RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5837
(181 letters)
>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 = 32.1 bits (72), Expect = 0.100
Identities = 15/91 (16%), Positives = 29/91 (31%), Gaps = 15/91 (16%)
Query: 55 KFVGNKISTAKYSLVTFFPCF-LFEQFRRYSNIFF----LFIALLQQIPDVSPT------ 103
+F+ KI + +Q + Y + L+ I D P
Sbjct: 501 RFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLI 560
Query: 104 -GRYTTLIPLILIMVVSGIKEIIEDIKRHLA 133
+YT L+ + L+ I E+ + +
Sbjct: 561 CSKYTDLLRIALMAEDEA---IFEEAHKQVQ 588
>2l73_A NADPH oxidase organizer 1; cell membrane, PX domain, oxidoreductase
regulator; NMR {Homo sapiens}
Length = 149
Score = 30.8 bits (69), Expect = 0.12
Identities = 7/57 (12%), Positives = 15/57 (26%), Gaps = 4/57 (7%)
Query: 80 FRRYSNIFFLFIALLQQIPDVS----PTGRYTTLIPLILIMVVSGIKEIIEDIKRHL 132
R + L L + P + + R + ++ G + L
Sbjct: 44 RRSWDEFRQLKKTLKETFPVEAGLLRRSDRVLPKLLDAPLLGRVGRTSRGLARLQLL 100
>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 = 30.4 bits (68), Expect = 0.32
Identities = 37/185 (20%), Positives = 55/185 (29%), Gaps = 51/185 (27%)
Query: 28 QPTIDTVDCITGKADHRVI-NINAPQSCKFV--GNKISTAKYSLVTFF-----PCFLFEQ 79
Q ++ + I +N ++ V G S Y L P L +Q
Sbjct: 350 QDYVNKTNSHLPAGKQVEISLVNGAKN--LVVSGPPQSL--YGLNLTLRKAKAPSGL-DQ 404
Query: 80 FR--------RYSNIFFLFIA------LLQQ-----IPDVSPTG---RYTTL-IPLILIM 116
R ++SN F L +A LL D+ + IP+
Sbjct: 405 SRIPFSERKLKFSNRF-LPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYD-- 461
Query: 117 VVSGIKEIIEDIKRHLADGEINHRSVDVIRNGMIYVEQWKDLKVGDIVKVYNNSFFPGDL 176
G D+ R L G I+ R VD I + W+ + F PG
Sbjct: 462 TFDG-----SDL-RVL-SGSISERIVDCIIRLPVK---WETTTQFKATHIL--DFGPGGA 509
Query: 177 MVLST 181
L
Sbjct: 510 SGLGV 514
Score = 28.1 bits (62), Expect = 2.1
Identities = 9/45 (20%), Positives = 17/45 (37%), Gaps = 2/45 (4%)
Query: 9 SSRKLISGNPTSTGAGGGSQPTIDTVDCITGKADHRV--ININAP 51
S+ +I+ NP A + V+ + + V +N N
Sbjct: 1805 SNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVE 1849
Score = 26.6 bits (58), Expect = 7.3
Identities = 13/81 (16%), Positives = 31/81 (38%), Gaps = 19/81 (23%)
Query: 88 FL-FIALLQQIPDVSPTGRYTTLIPLILIMVVSGIKEIIEDIKRHLADGEINHRSVDVIR 146
FL +++ + + S G++ ++ L L E L +I H ++
Sbjct: 64 FLGYVS---SLVEPSKVGQFDQVLNLCL-------TEFENCY---LEGNDI-H-ALAA-- 106
Query: 147 NGMIYVEQWKDLKVGDIVKVY 167
++ +K +++K Y
Sbjct: 107 -KLLQENDTTLVKTKELIKNY 126
>1mhs_A Proton pump, plasma membrane ATPase; ION transport, membrane
protein, P-type ATPase, active transport, cryo-electron
microscopy; 8.00A {Neurospora crassa} SCOP: i.18.1.1
Length = 920
Score = 30.4 bits (69), Expect = 0.36
Identities = 19/131 (14%), Positives = 48/131 (36%), Gaps = 24/131 (18%)
Query: 59 NKISTAKYSLVTFFPCFLFEQFRRYSNIFFLFIALLQQIPDVSPTGRYTTLIPLILIMVV 118
N++ K + F F A+L + + ++++
Sbjct: 103 NQMKEEKENHFLKF----LGFFVGPIQFVMEGAAVLAAG-----LEDWVDFGVICGLLLL 153
Query: 119 SGI---------KEIIEDIKRHLADGEINHRSVDVIRNGMIYVEQWKDLKVGDIVKVYNN 169
+ + I++++K+ LA V+R+G + + ++ GDI++V
Sbjct: 154 NAVVGFVQEFQAGSIVDELKKTLA------LKAVVLRDGTLKEIEAPEVVPGDILQVEEG 207
Query: 170 SFFPGDLMVLS 180
+ P D +++
Sbjct: 208 TIIPADGRIVT 218
>1kq6_A NCF-1, P47PHOX, neutrophil cytosol factor 1; alpha beta, PX domain,
NADPH oxidase, protein binding; HET: MSE; 1.18A {Homo
sapiens} SCOP: d.189.1.1 PDB: 1gd5_A 1o7k_A
Length = 141
Score = 28.1 bits (62), Expect = 1.2
Identities = 9/54 (16%), Positives = 20/54 (37%), Gaps = 1/54 (1%)
Query: 80 FRRYSNIFFLFIALLQQIPDVS-PTGRYTTLIPLILIMVVSGIKEIIEDIKRHL 132
+RR++ I+ L + P + +IP + + E+ + L
Sbjct: 41 YRRFTEIYEFHKTLKEMFPIEAGAINPENRIIPHLPAPKWFDGQRAAENRQGTL 94
>2gqt_A UDP-N-acetylenolpyruvylglucosamine reductase; peptidoglycan
biosynthesis, enolpyruvyl-UDP-N- acetylglucosamine,
flavin adenine dinucleotide; HET: FAD; 1.30A {Thermus
caldophilus} PDB: 2gqu_A*
Length = 268
Score = 27.8 bits (63), Expect = 1.8
Identities = 12/49 (24%), Positives = 20/49 (40%), Gaps = 7/49 (14%)
Query: 134 DGEINHR--SVDVIRNGMIYVEQWKDLKVGDIVKVYNNSFFPGDLMVLS 180
GE+ +V+V +G +V ++L G Y S P +V
Sbjct: 121 FGEMADALEAVEVFHDGAFHVYCPEELGFG-----YRKSHLPPGGIVTR 164
>2ar5_A Phosphoinositide 3-kinase; PX domain, transferase; 1.80A {Homo
sapiens} PDB: 2rea_A 2red_A
Length = 121
Score = 27.2 bits (60), Expect = 1.9
Identities = 11/53 (20%), Positives = 18/53 (33%), Gaps = 5/53 (9%)
Query: 80 FRRYSNIFFLFIALLQQIPDVSPTGRYTTLIPLILIMVVSGIKEIIEDIKRHL 132
FR + L L P G P +++ + IK++ K L
Sbjct: 41 FRTFDEFQELHNKLSIIFPLWKLPG-----FPNRMVLGRTHIKDVAAKRKIEL 88
>3b8c_A ATPase 2, plasma membrane-type; P-type ATPase, proton pump,
ATP-binding, hydrogen ION transport, hydrolase, ION
transport; HET: ACP; 3.60A {Arabidopsis thaliana}
Length = 885
Score = 28.0 bits (63), Expect = 1.9
Identities = 22/131 (16%), Positives = 41/131 (31%), Gaps = 15/131 (11%)
Query: 59 NKISTAKYSLVTFFPCFLFEQFRRYSNIFFLFIALLQQIPDV--SPTGRYTTLIPLILIM 116
NK+ K S + F + A++ + + +I ++
Sbjct: 48 NKLEEKKESKLLKF----LGFMWNPLSWVMEMAAIMAIALANGDGRPPDWQDFVGIICLL 103
Query: 117 VVSGIKEIIEDIKRHLADGEIN------HRSVDVIRNGMIYVEQWKDLKVGDIVKVYNNS 170
V++ IE+ A V+R+G ++ L GDIV +
Sbjct: 104 VINSTISFIEENN---AGNAAAALMAGLAPKTKVLRDGKWSEQEAAILVPGDIVSIKLGD 160
Query: 171 FFPGDLMVLST 181
P D +L
Sbjct: 161 IIPADARLLEG 171
>2iwl_X Phosphatidylinositol-4-phosphate 3-kinase C2 domain-containing
alpha polypeptide; PI3K, PX domain, transferase; 2.6A
{Homo sapiens}
Length = 140
Score = 27.2 bits (60), Expect = 2.0
Identities = 10/53 (18%), Positives = 17/53 (32%), Gaps = 5/53 (9%)
Query: 80 FRRYSNIFFLFIALLQQIPDVSPTGRYTTLIPLILIMVVSGIKEIIEDIKRHL 132
FR + L L P P +++ + IK++ K L
Sbjct: 56 FRTFDEFQELHNKLSIIFPLWKL-----PGFPNRMVLGRTHIKDVAAKRKIEL 103
>2pv0_B DNA (cytosine-5)-methyltransferase 3-like; DNMT3L, unmethylated
H3K4, de novo DNA methylation, transferase regulator;
HET: DNA; 3.30A {Homo sapiens} PDB: 2pvc_B*
Length = 386
Score = 27.2 bits (59), Expect = 3.2
Identities = 13/61 (21%), Positives = 18/61 (29%), Gaps = 3/61 (4%)
Query: 72 FPCFLFEQFRRYSNIFFLFIALLQQIPDVSPTGRYTTLIPLILIMVVSGIKEIIEDIKRH 131
P R S F F LLQ P + + + KE ++ R
Sbjct: 245 TPPLGHTCDRPPSWYLFQFHRLLQYA---RPKPGSPGPFFWMFVDNLVLNKEDLDVASRF 301
Query: 132 L 132
L
Sbjct: 302 L 302
>2jhe_A Transcription regulator TYRR; aromatic hydrocarbons catabolism,
TYRR protei nucleotide-binding, transcription
regulation, activator; HET: PG4; 2.30A {Escherichia
coli}
Length = 190
Score = 26.8 bits (59), Expect = 4.0
Identities = 6/30 (20%), Positives = 14/30 (46%)
Query: 124 IIEDIKRHLADGEINHRSVDVIRNGMIYVE 153
+ ++ L I+ R +++ G IY+
Sbjct: 13 LTRELLDLLVLRGIDLRGIEIDPIGRIYLN 42
>3omb_A Extracellular solute-binding protein, family 1; PSI-2, midwest
center for structural genomics, protein struc
initiative, MCSG; 2.10A {Bifidobacterium longum subsp}
Length = 535
Score = 26.8 bits (59), Expect = 4.5
Identities = 3/21 (14%), Positives = 10/21 (47%)
Query: 151 YVEQWKDLKVGDIVKVYNNSF 171
Y +Q + + + K++ +
Sbjct: 510 YCKQLDSIGLQESTKIWQKWY 530
>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation
of protein synthesis, cryo-eletron microscopy,
translation/RNA complex; 13.80A {Escherichia coli}
Length = 501
Score = 26.7 bits (60), Expect = 4.6
Identities = 12/30 (40%), Positives = 21/30 (70%), Gaps = 5/30 (16%)
Query: 143 DV--IRNGM---IYVEQWKDLKVGDIVKVY 167
DV +RNGM I V+ + D++ GD+++V+
Sbjct: 464 DVNEVRNGMECGIGVKNYNDVRTGDVIEVF 493
>1d1n_A Initiation factor 2; beta-barrel, gene regulation; NMR {Geobacillus
stearothermophilus} SCOP: b.43.3.1
Length = 99
Score = 25.6 bits (57), Expect = 4.8
Identities = 8/30 (26%), Positives = 17/30 (56%), Gaps = 5/30 (16%)
Query: 143 DV--IRNGM---IYVEQWKDLKVGDIVKVY 167
DV + G + ++ + D+K GD+++ Y
Sbjct: 62 DVREVAQGYECGLTIKNFNDIKEGDVIEAY 91
>3m31_A Endoplasmic oxidoreductin-1; disulfide mutant, disulfide bond,
electron transport, endopl reticulum, FAD, flavoprotein,
glycoprotein; HET: FAD; 1.85A {Saccharomyces cerevisiae}
PDB: 1rp4_A* 1rq1_A* 3nvj_A*
Length = 388
Score = 26.6 bits (58), Expect = 6.0
Identities = 11/92 (11%), Positives = 31/92 (33%), Gaps = 3/92 (3%)
Query: 43 HRVININAPQSCKFVGNKISTAKYSLVTFFPCFLFEQFRRYSNIFFLFIALLQQIPDVSP 102
H I K N + + F + R +N++F + + + + + P
Sbjct: 192 HASIGT---HLSKEYLNTKTGKWEPNLDLFMARIGNFPDRVTNMYFNYAVVAKALWKIQP 248
Query: 103 TGRYTTLIPLILIMVVSGIKEIIEDIKRHLAD 134
+ L+ + + + +I + + +
Sbjct: 249 YLPEFSFADLVNKEIKNKMDNVISQLDTKIFN 280
>3zy2_A Putative GDP-fucose protein O-fucosyltransferase;
glycosyltransferase, GT-B, catalytic mechanism,; HET:
GDP; 1.54A {Caenorhabditis elegans} PDB: 3zy3_A* 3zy4_A*
3zy5_A* 3zy6_A*
Length = 362
Score = 26.2 bits (57), Expect = 6.4
Identities = 13/76 (17%), Positives = 28/76 (36%), Gaps = 4/76 (5%)
Query: 103 TGRYTTLIPLILIMVVSGIKEIIEDIKRHLADGEINHRSVDVIRNGMIYVEQWKDLKVGD 162
G L L + ++I+E I + G I +SV V + +++ +
Sbjct: 246 LGEGHHLGTLTKEICSPSKQQILEQIVEKV--GSIGAKSVFVASDKDHMIDEINEALKPY 303
Query: 163 IVKVYNNSFFPGDLMV 178
++ + P D+
Sbjct: 304 EIEAH--RQEPDDMYT 317
>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 = 26.5 bits (58), Expect = 6.5
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 13/45 (28%)
Query: 106 YTTLIPLILIMVVSGI-------------KEIIEDIKRHLADGEI 137
Y ++P+IL+ GI EII++I+ + D E+
Sbjct: 398 YLPILPMILVNGAEGIGTGWSTYIPPFNPLEIIKNIRHLMNDEEL 442
>3uwp_A Histone-lysine N-methyltransferase, H3 lysine-79; epigenetics,
tubercidin, structu genomics, structural genomics
consortium, SGC; HET: 5ID; 2.05A {Homo sapiens} PDB:
4eqz_A* 3sx0_A* 4er0_A* 4er7_A* 1nw3_A* 4er6_A* 4er5_A*
3qow_A* 3qox_A* 4er3_A* 3sr4_A*
Length = 438
Score = 26.0 bits (56), Expect = 8.0
Identities = 7/56 (12%), Positives = 21/56 (37%), Gaps = 1/56 (1%)
Query: 122 KEIIEDIKRHLADGEINHRSVDVIRNGMIYVEQWKDLKVGDIVKVYNNSFFPGDLM 177
+ + + ++ + H + R + E + + ++ V NN F ++
Sbjct: 214 ETMDREFRKWMKWYGKKHAEYTLERGDFLSEEWRERIANTSVIFV-NNFAFGPEVD 268
>1t60_A Type IV collagen; basement membrane, NC1 domain, structural
protein; 1.50A {Bos taurus} SCOP: d.169.1.6 d.169.1.6
PDB: 1m3d_A 1t61_A 1li1_A
Length = 229
Score = 25.7 bits (56), Expect = 9.4
Identities = 11/44 (25%), Positives = 15/44 (34%)
Query: 19 TSTGAGGGSQPTIDTVDCITGKADHRVININAPQSCKFVGNKIS 62
TS GA G Q C+ I + +C + N S
Sbjct: 147 TSAGAEGSGQALASPGSCLEEFRSAPFIECHGRGTCNYYANAYS 190
>2cw8_A Endonuclease PI-pkoii; hydrolase; 2.50A {Thermococcus kodakarensis}
PDB: 2cw7_A
Length = 537
Score = 26.0 bits (55), Expect = 9.9
Identities = 16/71 (22%), Positives = 27/71 (38%), Gaps = 16/71 (22%)
Query: 125 IEDIKRHLADGEI---------------NHRSVDVIRNGMIYVEQWKDLKVGDIVKVYNN 169
++ + RH G++ H + +RNG + +LK GD+V V
Sbjct: 67 VKALIRHDYSGKVYTIRLKSGRRIKITSGHS-LFSVRNGELVEVTGDELKPGDLVAVPRR 125
Query: 170 SFFPGDLMVLS 180
P VL+
Sbjct: 126 LELPERNHVLN 136
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
0.322 0.139 0.411
Gapped
Lambda K H
0.267 0.0513 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,825,609
Number of extensions: 168732
Number of successful extensions: 445
Number of sequences better than 10.0: 1
Number of HSP's gapped: 444
Number of HSP's successfully gapped: 31
Length of query: 181
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 93
Effective length of database: 4,244,745
Effective search space: 394761285
Effective search space used: 394761285
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 (21.9 bits)
S2: 54 (25.1 bits)