RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15078
(70 letters)
>1gp2_G G protein GI gamma 2; signal transduction protein, GTPase, WD40,
RAS-like, complex (GTP-binding/transducer); HET: GDP;
2.30A {Bos taurus} SCOP: a.137.3.1 PDB: 1gg2_G* 2bcj_G*
3ah8_G* 1xhm_B 2qns_B 3kj5_B 3pvu_G* 3cik_G 3krw_G*
3krx_G* 3psc_G 1omw_G* 3pvw_G* 3sn6_G*
Length = 71
Score = 77.6 bits (191), Expect = 2e-21
Identities = 24/65 (36%), Positives = 38/65 (58%), Gaps = 1/65 (1%)
Query: 6 TNLQQQKQITEQLRREANLKRINVSQAIQDIIKYINEHQHEDCLLVGFSSQKSNPFKEKT 65
++ Q +++ EQL+ EAN+ RI VS+A D++ Y H ED LL + + NPF+EK
Sbjct: 7 ASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASE-NPFREKK 65
Query: 66 SCMIL 70
+
Sbjct: 66 FFSAI 70
>1got_G GT-gamma; complex (GTP-binding/transducer), G protein,
heterotrimer signal transduction; HET: GDP; 2.00A {Bos
taurus} SCOP: a.137.3.1 PDB: 1tbg_E 2trc_G 1b9y_B
1b9x_B 1a0r_G*
Length = 73
Score = 74.6 bits (183), Expect = 4e-20
Identities = 21/63 (33%), Positives = 33/63 (52%), Gaps = 1/63 (1%)
Query: 1 MDMMITNLQQQKQITEQLRREANLKRINVSQAIQDIIKYINEHQHEDCLLVGFSSQKSNP 60
+T + K +QL++E L+R+ VS+ ++ Y+ E ED L+ G K NP
Sbjct: 12 NIEDLTEKDKLKMEVDQLKKEVTLERMLVSKCCEEFRDYVEERSGEDPLVKGIPEDK-NP 70
Query: 61 FKE 63
FKE
Sbjct: 71 FKE 73
>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 = 34.1 bits (77), Expect = 0.001
Identities = 10/51 (19%), Positives = 23/51 (45%), Gaps = 3/51 (5%)
Query: 3 MMITNLQQQ--KQITEQLRREANLKRINVSQAIQDIIKYINEHQHEDCLLV 51
M+ L Q T + +N+ ++ + ++ + + +E+CLLV
Sbjct: 200 EMLQKLLYQIDPNWTSRSDHSSNI-KLRIHSIQAELRRLLKSKPYENCLLV 249
>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 = 27.5 bits (61), Expect = 0.30
Identities = 1/25 (4%), Positives = 11/25 (44%)
Query: 19 RREANLKRINVSQAIQDIIKYINEH 43
+R+ + + +++ ++ +
Sbjct: 1250 KRQLVTREAQIKDWVENELEALKLE 1274
>3oou_A LIN2118 protein; protein structure initiative, PSI-2, structural
genomics, MI center for structural genomics, MCSG,
unknown function; HET: BTB; 1.57A {Listeria innocua}
Length = 108
Score = 26.3 bits (59), Expect = 0.50
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 30 SQAIQDIIKYINEHQHED 47
S IQ+++ YI EH E
Sbjct: 4 SPIIQNVLSYITEHFSEG 21
>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting,
simibi class GTPase, GTP-BIND membrane,
nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A
2xxa_B* 1fts_A
Length = 503
Score = 25.1 bits (55), Expect = 2.2
Identities = 6/26 (23%), Positives = 15/26 (57%)
Query: 13 QITEQLRREANLKRINVSQAIQDIIK 38
+I L A+ K++ ++A+ ++K
Sbjct: 247 KIITNLTEGASRKQLRDAEALYGLLK 272
>3pbh_A Procathepsin B; thiol protease, cysteine protease, proenzyme,
papain; 2.50A {Homo sapiens} SCOP: d.3.1.1 PDB: 2pbh_A
1pbh_A 1mir_A
Length = 317
Score = 25.0 bits (55), Expect = 2.4
Identities = 2/13 (15%), Positives = 7/13 (53%)
Query: 34 QDIIKYINEHQHE 46
+++ Y+N+
Sbjct: 12 DELVNYVNKRNTT 24
>1u7z_A Coenzyme A biosynthesis bifunctional protein coabc; ligase; HET:
PMT; 2.30A {Escherichia coli} SCOP: c.72.3.1 PDB:
1u7w_A* 1u7u_A* 1u80_A*
Length = 226
Score = 24.8 bits (55), Expect = 2.8
Identities = 5/20 (25%), Positives = 10/20 (50%)
Query: 35 DIIKYINEHQHEDCLLVGFS 54
DI+ + + +VGF+
Sbjct: 129 DIVAGVAALKDHRPYVVGFA 148
>3lsg_A Two-component response regulator YESN; structural genomics,
PSI-2, protein structure initiative, MCSG; 2.05A
{Fusobacterium nucleatum}
Length = 103
Score = 24.0 bits (53), Expect = 3.6
Identities = 10/44 (22%), Positives = 14/44 (31%), Gaps = 8/44 (18%)
Query: 30 SQAIQDIIKYINEHQHEDCL-------LVGFSSQ-KSNPFKEKT 65
S A + I I E + + SS S FK+
Sbjct: 1 SNAKELIQNIIEESYTDSQFTLSVLSEKLDLSSGYLSIMFKKNF 44
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 24.3 bits (52), Expect = 3.6
Identities = 8/38 (21%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 9 QQQKQITEQLRREANLKRINVSQAIQDIIKYINEHQHE 46
+Q+K++ E +++ +A +D+ ++ N+ Q E
Sbjct: 93 EQRKRLQELDAASKVMEQEWREKAKKDLEEW-NQRQSE 129
>3bf7_A Esterase YBFF; thioesterase, helical CAP, hydrolase; 1.10A
{Escherichia coli} PDB: 3bf8_A
Length = 255
Score = 24.3 bits (53), Expect = 3.6
Identities = 5/21 (23%), Positives = 11/21 (52%)
Query: 34 QDIIKYINEHQHEDCLLVGFS 54
QD++ ++ Q + +G S
Sbjct: 69 QDLVDTLDALQIDKATFIGHS 89
>3tz6_A Aspartate-semialdehyde dehydrogenase; asadh, ASD, ASA, amino-acid
biosynthesis, diaminopimelate biosynthesis, lysine
biosynthesis; HET: SO4; 1.95A {Mycobacterium
tuberculosis} PDB: 3vos_A* 3kub_A 3llg_A
Length = 344
Score = 24.4 bits (54), Expect = 3.7
Identities = 9/18 (50%), Positives = 11/18 (61%), Gaps = 2/18 (11%)
Query: 18 LRREANLKRINVS--QAI 33
L EA L R+ VS QA+
Sbjct: 141 LHDEARLVRLVVSSYQAV 158
>3oxp_A Phosphotransferase enzyme II, A component; structural genomics,
center for structural genomics of infec diseases, csgid,
pestis CO92; HET: GOL; 1.20A {Yersinia pestis}
Length = 150
Score = 24.2 bits (53), Expect = 3.7
Identities = 5/32 (15%), Positives = 16/32 (50%)
Query: 12 KQITEQLRREANLKRINVSQAIQDIIKYINEH 43
Q+ + ++++ + ++ QDI+ I +
Sbjct: 119 SQLAQLFDTASDVQALLNAKTPQDILSVIARY 150
>2k9s_A Arabinose operon regulatory protein; activator, arabinose
catabolism, carbohydrate metabolism, cytoplasm,
DNA-binding, repressor, transcription; NMR {Escherichia
coli}
Length = 107
Score = 24.0 bits (53), Expect = 3.9
Identities = 8/45 (17%), Positives = 21/45 (46%), Gaps = 8/45 (17%)
Query: 29 VSQAIQDIIKYINEHQHEDCL-------LVGFS-SQKSNPFKEKT 65
+ +++ +YI++H + V S S+ S+ F+++
Sbjct: 1 MDNRVREACQYISDHLADSNFDIASVAQHVCLSPSRLSHLFRQQL 45
>2oqt_A Hypothetical protein SPY0176; APC29699, putative PTS IIA domain,
streptococcus pyogenes M1 GAS, structural genomics,
PSI-2; 2.41A {Streptococcus pyogenes serotype M1}
Length = 162
Score = 24.2 bits (53), Expect = 4.2
Identities = 5/35 (14%), Positives = 17/35 (48%)
Query: 12 KQITEQLRREANLKRINVSQAIQDIIKYINEHQHE 46
QI + ++R+ Q+ +++++ + E +
Sbjct: 118 PQIVALFELDNAIERLVACQSPKEVLEMVEESKDS 152
>1tv8_A MOAA, molybdenum cofactor biosynthesis protein A; TIM barrel,
ligand binding protein; HET: SAM; 2.20A {Staphylococcus
aureus} SCOP: c.1.28.3 PDB: 1tv7_A* 2fb3_A* 2fb2_A*
Length = 340
Score = 24.1 bits (53), Expect = 4.5
Identities = 7/11 (63%), Positives = 9/11 (81%)
Query: 20 REANLKRINVS 30
+A L+RINVS
Sbjct: 116 YDAGLRRINVS 126
>1o7d_A Lysosomal alpha-mannosidase; hydrolase, glycosyl hydrolase family
38; HET: NAG BMA MAN NDG; 2.70A {Bos taurus} SCOP:
c.6.2.1
Length = 298
Score = 24.2 bits (52), Expect = 4.7
Identities = 3/16 (18%), Positives = 8/16 (50%)
Query: 31 QAIQDIIKYINEHQHE 46
+ + +I+ +N Q
Sbjct: 281 KNLDKLIQLVNAQQRA 296
>2hjs_A USG-1 protein homolog; aspartate-semialdehyde dehydrogenase,
probable hydrolase, PS aeruginosa, structurual genomics;
2.20A {Pseudomonas aeruginosa} SCOP: c.2.1.3 d.81.1.1
Length = 340
Score = 24.0 bits (53), Expect = 5.0
Identities = 2/18 (11%), Positives = 10/18 (55%), Gaps = 2/18 (11%)
Query: 18 LRREANLKRINVS--QAI 33
L + +++N++ ++
Sbjct: 145 LLATLDCRQLNLTACLSV 162
>2qh5_A PMI, ALGA, mannose-6-phosphate isomerase; structural genomics,
PSI, protein structure initi nysgrc; 2.30A
{Helicobacter pylori}
Length = 308
Score = 23.7 bits (52), Expect = 5.3
Identities = 4/27 (14%), Positives = 12/27 (44%)
Query: 3 MMITNLQQQKQITEQLRREANLKRINV 29
+++ N + E+++ E K +
Sbjct: 55 LIVCNEKHYFLALEEIKNEIKNKSVGF 81
>1bl0_A Protein (multiple antibiotic resistance protein), DNA (5'-
D(*CP*CP*GP*AP*TP*GP*CP*CP*AP*CP*GP*TP*TP*TP*TP*GP*CP*T
P*AP *AP*AP*TP* CP*C)-3')...; transcriptional
activator; HET: DNA; 2.30A {Escherichia coli} SCOP:
a.4.1.8 a.4.1.8 PDB: 1xs9_A
Length = 129
Score = 23.8 bits (52), Expect = 5.5
Identities = 3/18 (16%), Positives = 8/18 (44%)
Query: 30 SQAIQDIIKYINEHQHED 47
+ I I+ +I ++
Sbjct: 10 AITIHSILDWIEDNLESP 27
>3bjv_A RMPA; alpha/beta three layer sandwich, transferase; 2.40A
{Streptococcus mutans}
Length = 161
Score = 23.5 bits (51), Expect = 7.2
Identities = 4/35 (11%), Positives = 16/35 (45%)
Query: 12 KQITEQLRREANLKRINVSQAIQDIIKYINEHQHE 46
QI + +++R+ + ++++ + E +
Sbjct: 117 PQIIALFELDHSIERLVNCKTPEEVLAMVEESKSS 151
>3pwk_A Aspartate-semialdehyde dehydrogenase; NADP binding,
oxidoreductase-oxidoreductase I complex; HET: 25A L14;
1.50A {Streptococcus pneumoniae} PDB: 2gyy_A* 2gz2_A*
2gz3_A* 2gz1_A* 3pws_A* 3pyl_A 3pyx_A* 3pzb_A* 3q11_A*
3q1l_A
Length = 366
Score = 23.7 bits (52), Expect = 7.4
Identities = 8/18 (44%), Positives = 12/18 (66%), Gaps = 2/18 (11%)
Query: 18 LRREANLKRINVS--QAI 33
+R++ L RI VS QA+
Sbjct: 140 VRQKWGLDRIIVSTYQAV 157
>1d5y_A ROB transcription factor; protein-DNA complex, DNA,
transcription/DNA complex; HET: DNA; 2.70A {Escherichia
coli} SCOP: a.4.1.8 a.4.1.8 d.60.1.2
Length = 292
Score = 23.6 bits (51), Expect = 7.7
Identities = 3/17 (17%), Positives = 9/17 (52%)
Query: 31 QAIQDIIKYINEHQHED 47
I+D++ ++ H +
Sbjct: 3 GIIRDLLIWLEGHLDQP 19
>3l4j_A DNA topoisomerase 2; topoisomerase, protein-DNA complex,
covalently linked comple supercoiling; HET: DNA PTR
TSP; 2.48A {Saccharomyces cerevisiae} PDB: 3l4k_A*
1bjt_A 1bgw_A 2rgr_A*
Length = 757
Score = 23.4 bits (50), Expect = 7.7
Identities = 8/22 (36%), Positives = 12/22 (54%)
Query: 20 REANLKRINVSQAIQDIIKYIN 41
REA+ +I + IQ I K +
Sbjct: 62 REASADQILKNAEIQAIKKIMG 83
>2l4b_A Acyl carrier protein; infectious disease, human granulocytic
anaplasmosis, ssgcid, structural genomics; NMR
{Anaplasma phagocytophilum}
Length = 88
Score = 22.7 bits (49), Expect = 9.3
Identities = 4/14 (28%), Positives = 7/14 (50%)
Query: 33 IQDIIKYINEHQHE 46
+ DI +YI +
Sbjct: 74 VDDICRYIASKSSD 87
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 0.356
Gapped
Lambda K H
0.267 0.0833 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 948,433
Number of extensions: 41113
Number of successful extensions: 222
Number of sequences better than 10.0: 1
Number of HSP's gapped: 220
Number of HSP's successfully gapped: 41
Length of query: 70
Length of database: 6,701,793
Length adjustment: 40
Effective length of query: 30
Effective length of database: 5,584,953
Effective search space: 167548590
Effective search space used: 167548590
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 (23.2 bits)