RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8351
(103 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 = 125 bits (315), Expect = 1e-35
Identities = 66/80 (82%), Positives = 74/80 (92%)
Query: 1 MTHATKAIYRWLLSDYIKVSNISTEQMLYTESDLEKSMDKIETINFHEEKDVNGIKFSAY 60
MTHATKAIYRWLLSDY+KVSNIS + MLYTE+DLE+SMDKIETINFHE K+V GIKF Y
Sbjct: 95 MTHATKAIYRWLLSDYVKVSNISADDMLYTETDLEESMDKIETINFHEVKEVAGIKFWCY 154
Query: 61 NAGHVLGAAMFLIEIAGVKI 80
+AGHVLGAAMF+IEIAGVK+
Sbjct: 155 HAGHVLGAAMFMIEIAGVKL 174
>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 = 116 bits (294), Expect = 9e-33
Identities = 16/80 (20%), Positives = 37/80 (46%), Gaps = 4/80 (5%)
Query: 1 MTHATKAIYRWLLSDYIKVSNISTEQMLYTESDLEKSMDKIETINFHEEKDVNGIKFSAY 60
T AT + +L D +KV ++ + D+E+++ + + + E + + +
Sbjct: 82 ATRATVLLMEIVLEDALKVM----DEPFFGPEDVEEALGHLRPLEYGEWLRLGALSLAFG 137
Query: 61 NAGHVLGAAMFLIEIAGVKI 80
AGH+ G+A + + G +
Sbjct: 138 QAGHLPGSAFVVAQGEGRTL 157
>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 = 105 bits (265), Expect = 2e-28
Identities = 20/78 (25%), Positives = 44/78 (56%), Gaps = 1/78 (1%)
Query: 1 MTHATKAIYRWLLSDYIKVSNISTEQMLYTESDLEKSMDKIETINFHEEKDVN-GIKFSA 59
T T+ + L D+I++ + + LY D+++ + T+++ E +D++ I+ +
Sbjct: 280 TTPPTRDLMVLLQKDFIEIQQSNGQDPLYRPRDIKEVIKHTITLDYGEVRDISPDIRLTL 339
Query: 60 YNAGHVLGAAMFLIEIAG 77
+NAGH+LG+A+ + I
Sbjct: 340 HNAGHILGSAIVHLHIGN 357
>2ycb_A Beta-CAsp RNAse, cleavage and polyadenylation specificity factor;
hydrolase, KH, metallo-beta-lactamase; 3.10A
{Methanothermobacter thermautotrophicusorganism_taxid}
Length = 636
Score = 103 bits (260), Expect = 1e-27
Identities = 21/86 (24%), Positives = 45/86 (52%), Gaps = 2/86 (2%)
Query: 1 MTHATKAIYRWLLSDYIKVSNISTEQMLYTESDLEKSMDKIETINFHEEKDVN-GIKFSA 59
T T+ + L D+I +++ E + + ++KS+ T+++ E D+ I+ +
Sbjct: 265 CTAPTRDLMTLLQLDHIDIAHREDEPLPFNVKHVKKSVKHTITLDYGEVTDIAPDIRLTL 324
Query: 60 YNAGHVLGAAMFLIEIAGVKIARYLF 85
+NAGH+LG+AM + I + ++
Sbjct: 325 HNAGHILGSAMAHLHIGDGQH-NMVY 349
>2xr1_A Cleavage and polyadenylation specificity factor 1 subunit;
hydrolase, metallo-beta-lactamase, beta-CAsp, RNA
processing; 2.59A {Methanosarcina mazei}
Length = 640
Score = 101 bits (253), Expect = 1e-26
Identities = 21/77 (27%), Positives = 39/77 (50%), Gaps = 1/77 (1%)
Query: 1 MTHATKAIYRWLLSDYIKVSNISTEQMLYTESDLEKSMDKIETINFHEEKDVN-GIKFSA 59
T T+ + L DYI V+ +++ Y + K++ +++ E D+ IK +
Sbjct: 268 CTPPTRDLMVLLQLDYIDVAAKEGKKIPYESGMVAKTLKHTIPLDYEEVTDIAPDIKLTF 327
Query: 60 YNAGHVLGAAMFLIEIA 76
+NAGH+LG+A+ I
Sbjct: 328 HNAGHILGSAISHFHIG 344
>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 = 88.7 bits (219), Expect = 3e-22
Identities = 18/87 (20%), Positives = 32/87 (36%), Gaps = 6/87 (6%)
Query: 1 MTHATKAIYRWLLSDYIKVSNISTE--QMLYTESDLEKSMDKIETINFHEEKDV----NG 54
T + R D + + D+E S D I + + + D+ +G
Sbjct: 89 ATLPVINLGRVSTIDSYASAGVIGPYDTNKLDLEDIEISFDHIVPLKYSQLVDLRSRYDG 148
Query: 55 IKFSAYNAGHVLGAAMFLIEIAGVKIA 81
+ AYNAG G +++ I K+
Sbjct: 149 LTLLAYNAGVCPGGSIWCISTYSEKLV 175
>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 = 33.1 bits (75), Expect = 0.011
Identities = 15/47 (31%), Positives = 19/47 (40%), Gaps = 11/47 (23%)
Query: 46 FHEEKDVNGIKFSAYNAGHVLG--AAMFLIEIAGV-------KIARY 83
F + K I A AGH LG AA L +A V ++ Y
Sbjct: 1744 FEDLKSKGLIPADATFAGHSLGEYAA--LASLADVMSIESLVEVVFY 1788
>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 = 27.9 bits (62), Expect = 0.53
Identities = 11/57 (19%), Positives = 16/57 (28%), Gaps = 7/57 (12%)
Query: 15 DYIKVSNISTEQMLYTESDLEKSMDKIETINFHEEKDVNGIKFSA--YNAGHVLGAA 69
ST+ ES M + + N + + GH GAA
Sbjct: 1338 GVASFHGTSTKANDKNESATINEM-----MKHLGRSEGNPVIGVFQKFLTGHPKGAA 1389
>1vjn_A Zn-dependent hydrolase of metallo-beta-lactamase superfamily
TM0207; metallo-hydrolase/oxidoreductase fold,
structural genomics; 2.00A {Thermotoga maritima} SCOP:
d.157.1.4
Length = 220
Score = 26.9 bits (60), Expect = 1.3
Identities = 10/46 (21%), Positives = 16/46 (34%), Gaps = 7/46 (15%)
Query: 42 ETINFHEEKDVNGIKFSAYNAGH-------VLGAAMFLIEIAGVKI 80
I+ VNG+K H +F+ E G+K+
Sbjct: 73 RVIDRPGAYTVNGVKIKGVETFHDPSHGRERGKNIVFVFEGEGIKV 118
>1oth_A Protein (ornithine transcarbamoylase); transferase; HET: PAO; 1.85A
{Homo sapiens} SCOP: c.78.1.1 c.78.1.1 PDB: 1ep9_A
1fvo_A 1c9y_A* 1fb5_A
Length = 321
Score = 25.6 bits (57), Expect = 3.7
Identities = 5/15 (33%), Positives = 7/15 (46%)
Query: 3 HATKAIYRWLLSDYI 17
A+ LL+DY
Sbjct: 299 WTIMAVMVSLLTDYS 313
>4a8p_A Putrescine carbamoyltransferase; ornithine agmatine deiminase
route; HET: PAO; 2.00A {Enterococcus faecalis} PDB:
4a8h_A* 3txx_A
Length = 355
Score = 24.9 bits (55), Expect = 5.9
Identities = 6/38 (15%), Positives = 17/38 (44%)
Query: 3 HATKAIYRWLLSDYIKVSNISTEQMLYTESDLEKSMDK 40
+ + + +L++DY + + + +LE +D
Sbjct: 299 TSIRGLLVYLMNDYEAKNPYDLIKQAEAKKELEVFLDT 336
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 0.133 0.385
Gapped
Lambda K H
0.267 0.0784 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,527,818
Number of extensions: 77331
Number of successful extensions: 201
Number of sequences better than 10.0: 1
Number of HSP's gapped: 195
Number of HSP's successfully gapped: 19
Length of query: 103
Length of database: 6,701,793
Length adjustment: 68
Effective length of query: 35
Effective length of database: 4,803,165
Effective search space: 168110775
Effective search space used: 168110775
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 (23.3 bits)