RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16493
(151 letters)
>1pdn_C Protein (PRD paired); protein-DNA complex, double helix, PAX,
paired domain, DNA-binding protein, gene regulation/DNA
complex; HET: DNA; 2.50A {Drosophila melanogaster} SCOP:
a.4.1.5
Length = 128
Score = 70.1 bits (171), Expect = 2e-16
Identities = 37/93 (39%), Positives = 56/93 (60%), Gaps = 10/93 (10%)
Query: 41 PLASLVNQQQRLLF----RHYDIAQHVLHQQQGAVSKLLGTLR-----PPGLIGGSKPKV 91
PL + + + + R I++ L G VSK+L + PG+IGGSKP++
Sbjct: 17 PLPNNIRLKIVEMAADGIRPCVISRQ-LRVSHGCVSKILNRYQETGSIRPGVIGGSKPRI 75
Query: 92 ATPAVVSKIEQYKRENPTIFAWEIRERLISEDV 124
ATP + ++IE+YKR +P +F+WEIRE+LI E V
Sbjct: 76 ATPEIENRIEEYKRSSPGMFSWEIREKLIREGV 108
>1k78_A Paired box protein PAX5; paired domain, ETS domain, transcription
factor, transcription/DNA complex; 2.25A {Homo sapiens}
SCOP: a.4.1.5 a.4.1.5 PDB: 1mdm_A 6pax_A
Length = 149
Score = 68.7 bits (167), Expect = 9e-16
Identities = 42/75 (56%), Positives = 53/75 (70%), Gaps = 6/75 (8%)
Query: 55 RHYDIAQHVLHQQQGAVSKLLGTLR-----PPGLIGGSKPKVATPAVVSKIEQYKRENPT 109
R DI++ + G VSK+LG PG+IGGSKPKVATP VV KI +YKR+NPT
Sbjct: 50 RPCDISRQLR-VSHGCVSKILGRYYETGSIKPGVIGGSKPKVATPKVVEKIAEYKRQNPT 108
Query: 110 IFAWEIRERLISEDV 124
+FAWEIR+RL++E V
Sbjct: 109 MFAWEIRDRLLAERV 123
>2k27_A Paired box protein PAX-8; paired domain, solution structure, triple
frequency, 3D NMR, induced FIT, alternative splicing,
developmental protein; NMR {Homo sapiens}
Length = 159
Score = 66.4 bits (161), Expect = 8e-15
Identities = 42/75 (56%), Positives = 52/75 (69%), Gaps = 6/75 (8%)
Query: 55 RHYDIAQHVLHQQQGAVSKLLGTLR-----PPGLIGGSKPKVATPAVVSKIEQYKRENPT 109
R DI++ + G VSK+LG PG+IGGSKPKVATP VV KI YKR+NPT
Sbjct: 43 RPCDISRQLR-VSHGCVSKILGRYYETGSIRPGVIGGSKPKVATPKVVEKIGDYKRQNPT 101
Query: 110 IFAWEIRERLISEDV 124
+FAWEIR+RL++E V
Sbjct: 102 MFAWEIRDRLLAEGV 116
>1ic8_A Hepatocyte nuclear factor 1-alpha; transcription regulation,
DNA-binding, POU domain, diabetes, disease mutation,
MODY3, transcription/DNA comple; 2.60A {Homo sapiens}
SCOP: a.4.1.1 a.35.1.1
Length = 194
Score = 41.0 bits (95), Expect = 4e-05
Identities = 6/39 (15%), Positives = 15/39 (38%)
Query: 98 SKIEQYKRENPTIFAWEIRERLISEDVGVNGLALQTPPR 136
+ +E +E+P A ++ L ++ + T
Sbjct: 18 AVVETLLQEDPWRVAKMVKSYLQQHNIPQREVVDTTGLN 56
>2h8r_A Hepatocyte nuclear factor 1-beta; trasncription factor, POU, homeo,
protein-DNA, human disease; 3.20A {Homo sapiens}
Length = 221
Score = 38.1 bits (87), Expect = 4e-04
Identities = 5/39 (12%), Positives = 16/39 (41%)
Query: 98 SKIEQYKRENPTIFAWEIRERLISEDVGVNGLALQTPPR 136
+++++ E+P A I+ + ++ + T
Sbjct: 19 AEVDRMLSEDPWRAAKMIKGYMQQHNIPQREVVDVTGLN 57
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 34.5 bits (78), Expect = 0.005
Identities = 9/34 (26%), Positives = 16/34 (47%), Gaps = 7/34 (20%)
Query: 66 QQQGAVSKLLGTLRP--PGLIGGSKPKVATPAVV 97
++Q A+ KL +L+ S P +A A +
Sbjct: 18 EKQ-ALKKLQASLKLYAD----DSAPALAIKATM 46
>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 = 31.2 bits (70), Expect = 0.11
Identities = 16/90 (17%), Positives = 31/90 (34%), Gaps = 21/90 (23%)
Query: 4 VFVDFPEEQYWILRHLTLFNKLIGSLRELYALAASQQPLASLVNQQQRLLFRHYDIAQHV 63
+F E Y L +++ALAA + + L ++Y A+ +
Sbjct: 87 CLTEF-ENCY--LEG-----------NDIHALAAKLLQENDTTLVKTKELIKNYITARIM 132
Query: 64 LHQ--QQGAVSKLL-----GTLRPPGLIGG 86
+ + + S L G + + GG
Sbjct: 133 AKRPFDKKSNSALFRAVGEGNAQLVAIFGG 162
Score = 30.0 bits (67), Expect = 0.28
Identities = 22/98 (22%), Positives = 36/98 (36%), Gaps = 12/98 (12%)
Query: 12 QYWILRHLTLFNK---LIG-SLRELY-ALAASQQ--PLASLVNQQQRLLFRHYDIAQHVL 64
+ L+ L G SL E Y ALA+ + SLV ++F Q +
Sbjct: 1743 AFEDLKSKGLIPADATFAGHSLGE-YAALASLADVMSIESLV----EVVFYRGMTMQVAV 1797
Query: 65 HQQQGAVSKLLGTLRPPGLIGGSKPKVATPAVVSKIEQ 102
+ + S PG + S + A VV ++ +
Sbjct: 1798 PRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGK 1835
Score = 26.6 bits (58), Expect = 4.9
Identities = 17/92 (18%), Positives = 30/92 (32%), Gaps = 31/92 (33%)
Query: 7 DFPEEQYWILRHLTLFNKLIGSLRELYALAASQQPLASLVNQQQRLLFRHYDIAQHVLHQ 66
+ P++ Y L + + LIG + LA HY + +L
Sbjct: 224 NTPDKDY--LLSIPISCPLIG----VIQLA-------------------HYVVTAKLLGF 258
Query: 67 QQGAVSKLLGTLRPPGLIGGSKPKVATPAVVS 98
G + L G G S+ + T ++
Sbjct: 259 TPGELRSYL-----KGATGHSQ-GLVTAVAIA 284
>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 = 26.4 bits (57), Expect = 4.8
Identities = 9/68 (13%), Positives = 21/68 (30%), Gaps = 9/68 (13%)
Query: 8 FPEEQYWILRHLTLFNKLIGSLRELYALAASQQPLASLVNQQQRLLFRHYDIAQHVLHQQ 67
+ +W+ N + + + Q L ++ H + +H
Sbjct: 180 MDFKIFWL-------N--LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSI 230
Query: 68 QGAVSKLL 75
Q + +LL
Sbjct: 231 QAELRRLL 238
>2j5c_A 1,8-cineole synthase; terpene synthases, 1, monoterpene, lyase;
1.95A {Salvia fruticosa}
Length = 569
Score = 25.5 bits (55), Expect = 9.4
Identities = 8/55 (14%), Positives = 22/55 (40%), Gaps = 1/55 (1%)
Query: 5 FVDFPEEQYWILRHLTLFNKLIGSLRELYALAASQQPLASLVNQQQRL-LFRHYD 58
+ + +Y +HL +I ++ + L++ +RL + H++
Sbjct: 49 TIQSFDSEYKEEKHLMRAAGMIDQVKMMLQEEVDSIRRLELIDDLRRLGISCHFE 103
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
0.320 0.137 0.401
Gapped
Lambda K H
0.267 0.0752 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,358,703
Number of extensions: 130596
Number of successful extensions: 260
Number of sequences better than 10.0: 1
Number of HSP's gapped: 258
Number of HSP's successfully gapped: 19
Length of query: 151
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 66
Effective length of database: 4,328,508
Effective search space: 285681528
Effective search space used: 285681528
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: 53 (24.1 bits)