RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7155
(169 letters)
>1dp7_P MHC class II transcription factor HRFX1; winged helix, protein- DNA
conovel mode of DNA recognition, transcription/DNA
complex; HET: DNA BRU; 1.50A {Synthetic} SCOP: a.4.5.20
Length = 76
Score = 99.6 bits (248), Expect = 2e-28
Identities = 51/62 (82%), Positives = 57/62 (91%)
Query: 88 TVQWLIDNYETAEGVSLPRSSLFNHYIRHCAENKLDAVNAASFGKLIRSVFIGLRTRRLG 147
TVQWL+DNYETAEGVSLPRS+L+NHY+ H E KL+ VNAASFGKLIRSVF+GLRTRRLG
Sbjct: 1 TVQWLLDNYETAEGVSLPRSTLYNHYLLHSQEQKLEPVNAASFGKLIRSVFMGLRTRRLG 60
Query: 148 TR 149
TR
Sbjct: 61 TR 62
>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 = 47.7 bits (113), Expect = 5e-07
Identities = 39/188 (20%), Positives = 60/188 (31%), Gaps = 66/188 (35%)
Query: 8 PAQLIGNVNGTYLIQQTVEPTEHATIIATTASRDSPHENTEVA-----YIVDEPAQATTA 62
P +L + G Q + T A IA T S +S + A +I + A
Sbjct: 260 PGELRSYLKGATGHSQGL-VT--AVAIAETDSWESFFVSVRKAITVLFFIG---VRCYEA 313
Query: 63 TSNTGDPLSPDN-QASLSH----------VTKISPATVQWLID--NYETAEG----VSL- 104
NT L P + SL + ++ ++ VQ ++ N G +SL
Sbjct: 314 YPNTS--LPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLV 371
Query: 105 ----------PRSSL--FNHYIRH-CAENKLDAVNAASFGKLIRSVFIGLRTRRLGTRR- 150
P SL N +R A + LD ++R + R
Sbjct: 372 NGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLD------------------QSRIPFSERK 413
Query: 151 ---GWRFL 155
RFL
Sbjct: 414 LKFSNRFL 421
Score = 34.3 bits (78), Expect = 0.015
Identities = 32/176 (18%), Positives = 52/176 (29%), Gaps = 56/176 (31%)
Query: 4 VSNAPAQLI---GNVNGTYLIQQTVEPTEHATIIATTASRDSPHENTEVA--YIVDEPAQ 58
V N P L G G + + + + E E + Y
Sbjct: 1665 VINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKG 1724
Query: 59 ATTATSNTGDPLSPDNQASLSHVTKISPA--TVQWLIDNYET--AEGVSLPRSSLF-NH- 112
+AT T Q PA ++ +E ++G+ +P + F H
Sbjct: 1725 LLSATQFT--------Q----------PALTLMEKAA--FEDLKSKGL-IPADATFAGHS 1763
Query: 113 ---YIRHCAENKLDAV-NAASFGKLIRSVFIGLRTRRLGTRRGWRFLSSSQSALTR 164
Y A L ++ + S L+ VF RG + Q A+ R
Sbjct: 1764 LGEY---AA---LASLADVMSIESLVEVVFY----------RG-MTM---QVAVPR 1799
Score = 31.6 bits (71), Expect = 0.14
Identities = 29/131 (22%), Positives = 40/131 (30%), Gaps = 37/131 (28%)
Query: 26 EPTEHATIIATTASRDSPHENTE-----VAYIVD--EPAQATTATSNTGDPLSPDNQ--- 75
EPTE A+ D P E + Y+ EP++ L+
Sbjct: 43 EPTE------GFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYL 96
Query: 76 ---------ASLSHVTKISPATVQWLIDNYETAEGVS------LPRSSLFNHYIRHCAEN 120
A L + + LI NY TA ++ S+LF R E
Sbjct: 97 EGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALF----RAVGEG 152
Query: 121 KLDAVNAASFG 131
A A FG
Sbjct: 153 N--AQLVAIFG 161
>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 = 29.5 bits (66), Expect = 0.58
Identities = 16/74 (21%), Positives = 27/74 (36%), Gaps = 16/74 (21%)
Query: 31 ATIIATTASRDSPHENTEVA---YIVDEPAQATTATSNTGDPLSPDNQASLSHVTKISPA 87
A ++ TT SR S + T+ Y A + + P NQ S V A
Sbjct: 502 AKVVVTT-SRFS-KQVTDYYQSIY-------AKYGAKGSTLIVVPFNQGSKQDVE----A 548
Query: 88 TVQWLIDNYETAEG 101
++++ D +
Sbjct: 549 LIEFIYDTEKNGGL 562
>1x9m_A DNA polymerase; DNA ploymerase, N-2-acetylaminofluorene,
replication block, mutagenesis, transferase/electron
transport/DNA complex; HET: DNA 2DT 8FG; 2.10A
{Enterobacteria phage T7} SCOP: c.55.3.5 e.8.1.1 PDB:
1skr_A* 1skw_A* 1sl0_A* 1sks_A* 1sl2_A* 1t7p_A* 1t8e_A*
1tk0_A* 1tk5_A* 1tk8_A* 1tkd_A* 1sl1_A* 1x9s_A* 1x9w_A*
1zyq_A* 2ajq_A*
Length = 698
Score = 28.3 bits (63), Expect = 1.4
Identities = 9/40 (22%), Positives = 14/40 (35%), Gaps = 3/40 (7%)
Query: 130 FGKLIRSVFIGLRTRRLGTRRGWRFLSS--SQSALTRVIA 167
+G+ R+ F T + W S L R +A
Sbjct: 441 YGEQCRAAFGAEHHLDGITGKPWVQAGIDASGLEL-RCLA 479
>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA
translocation, nucleotide-binding, DNA-binding; 3.00A
{Bovine papillomavirus type 1} PDB: 2gxa_A*
Length = 305
Score = 26.8 bits (59), Expect = 3.8
Identities = 10/44 (22%), Positives = 14/44 (31%), Gaps = 10/44 (22%)
Query: 89 VQWLIDNYETAEGVSLPRSSLFNHYIRHCAENKLDAVNAASFGK 132
VQW D+ E S + Y + NA +F
Sbjct: 17 VQWAYDHKYAEE------SKIAYEYALAAGSDS----NARAFLA 50
>1oga_E TRBC1, T-cell receptor beta chain C region; immune system/receptor,
immune system/receptor/complex, TCR, MHC,
immunodominance, FLU, complex; 1.40A {Homo sapiens}
SCOP: b.1.1.1 b.1.1.2 PDB: 2vlm_E 2vlk_E 2vlj_E 2vlr_E
2xna_B 2xn9_B 2axh_A 2axj_A 3scm_D* 3sda_D* 3sdc_D*
3sdd_D* 3qi9_D* 3mff_B* 2ak4_E 3he7_D* 2eyr_B 3pqy_E
3kxf_E 2cde_B ...
Length = 252
Score = 26.5 bits (58), Expect = 4.6
Identities = 11/43 (25%), Positives = 17/43 (39%), Gaps = 3/43 (6%)
Query: 70 LSPDNQASLS-HVTKISP--ATVQWLIDNYETAEGVSLPRSSL 109
+S +A+L T P + W ++ E GVS L
Sbjct: 135 ISHTQKATLVCLATGFYPDHVELSWWVNGKEVHSGVSTDPQPL 177
>3tx7_B Nuclear receptor subfamily 5 group A member 2; LRH-1, beta-catenin,
armadillo repeat, nuclear receptor LIGA binding domain,
protein binding; HET: P6L; 2.76A {Homo sapiens}
Length = 352
Score = 26.1 bits (57), Expect = 7.2
Identities = 17/110 (15%), Positives = 33/110 (30%)
Query: 27 PTEHATIIATTASRDSPHENTEVAYIVDEPAQATTATSNTGDPLSPDNQASLSHVTKISP 86
P + I T S + ++ T P S + + SP
Sbjct: 50 PFVTSPISMTMPPHGSLQGYQTYGHFPSRAIKSEYPDPYTSSPESIMGYSYMDSYQTSSP 109
Query: 87 ATVQWLIDNYETAEGVSLPRSSLFNHYIRHCAENKLDAVNAASFGKLIRS 136
A++ LI E + Y++ N+ ++FG + +
Sbjct: 110 ASIPHLILELLKCEPDEPQVQAKIMAYLQQEQANRSKHEKLSTFGLMCKM 159
>3maj_A DNA processing chain A; MCSG, PSI-2, structural genomics, protein
structure initiati midwest center for structural
genomics; HET: DNA; 2.05A {Rhodopseudomonas palustris}
Length = 382
Score = 26.1 bits (58), Expect = 7.2
Identities = 11/74 (14%), Positives = 24/74 (32%), Gaps = 8/74 (10%)
Query: 59 ATTATSNTGDPLSPDNQAS---LSHVTKISPATVQWLIDNYETAEGV-----SLPRSSLF 110
++ L+ + L + P T + LI+++ +A L R
Sbjct: 6 GERSSDQGTTVLTEAQRIDWMRLIRAENVGPRTFRSLINHFGSARAALERLPELARRGGA 65
Query: 111 NHYIRHCAENKLDA 124
R +E++
Sbjct: 66 ARAGRIPSEDEARR 79
>3nfj_J T cell receptor beta chain; immunoglobulin family, immune system;
2.68A {Homo sapiens} PDB: 3hg1_E
Length = 245
Score = 25.6 bits (56), Expect = 8.2
Identities = 12/87 (13%), Positives = 16/87 (18%), Gaps = 15/87 (17%)
Query: 38 ASRDSPHENTEVAY-------IVDEPAQATTATSNTGDPLSPDNQASLSHVT-------- 82
A S Y V E S + T
Sbjct: 92 AWSVSVGAGVPTIYFGEGSWLTVVEDLNKVFPPEVAVFEPSEAEISHTQKATLVCLATGF 151
Query: 83 KISPATVQWLIDNYETAEGVSLPRSSL 109
+ W ++ E GV L
Sbjct: 152 FPDHVELSWWVNGKEVHSGVCTDPQPL 178
>1keh_A Precursor of cephalosporin acylase; glutaryl-7-ACA, hydrolase;
2.50A {Brevundimonas diminuta} SCOP: d.153.1.2 PDB:
3s8r_A 1oqz_A
Length = 689
Score = 25.7 bits (56), Expect = 9.9
Identities = 4/57 (7%), Positives = 13/57 (22%), Gaps = 9/57 (15%)
Query: 31 ATIIATTASRDSPHENTEVA---YIVD----EPAQATTATSNTGDPLSP--DNQASL 78
+ + +++ A + N+ P + +Q
Sbjct: 605 RVFTWSDPDENGIRTPVHGETWVAMIEFSTPVRAYGLMSYGNSRQPGTTHYSDQIER 661
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
0.314 0.127 0.361
Gapped
Lambda K H
0.267 0.0623 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,308,735
Number of extensions: 120464
Number of successful extensions: 326
Number of sequences better than 10.0: 1
Number of HSP's gapped: 326
Number of HSP's successfully gapped: 18
Length of query: 169
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 82
Effective length of database: 4,272,666
Effective search space: 350358612
Effective search space used: 350358612
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 54 (24.8 bits)