RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9131
(78 letters)
>2i7t_A Cleavage and polyadenylation specificity factor 73 kDa subunit;
metallo-B-lactamase, PRE-mRNA processing, artemis, V(D)J
recombination; 2.10A {Homo sapiens} SCOP: d.157.1.10
PDB: 2i7v_A
Length = 459
Score = 35.7 bits (83), Expect = 4e-04
Identities = 23/84 (27%), Positives = 35/84 (41%), Gaps = 20/84 (23%)
Query: 10 TVGREC-------------CGKVFVDSAPEFQPPLSQLVDFSEVNMILISNYLSML---- 52
VGR C CG + P L+D +E++++LIS+ L
Sbjct: 22 EVGRSCIILEFKGRKIMLDCG-IHPGLEGMDALPYIDLIDPAEIDLLLISH--FHLDHCG 78
Query: 53 ALPFITEGTGFEGVVYATEPTLQI 76
ALP+ + T F+G + T T I
Sbjct: 79 ALPWFLQKTSFKGRTFMTHATKAI 102
>2i7x_A Protein CFT2; polyadenylation, metallo-B-lactamase, PRE-mRNA
processing, artemis, V(D)J recombination, double-strand
break repair; 2.50A {Saccharomyces cerevisiae} SCOP:
d.157.1.10
Length = 717
Score = 35.2 bits (80), Expect = 7e-04
Identities = 13/69 (18%), Positives = 24/69 (34%), Gaps = 7/69 (10%)
Query: 16 CGKVFVDSAPEFQPPLSQLVDFSEVNMILISNY----LSMLALPFITEGT--GFEGVVYA 69
G Q E+++I++S L +L + + VYA
Sbjct: 31 PG-WNPSKVSYEQCIKYWEKVIPEIDVIILSQPTIECLGAHSLLYYNFTSHFISRIQVYA 89
Query: 70 TEPTLQIGK 78
T P + +G+
Sbjct: 90 TLPVINLGR 98
>3af5_A Putative uncharacterized protein PH1404; archaeal CPSF, beta-CAsp
family, KH domain, ribonuclease, ME beta-lactamase
superfamily, archaea; 2.60A {Pyrococcus horikoshii} PDB:
3af6_A*
Length = 651
Score = 33.1 bits (76), Expect = 0.004
Identities = 8/24 (33%), Positives = 13/24 (54%)
Query: 53 ALPFITEGTGFEGVVYATEPTLQI 76
LP++ F+G +Y T PT +
Sbjct: 264 MLPYLFRYNLFDGPIYTTPPTRDL 287
>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 = 32.5 bits (73), Expect = 0.008
Identities = 13/61 (21%), Positives = 27/61 (44%), Gaps = 7/61 (11%)
Query: 18 KVFVDSAPEFQPPLSQLVDFS---EVNMILISNYLSMLALPFITEGTGFEGVVYATEPTL 74
D+ P+++ ++ ++DF E N+I S Y +L + + E E + +
Sbjct: 532 PYICDNDPKYERLVNAILDFLPKIEENLI-CSKYTDLLRIALMAED---EAIFEEAHKQV 587
Query: 75 Q 75
Q
Sbjct: 588 Q 588
>3iek_A Ribonuclease TTHA0252; metallo beta lactamase fold, endonuclease,
hydrolase, metal- nuclease, RNA-binding, rRNA
processing; HET: FLC; 2.05A {Thermus thermophilus} PDB:
2dkf_A* 3iel_A* 3iem_A* 2zdf_A* 3idz_A* 2zdd_A* 3ie0_A*
2zde_A* 3ie1_A* 2zdw_A* 3a4y_A* 2yvd_A* 3ie2_A*
Length = 431
Score = 30.5 bits (70), Expect = 0.026
Identities = 9/24 (37%), Positives = 13/24 (54%), Gaps = 1/24 (4%)
Query: 53 ALPFITEGTGFEGVVYATEPTLQI 76
LP + G+ G VYAT T+ +
Sbjct: 67 RLPKLFR-EGYRGPVYATRATVLL 89
>2ycb_A Beta-CAsp RNAse, cleavage and polyadenylation specificity factor;
hydrolase, KH, metallo-beta-lactamase; 3.10A
{Methanothermobacter thermautotrophicusorganism_taxid}
Length = 636
Score = 30.7 bits (70), Expect = 0.026
Identities = 9/24 (37%), Positives = 14/24 (58%), Gaps = 1/24 (4%)
Query: 53 ALPFITEGTGFEGVVYATEPTLQI 76
LP++ G++G VY T PT +
Sbjct: 250 FLPYLYH-YGYDGPVYCTAPTRDL 272
>2xr1_A Cleavage and polyadenylation specificity factor 1 subunit;
hydrolase, metallo-beta-lactamase, beta-CAsp, RNA
processing; 2.59A {Methanosarcina mazei}
Length = 640
Score = 30.3 bits (69), Expect = 0.035
Identities = 9/24 (37%), Positives = 14/24 (58%), Gaps = 1/24 (4%)
Query: 53 ALPFITEGTGFEGVVYATEPTLQI 76
+P + + G+EG VY T PT +
Sbjct: 253 LVPLLFK-YGYEGPVYCTPPTRDL 275
>2qyb_A Membrane protein, putative; GAF domain, domain of putative membrane
protein, PSI-2, MCSG structural genomics; 2.40A
{Geobacter sulfurreducens pca}
Length = 181
Score = 28.9 bits (65), Expect = 0.10
Identities = 7/66 (10%), Positives = 18/66 (27%)
Query: 4 ERMHRSTVGRECCGKVFVDSAPEFQPPLSQLVDFSEVNMILISNYLSMLALPFITEGTGF 63
G+ F+ + +F + ++ S +P +G
Sbjct: 63 AGKDWEPEIETYIGEAFLSNRLQFVNDTQYMTKPLTRELMQKEGIKSFAHIPISRKGEPP 122
Query: 64 EGVVYA 69
G++
Sbjct: 123 FGILSV 128
>3tlw_A GLR4197 protein, GLIC; Cys-loop receptor family, membrane
protein, transport protei; HET: LMT; 2.60A {Gloeobacter
violaceus} PDB: 3uu4_A* 3uub_A* 3tlv_A* 3uu6_A* 3uu5_A*
3uu3_A* 3tlu_A* 3uu8_A* 3tls_A* 3tlt_A* 3p4w_A* 3p50_A*
3eam_A* 3ehz_A 2xq4_A 2xq5_A 2xq6_A 2xq3_A 2xq8_A
2xqa_A ...
Length = 321
Score = 25.3 bits (56), Expect = 2.3
Identities = 4/22 (18%), Positives = 8/22 (36%), Gaps = 1/22 (4%)
Query: 31 LSQLVDFSEVNMILISN-YLSM 51
L + + N +LS+
Sbjct: 28 LIESYSLDDCAETFKVNAFLSL 49
>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 = 25.3 bits (54), Expect = 2.3
Identities = 5/9 (55%), Positives = 7/9 (77%), Gaps = 1/9 (11%)
Query: 18 KVFV-DSAP 25
K++ DSAP
Sbjct: 30 KLYADDSAP 38
>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 = 25.0 bits (54), Expect = 3.2
Identities = 16/91 (17%), Positives = 32/91 (35%), Gaps = 30/91 (32%)
Query: 2 DTE-----RMHRSTVGRECCGKVFV-----DSAPEFQPPLSQLVDF-----SEVNMILIS 46
DT R+ ++ + ++ +F+ + ++DF S + ++
Sbjct: 461 DTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKA--THILDFGPGGASGLGVLTHR 518
Query: 47 NYLSMLALPFITEGTGFEGVVYATEPTLQIG 77
N +GTG V+ A TL I
Sbjct: 519 N----------KDGTGVR-VIVAG--TLDIN 536
>2bj0_A Acetylcholine-binding protein; 3D-structure, glycoprotein,
glycprotein, IGG fold, immunoglobulin domain, pentamer,
signal; HET: CXS; 2.0A {Bulinus truncatus}
Length = 203
Score = 24.7 bits (54), Expect = 3.3
Identities = 2/22 (9%), Positives = 5/22 (22%)
Query: 26 EFQPPLSQLVDFSEVNMILISN 47
L +V+ +
Sbjct: 28 SLNFKLMNIVEADTEKDQVEVV 49
>3igq_A GLR4197 protein; plgic Cys-loop, membrane protein, transport
protein; 2.30A {Gloeobacter violaceus}
Length = 201
Score = 23.4 bits (51), Expect = 8.3
Identities = 4/22 (18%), Positives = 8/22 (36%), Gaps = 1/22 (4%)
Query: 31 LSQLVDFSEVNMILISN-YLSM 51
L + + N +LS+
Sbjct: 24 LIECYSLDDKAETFKVNAFLSL 45
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 0.137 0.403
Gapped
Lambda K H
0.267 0.0748 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,106,694
Number of extensions: 51025
Number of successful extensions: 77
Number of sequences better than 10.0: 1
Number of HSP's gapped: 77
Number of HSP's successfully gapped: 13
Length of query: 78
Length of database: 6,701,793
Length adjustment: 47
Effective length of query: 31
Effective length of database: 5,389,506
Effective search space: 167074686
Effective search space used: 167074686
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: 51 (23.4 bits)