RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7662
(220 letters)
>1bh9_A TAFII18; histone fold, tata binding protein, transcription
regulation complex; HET: PMB; 2.60A {Homo sapiens}
SCOP: a.22.1.3 PDB: 1bh8_A*
Length = 45
Score = 72.0 bits (177), Expect = 2e-17
Identities = 35/45 (77%), Positives = 41/45 (91%)
Query: 37 MFSKELRCMMYGFGDDRNPYTESVDILEDAVIDFLVDMTQKAMEM 81
+FSKELRCMMYGFGDD+NPYTESVDILED VI+F+ +MT KAM +
Sbjct: 1 LFSKELRCMMYGFGDDQNPYTESVDILEDLVIEFITEMTHKAMSI 45
Score = 72.0 bits (177), Expect = 2e-17
Identities = 35/45 (77%), Positives = 41/45 (91%)
Query: 125 MFSKELRCMMYGFGDDRNPYTESVDILEDAVIDFLVDMTQKAMEM 169
+FSKELRCMMYGFGDD+NPYTESVDILED VI+F+ +MT KAM +
Sbjct: 1 LFSKELRCMMYGFGDDQNPYTESVDILEDLVIEFITEMTHKAMSI 45
>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 = 34.8 bits (79), Expect = 0.022
Identities = 37/237 (15%), Positives = 67/237 (28%), Gaps = 77/237 (32%)
Query: 18 QFEEEEQDTPVNLPSGRKRMFSKELRCMMYGFGDDRNPYTESVDILEDAVIDFLVDMTQK 77
+ E++ PS RM+ ++ R +Y Y +V L+ ++
Sbjct: 97 PIKTEQRQ-----PSMMTRMYIEQ-RDRLYNDNQVFAKY--NVSRLQ------PYLKLRQ 142
Query: 78 AME------------MGRTGPTFLSLLKFKSNKNVCVFSFQ-F----------------- 107
A+ + +G T+++L S K C F+ F
Sbjct: 143 ALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEML 202
Query: 108 ----------EEEEQDTPVNLPSGRKRMFSKELRCMMYGFGDDRNPYTESVDILED---- 153
D N+ R ELR ++ PY + +L +
Sbjct: 203 QKLLYQIDPNWTSRSDHSSNIKL-RIHSIQAELRRLLK-----SKPYENCLLVLLNVQNA 256
Query: 154 AVID-FLVD----MTQKAMEMGRTGRVQVEDIVFLVRKDNRKYARVKDLLTMNEELK 205
+ F + +T T QV D + + LT +E
Sbjct: 257 KAWNAFNLSCKILLT--------TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS 305
Score = 34.1 bits (77), Expect = 0.036
Identities = 27/161 (16%), Positives = 53/161 (32%), Gaps = 41/161 (25%)
Query: 61 DILEDAVIDFLVDMTQKAMEMGRTGPTFLSLLKFKSNKNVCVFSFQFEEEEQDTPVNLP- 119
DIL F+ + K ++ K++ +EE D +
Sbjct: 20 DILSVFEDAFVDNFDCKDVQ--------------DMPKSI------LSKEEIDHIIMSKD 59
Query: 120 --SGRKRMFSKELRCMMYGFGDDRNPYTESVDILEDAVIDFLVDMTQ---KAMEMGRTGR 174
SG R+F L + V+ + FL+ + + M
Sbjct: 60 AVSGTLRLFWTLLS-------KQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMY 112
Query: 175 VQVEDIVFLVRKDNRKYA-----RVKDLLTMNEELKKARKA 210
++ D ++ DN+ +A R++ L + + L + R A
Sbjct: 113 IEQRDRLY---NDNQVFAKYNVSRLQPYLKLRQALLELRPA 150
>1tmo_A TMAO reductase, trimethylamine N-oxide reductase; oxidoreductase,
oxotransferase, molybdoenzyme, MO-cofactor, molybdenum;
HET: 2MD; 2.50A {Shewanella massilia} SCOP: b.52.2.2
c.81.1.1
Length = 829
Score = 34.0 bits (78), Expect = 0.031
Identities = 18/115 (15%), Positives = 37/115 (32%), Gaps = 11/115 (9%)
Query: 48 GFGDDRNPYTESVDILEDAVIDFLVDMTQKAMEMGRTGPTFLSL-----LKFKSNKNVCV 102
G YT ++ E ++ L + + A P F + + F +
Sbjct: 563 GKEK---EYTRNMG--EMEWLETLYNECKAANAGKFEMPDFATFWKQGYVHFGDGEVWTR 617
Query: 103 FSFQFEEEEQDTPVNLPSGRKRMFSKELRCMMYGFGDDRNPYTESVDILEDAVID 157
+ F + + P+ PSG +FS+++ Y + E +
Sbjct: 618 HA-DFRNDPEINPLGTPSGLIEIFSRKIDQFGYDDCKGHPTWMEKTERSHGGPGS 671
>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 = 31.6 bits (71), Expect = 0.24
Identities = 40/233 (17%), Positives = 69/233 (29%), Gaps = 111/233 (47%)
Query: 24 QDTPVN---LPSGRKRMFS------KELRCMMYGFGDDRN---PYTESVDILEDAVID-- 69
+D+ N +PS M S ++++ + + N P + V+I ++++
Sbjct: 325 EDSLENNEGVPS---PMLSISNLTQEQVQDYV----NKTNSHLPAGKQVEI---SLVNGA 374
Query: 70 --FLVDMTQKAMEMGRTGPTFLSL---------LKFKSNKNVC---------VFSFQFEE 109
+V +GP SL K S + FS +F
Sbjct: 375 KNLVV-----------SGPP-QSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRF-- 420
Query: 110 EEQDTPVNLP-----------------SGRKRMFS-KELRCMMYGFGDDRNPYTESVDIL 151
PV P F+ K+++ +Y D + S I
Sbjct: 421 ----LPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSIS 476
Query: 152 EDAV---------------------IDF-------LVDMTQKAMEMGRTG-RV 175
E V +DF L +T + + G TG RV
Sbjct: 477 ERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKD-G-TGVRV 527
Score = 30.4 bits (68), Expect = 0.49
Identities = 25/126 (19%), Positives = 40/126 (31%), Gaps = 37/126 (29%)
Query: 4 DQFK---SNKNVCVFSFQFEEEEQDTPVNLP-----------------SGRKRMFS-KEL 42
DQ + S + + FS +F PV P F+ K++
Sbjct: 403 DQSRIPFSERKL-KFSNRF------LPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDI 455
Query: 43 RCMMYGFGDDRNPYTESVDILE---DAVIDFLVDMTQKAMEMGRT-----GPTFLSLLKF 94
+ +Y D + S I E D +I V + T GP S L
Sbjct: 456 QIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWE-TTTQFKATHILDFGPGGASGLGV 514
Query: 95 KSNKNV 100
+++N
Sbjct: 515 LTHRNK 520
>2hxw_A Major antigenic peptide PEB3; periplasmic binding protein,
N-glycosylation, structural genomics; HET: FLC; 1.60A
{Campylobacter jejuni} PDB: 3fjm_A 3fjg_A 3fir_A*
3fj7_A*
Length = 237
Score = 27.4 bits (61), Expect = 3.5
Identities = 12/57 (21%), Positives = 20/57 (35%), Gaps = 11/57 (19%)
Query: 150 ILEDAVIDFL---VDMTQKAMEMGRTGRVQVE------DIVFLVRKDNRKYARVKDL 197
+DA I F A + G+ V + + L +K N ++K L
Sbjct: 44 AKKDADILFGASDQSALAIASDFGKDFNVSKIKPLYFREAIILTQKGNPL--KIKGL 98
>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA
repair, DNA recombina hydrolase; 2.90A {Pyrococcus
furiosus} SCOP: c.37.1.19 c.37.1.19
Length = 494
Score = 27.5 bits (60), Expect = 4.1
Identities = 28/210 (13%), Positives = 63/210 (30%), Gaps = 37/210 (17%)
Query: 30 LPSGRKRMFSKELRCMMYGFGDDRNPYTESVDILEDAVIDFLVDMTQKAMEMGRTGPTFL 89
L + ++ + ++ +I D + + + +A E+G P
Sbjct: 289 LETQGLSALRAYIKKLYEEAKAGSTKASK--EIFSDKRMKKAISLLVQAKEIGLDHPKMD 346
Query: 90 SLLK-----FKSNKNVCVFSFQFEEEEQDTPVNL----------------PSGRKRMFSK 128
L + + +N + F E VN + + +
Sbjct: 347 KLKEIIREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQR 406
Query: 129 ELRCMMYGFGDDRNPYTESVDILE--------DAVIDFLVDMTQKAME----MGRTGRVQ 176
E + ++ F + + E D V+ + + A+ GRTGR
Sbjct: 407 EQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFY--EPVPSAIRSIQRRGRTGRHM 464
Query: 177 VEDIVFLVRKDNRKYARVKDLLTMNEELKK 206
++ L+ K R A + +++
Sbjct: 465 PGRVIILMAKGTRDEAYYWSSRQKEKIMQE 494
>2kw0_A CCMH protein; oxidoreductase, cytochrome C maturation; NMR
{Escherichia coli}
Length = 90
Score = 25.3 bits (56), Expect = 6.3
Identities = 9/33 (27%), Positives = 16/33 (48%), Gaps = 7/33 (21%)
Query: 14 VFSFQFEEEEQDTPVNLPSGRKRMFSKELRCMM 46
+ QF++E Q+ + R ++ELRC
Sbjct: 3 IDVLQFKDEAQEQ-------QFRQLTEELRCPK 28
Score = 25.3 bits (56), Expect = 6.3
Identities = 9/33 (27%), Positives = 16/33 (48%), Gaps = 7/33 (21%)
Query: 102 VFSFQFEEEEQDTPVNLPSGRKRMFSKELRCMM 134
+ QF++E Q+ + R ++ELRC
Sbjct: 3 IDVLQFKDEAQEQ-------QFRQLTEELRCPK 28
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
0.321 0.136 0.388
Gapped
Lambda K H
0.267 0.0726 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,446,941
Number of extensions: 210078
Number of successful extensions: 566
Number of sequences better than 10.0: 1
Number of HSP's gapped: 561
Number of HSP's successfully gapped: 19
Length of query: 220
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 130
Effective length of database: 4,188,903
Effective search space: 544557390
Effective search space used: 544557390
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: 55 (25.0 bits)