSEPVIAAIERNG 99
K+ I+ S +E G
Sbjct: 193 KKLTIKAGAFSTSAKEKLEYAG 214
>2kjr_A CG11242; UBL, ubiquitin, ubiquitin-like, structural genomics,
PSI-2, protein structure initiative; NMR {Drosophila
melanogaster}
Length = 95
Score = 29.1 bits (65), Expect = 0.28
Identities = 7/32 (21%), Positives = 15/32 (46%), Gaps = 1/32 (3%)
Query: 151 KDPDFEMLSMRKDPRQV-FYGLEPGWVVNVID 181
D + +M + Q+ +Y G ++V+D
Sbjct: 63 FKGDTCVSTMDNNDAQLGYYANSDGLRLHVVD 94
>2llv_A Heat shock protein STI1; DP domain, alpha helix, chaperone; NMR
{Saccharomyces cerevisiae}
Length = 71
Score = 28.6 bits (64), Expect = 0.29
Identities = 11/60 (18%), Positives = 19/60 (31%), Gaps = 12/60 (20%)
Query: 106 FQPPQDAILYYSNPESRGYLADPEQISWQRFALAQKYGYTLPEIEKDPDFEMLSMRKDPR 165
F P NP++ + DP+ L +++P + DPR
Sbjct: 10 FADPNLIENLKKNPKTSEMMKDPQ------------LVAKLIGYKQNPQAIGQDLFTDPR 57
>2zjr_I 50S ribosomal protein L15; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: c.12.1.1 PDB: 1nwx_J* 1nwy_J* 1sm1_J*
1xbp_J* 2zjp_I* 2zjq_I 1nkw_J 3cf5_I* 3dll_I* 3pio_I*
3pip_I* 1pnu_J 1pny_J 1vor_M 1vou_M 1vow_M 1voy_M 1vp0_M
Length = 156
Score = 29.4 bits (67), Expect = 0.40
Identities = 19/82 (23%), Positives = 24/82 (29%), Gaps = 13/82 (15%)
Query: 18 RRQYPPLSLLQLQKFIDTNRIDPSKPIDLAALCNTGLYTFEPFHNHYGVNLTDEGADNFK 77
Y + L QLQ DT D L L + V L G
Sbjct: 69 GTTYEVVKLSQLQDLEDTT-------FDRDTLEAYRLVR----RKNRPVKLLASG--EIS 115
Query: 78 AKINIEVQWTSEPVIAAIERNG 99
+ + V S I A+E G
Sbjct: 116 RAVTVHVDAASAAAIKAVEAAG 137
>1k87_A PUTA, proline dehydrogenase, proline dehydroge; multi-functional
protein, transcripti repressor, shuttling, dimer,
oxidoreductase; HET: FAD 1PE; 2.00A {Escherichia coli}
SCOP: a.176.1.1 c.1.23.2
Length = 669
Score = 28.1 bits (62), Expect = 2.1
Identities = 9/51 (17%), Positives = 20/51 (39%), Gaps = 3/51 (5%)
Query: 58 EPFHNHYGVNLTDEGA-DNFKAKINI--EVQWTSEPVIAAIERNGEAIPLR 105
N G++L +E + + + +W + P++ GE P+
Sbjct: 614 HGRDNSAGLDLANEHRLASLSSALLNSALQKWQALPMLEQPVAAGEMSPVI 664
>2ps2_A Putative mandelate racemase/muconate lactonizing enzyme; structural
genomics, NYSGXRC, target 9440A, enolase superfamily,
PSI-2; 1.80A {Aspergillus oryzae RIB40}
Length = 371
Score = 28.0 bits (63), Expect = 2.2
Identities = 6/37 (16%), Positives = 12/37 (32%)
Query: 70 DEGADNFKAKINIEVQWTSEPVIAAIERNGEAIPLRF 106
+G KI+ E ++ + AA+
Sbjct: 159 AKGYKGQSVKISGEPVTDAKRITAALANQQPDEFFIV 195
>1r88_A MPT51/MPB51 antigen; ALFA/beta hydrolase fold, FBPC1, immune
system; 1.71A {Mycobacterium tuberculosis} SCOP:
c.69.1.3
Length = 280
Score = 26.8 bits (59), Expect = 5.5
Identities = 9/44 (20%), Positives = 15/44 (34%), Gaps = 4/44 (9%)
Query: 99 GEAIPLRFQPPQDAILYYSNPESRGYLADPEQISWQRFALAQKY 142
G IP+ F +Y + + A P+ +W A
Sbjct: 22 GRDIPVAFLAGGPHAVYLLD----AFNAGPDVSNWVTAGNAMNT 61
>1r9l_A Glycine betaine-binding periplasmic protein; periplasmic binding
protein, cation-PI interactions, tryptophan BOX, protein
binding; 1.59A {Escherichia coli} SCOP: c.94.1.1 PDB:
1r9q_A*
Length = 309
Score = 26.8 bits (59), Expect = 5.6
Identities = 12/51 (23%), Positives = 16/51 (31%), Gaps = 1/51 (1%)
Query: 137 ALAQKYGYTLPEIEKDPDF-EMLSMRKDPRQVFYGLEPGWVVNVIDKMILK 186
A +Y T KDP ++ D + G PGW L
Sbjct: 101 KTADQYKITNIAQLKDPKIAKLFDTNGDGKADLTGCNPGWGCEGAINHQLA 151
>2ffc_A Orotidine 5-monophosphate decarboxylase; PV-PF10_0225, SGC,
structural genomics, struc genomics consortium, lyase;
HET: U5P; 1.70A {Plasmodium vivax} SCOP: c.1.2.3 PDB:
2guu_A*
Length = 353
Score = 26.7 bits (58), Expect = 5.9
Identities = 16/123 (13%), Positives = 37/123 (30%), Gaps = 8/123 (6%)
Query: 61 HNHYGVNLTDEGADNFKAKINIEVQWTSEPVIAAIERNGEAIPLRFQPPQDAILYYSNPE 120
H+H+ L G+ N K K+ + + ++ + I F + Y S +
Sbjct: 7 HHHHSSGLVPRGS-NLKIKLQKRRDEVNTCLCIGLDPDEADIK-SFMQSEKQNGYQSVKK 64
Query: 121 SRGYLADPEQISWQRFALAQKYGYTLPEIEKDPDFEML--SMRKDPRQVFYGLEPGWVVN 178
+ S + P++ ++ + FY +
Sbjct: 65 NLSNSGSSSSSSNSSSGKGE---LFAPQMGGQMLLAETPPKEAQEKDEFFYFFNH-FCFY 120
Query: 179 VID 181
+I+
Sbjct: 121 IIN 123
>2kj6_A Tubulin folding cofactor B; methods development, NESG, solution
PSI-2, structural genomics, protein structure
initiative; NMR {Arabidopsis thaliana}
Length = 97
Score = 25.3 bits (55), Expect = 7.6
Identities = 8/36 (22%), Positives = 18/36 (50%), Gaps = 1/36 (2%)
Query: 148 EIEKDPDFEMLSMRKDPRQV-FYGLEPGWVVNVIDK 182
E+ D ++ + D R + F+ G+ +++ID
Sbjct: 60 ELYDDSGSKVAVLSDDSRPLGFFSPFDGFRLHIIDL 95
>3eez_A Putative mandelate racemase/muconate lactonizing enzyme; structural
genomics, unknown function, PSI-2, protein structure
initiative; 2.80A {Silicibacter pomeroyi}
Length = 378
Score = 26.1 bits (58), Expect = 7.8
Identities = 4/36 (11%), Positives = 9/36 (25%)
Query: 70 DEGADNFKAKINIEVQWTSEPVIAAIERNGEAIPLR 105
G KI +V+ + + +
Sbjct: 158 QRGYVAHSVKIGGDVERDIARIRDVEDIREPGEIVL 193
>3t7k_A RTT107, regulator of TY1 transposition protein 107; BRCT, DNA
repair, phospho-peptide, protein binding; HET: SEP;
2.03A {Saccharomyces cerevisiae} PDB: 3t7j_A* 3t7i_A
Length = 256
Score = 26.2 bits (57), Expect = 8.2
Identities = 7/41 (17%), Positives = 15/41 (36%), Gaps = 2/41 (4%)
Query: 157 MLSMRKDPRQVFYGLEPGWVVNVIDKMILKPKDPELIEYYK 197
+ K+ + +E W V I + + + + Y K
Sbjct: 215 INDRDKNETILI--VEWNWCVESIFHLNVDFTSKKNVLYQK 253
>2x49_A INVA, invasion protein INVA; protein transport, transport,
pathogenesis; 1.50A {Salmonella enterica subsp} PDB:
2x4a_A* 3lw9_A
Length = 333
Score = 26.2 bits (58), Expect = 8.4
Identities = 8/32 (25%), Positives = 10/32 (31%)
Query: 118 NPESRGYLADPEQISWQRFALAQKYGYTLPEI 149
R L + R YG LPE+
Sbjct: 15 PKSRREDLEKAQLAERLRSQFFIDYGVRLPEV 46
>4a4a_A Alpha-N-acetylglucosaminidase family protein; hydrolase, 2
hydrolase, family 89 glycoside hydrolase, mucin
carbohydrate-active enzyme; HET: NDG GAL; 1.90A
{Clostridium perfringens} PDB: 2vcc_A 2vc9_A* 2vcb_A*
2vca_A
Length = 914
Score = 26.2 bits (57), Expect = 9.4
Identities = 10/46 (21%), Positives = 19/46 (41%), Gaps = 7/46 (15%)
Query: 110 QDAILY-------YSNPESRGYLADPEQISWQRFALAQKYGYTLPE 148
Q+ +L YS+ E + +++ P +W +G LP
Sbjct: 334 QEEVLRRTLNEFGYSDEEVKEFISGPAYFAWFYMQNMTGFGGPLPN 379
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 0.426
Gapped
Lambda K H
0.267 0.0538 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,367,963
Number of extensions: 204959
Number of successful extensions: 524
Number of sequences better than 10.0: 1
Number of HSP's gapped: 522
Number of HSP's successfully gapped: 21
Length of query: 198
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 109
Effective length of database: 4,216,824
Effective search space: 459633816
Effective search space used: 459633816
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: 55 (25.4 bits)