RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2312
(392 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 = 42.1 bits (98), Expect = 3e-04
Identities = 23/155 (14%), Positives = 51/155 (32%), Gaps = 34/155 (21%)
Query: 265 SITPNVSKAVSITPKTNLEESNEPMD--NINNPE------NALIRLSSSIYTDSSEDI-- 314
P++ + I + L N+ N++ + AL+ L + +
Sbjct: 102 QRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKN------VLI 155
Query: 315 --------SSLGGDV-GDHRL--------FWETERVCQFPIDHGTSKKNLWNKKLMNTMK 357
+ + DV +++ FW + C P + L + N
Sbjct: 156 DGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTS 215
Query: 358 TKVKIIMMKMKREIMKKKRRR-GKKHYHSHQLLIL 391
+K++ ++ + RR K + + LL+L
Sbjct: 216 RSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL 250
Score = 37.5 bits (86), Expect = 0.009
Identities = 16/93 (17%), Positives = 30/93 (32%), Gaps = 19/93 (20%)
Query: 281 NLEESNEPMDNINNPENALIRLSSS--IYTDSSEDISSLGGDVGDH--RLFWETERVCQF 336
NL+ N P + + L ++ + +D S +I + RL +
Sbjct: 188 NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK----PY 243
Query: 337 P-----IDHGTSKKNLWNKKLMNTMKTKVKIIM 364
+ N+ N K N KI++
Sbjct: 244 ENCLLVLL------NVQNAKAWNAFNLSCKILL 270
>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 = 34.6 bits (79), Expect = 0.064
Identities = 24/118 (20%), Positives = 37/118 (31%), Gaps = 35/118 (29%)
Query: 233 GVSITPNVPKGVTMTPNVPKGVSITPNVPKGISITPNVSKAV-------SITPKTNLEES 285
G SI V N P ++I KG I N S + + + +E
Sbjct: 1658 GFSILDIVI-------NNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEI 1710
Query: 286 NE---------PMDNINNPEN---ALIRLSSSIYTDSSEDISSLGGDVGD-----HRL 326
NE ++ + AL + + + ED+ S G D H L
Sbjct: 1711 NEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAF----EDLKSKGLIPADATFAGHSL 1764
>3py9_A Protein kinase; pasta, muropeptide binding, phosphorylation,
membran transferase; 2.20A {Staphylococcus aureus subsp}
PDB: 3m9g_A
Length = 294
Score = 31.0 bits (70), Expect = 0.52
Identities = 33/185 (17%), Positives = 59/185 (31%), Gaps = 11/185 (5%)
Query: 108 PNVPKGISMTPNVPRGISMTPNVSKGVSMTPNVSKGVSMTPNVPKSVSLTPNVPKGV--S 165
PKG +V + ++ S G+ V + + K
Sbjct: 108 NQAPKGYIANQSVTANTEIAI---HDSNIKLYESLGIKQVY-VEDFEHKSFSKAKKALEE 163
Query: 166 MTLNVPKGVSITPNVPKG--ISMTPN---VPRGISMTPNVSKGVSMTPNVSKGVSMTPNV 220
V + ++ +G IS +P V G +++ VSKG + K + + +V
Sbjct: 164 KGFKVESKEEYSDDIDEGDVISQSPKGKSVDEGSTISFVVSKGKKSDSSDVKTTTESVDV 223
Query: 221 PKSVSLTPNVPKGVSITPNVPKGVTMTPNVPKGVSITPNVPKGISITPNVSKAVSITPKT 280
P + + V I G T + ++P I S V + KT
Sbjct: 224 PYTGKNDKSQKVKVYIKDKDNDGSTEKGSFDITSDQRIDIPLRIEKGKTASYIVKVDGKT 283
Query: 281 NLEES 285
E+
Sbjct: 284 VAEKE 288
>3qx3_A DNA topoisomerase 2-beta; toprim domain, winged-helix domain,
coiled-coil domain, DNA and cleavage, nucleus; HET: DNA
EVP; 2.16A {Homo sapiens}
Length = 803
Score = 29.3 bits (65), Expect = 2.6
Identities = 7/47 (14%), Positives = 16/47 (34%), Gaps = 1/47 (2%)
Query: 341 GTSKKNLWNKKLMNTMKTKVKIIMMKMKREIMKKKRRRGKKHYHSHQ 387
S +LW + L ++ + + + + H+H H
Sbjct: 755 RKSPSDLWKEDL-AAFVEELDKVESQEREDGAPGFSSISAHHHHHHH 800
>3ep0_A PR domain zinc finger protein 12; PR domain-containing protein 12,
structural genomics, structural genomics consortium,
SGC, DNA-binding; 2.10A {Homo sapiens}
Length = 170
Score = 28.1 bits (62), Expect = 3.9
Identities = 9/60 (15%), Positives = 17/60 (28%)
Query: 56 ITPNKPQAVSTNSPLPKGISITPNVPKGISVTPNVPKGVSMTLNVPKGVSITPNVPKGIS 115
Q+ S + + V S P G+ + G + P + I+
Sbjct: 5 TAEVLAQSFSGEVQKLSSLVLPAEVIIAQSSIPGEGLGIFSKTWIKAGTEMGPFTGRVIA 64
>3ikm_A DNA polymerase subunit gamma-1; human mitochondrial DNA polymerase,
disease mutation, DNA replication, DNA-binding,
DNA-directed DNA polymerase; HET: DNA; 3.24A {Homo
sapiens}
Length = 1172
Score = 28.3 bits (62), Expect = 5.5
Identities = 10/78 (12%), Positives = 32/78 (41%), Gaps = 5/78 (6%)
Query: 4 EDHQEKTQPLTQESDAMQSIPSPSHTPSVPNKIQNVSITP----NPVTPKKMSGVSITPN 59
E+ + + Q ++ + ++ + + Q+V+ + K+++ TP+
Sbjct: 1076 EEDRYRAALALQITNLLTRCM-FAYKLGLNDLPQSVAFFSAVDIDRCLRKEVTMDCKTPS 1134
Query: 60 KPQAVSTNSPLPKGISIT 77
P + +P+G ++
Sbjct: 1135 NPTGMERRYGIPQGEALD 1152
>1rh1_A Colicin B; FEPA, cytotoxic bacterial protein, TONB, antibiotic;
2.50A {Escherichia coli} SCOP: b.110.1.1 f.1.1.1
Length = 511
Score = 27.8 bits (60), Expect = 6.7
Identities = 24/189 (12%), Positives = 54/189 (28%), Gaps = 2/189 (1%)
Query: 17 SDAMQSIPSPSHTPSVPNKIQNVSITPNPVTPKKMSGVSITPNKPQAVSTN-SPLPKGIS 75
+ + PS P + + P +K+ + +T Q S LP +
Sbjct: 104 TVLENGLRGGLPEPSRPAAVSFARLEPASGNEQKIIRLMVTQQLEQVTDIPASQLPAAGN 163
Query: 76 ITPNVPKGISVTPNVPKGVSMTLNVPKGVSITPNVPKGISMTPNVPR-GISMTPNVSKGV 134
P + + N + +++ +P V + VP P + P
Sbjct: 164 NVPVKYRLTDLMQNGTQYMAIIGGIPMTVPVVDAVPVPDRSRPGTNIKDVYSAPVSPNLP 223
Query: 135 SMTPNVSKGVSMTPNVPKSVSLTPNVPKGVSMTLNVPKGVSITPNVPKGISMTPNVPRGI 194
+ +V + + + P+ G + + + + + P I
Sbjct: 224 DLVLSVGQMNTPVRSNPEIQEDGVISETGNYVEAGYTMSSNNHDVIVRFPEGSGVSPLYI 283
Query: 195 SMTPNVSKG 203
S +
Sbjct: 284 SAVEILDSN 292
>1xd3_A Ubiquitin carboxyl-terminal esterase L3; enzyme-ligand complex,
active site crossover loop, hydrolase; HET: GVE; 1.45A
{Homo sapiens} SCOP: d.3.1.6 PDB: 1uch_A*
Length = 230
Score = 27.0 bits (59), Expect = 9.3
Identities = 8/44 (18%), Positives = 18/44 (40%), Gaps = 7/44 (15%)
Query: 327 FWETERVCQFPIDHGTSKKNLWNKKLMNTMKTKVKIIMMKMKRE 370
+E + FPI+HG + + +++ M+R+
Sbjct: 180 LYELDGRKPFPINHGETSDETLLEDA-------IEVCKKFMERD 216
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 0.126 0.360
Gapped
Lambda K H
0.267 0.0511 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,683,491
Number of extensions: 332986
Number of successful extensions: 463
Number of sequences better than 10.0: 1
Number of HSP's gapped: 456
Number of HSP's successfully gapped: 22
Length of query: 392
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 297
Effective length of database: 4,049,298
Effective search space: 1202641506
Effective search space used: 1202641506
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 (21.6 bits)
S2: 58 (26.6 bits)