RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12375
(216 letters)
>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 = 41.6 bits (97), Expect = 1e-04
Identities = 36/234 (15%), Positives = 68/234 (29%), Gaps = 84/234 (35%)
Query: 10 DHDF----DFHT---HLLSNVSNERLIRVKKQIYTPPYQTNRNGYQPSYNSANQQSNQIS 62
++ + D H LL ++ L++ K+ I +N Y +A + +
Sbjct: 92 ENCYLEGNDIHALAAKLLQE-NDTTLVKTKELI--------KN-----YITARIMAKR-- 135
Query: 63 FLNPPYRQNYGPTSNRYAPATFRSGGLYNDYYVISEGRLREIRAEFLYWFFDRGGDDNEG 122
P + A FR+ + EG + L F GG N
Sbjct: 136 -----------PFDKKSNSALFRA---------VGEGNAQ------LVAIF--GGQGNTD 167
Query: 123 DYQK---DIHNSSPQ-----IHKNFNFQLPFFGFRFNYTRVSRHGY-----LEFSD--PP 167
DY + D++ + I + + +V G LE P
Sbjct: 168 DYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPD 227
Query: 168 DHF--TYPLSFPNKDWPKKNDPSFIGI-----FYSKCRIGSIRTTDIDQRTPGV 214
+ + P+S P IG+ + ++ ++ G
Sbjct: 228 KDYLLSIPISCP-----------LIGVIQLAHYVVTAKLLGFTPGELRSYLKGA 270
Score = 31.2 bits (70), Expect = 0.31
Identities = 34/154 (22%), Positives = 50/154 (32%), Gaps = 44/154 (28%)
Query: 2 RIPADHQ---CDHDFD-----FHTHLLSNVS---NERLIRVK-----KQIYTPPYQTNRN 45
RIP + + F FH+HLL S N+ L++ K I P Y T +
Sbjct: 406 RIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDT-FD 464
Query: 46 GYQPSYNSANQQSN---QI----------SFLNPPYRQNYGPTSNRYAPATFRSGGLYND 92
G S + I + + ++GP G L +
Sbjct: 465 GSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPG------GASGLGVLTHR 518
Query: 93 YYVISEGR-LREIRAEFLYWFFDRGGDDNEGDYQ 125
+G +R I A L D DD+ G Q
Sbjct: 519 ---NKDGTGVRVIVAGTL----DINPDDDYGFKQ 545
Score = 26.6 bits (58), Expect = 9.6
Identities = 11/54 (20%), Positives = 18/54 (33%), Gaps = 20/54 (37%)
Query: 158 HGYLEFSDP-P-----------DHFTYPLSFPNKDWPKKNDPS--------FIG 191
HG LE P + F L P + + ++P+ F+G
Sbjct: 13 HGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLG 66
>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription,
mRNA, multiprotein complex; HET: UTP; 2.30A
{Saccharomyces cerevisiae} SCOP: e.29.1.2 PDB: 1i3q_A
1i6h_A 1k83_A* 1nik_A 1nt9_A 1pqv_A 1r5u_A 1r9s_A*
1r9t_A* 1sfo_A* 1twa_A* 1twc_A* 1i50_A* 1twg_A* 1twh_A*
1wcm_A 1y1v_A 1y1w_A 1y1y_A 1y77_A* ...
Length = 1733
Score = 32.4 bits (73), Expect = 0.11
Identities = 16/61 (26%), Positives = 23/61 (37%), Gaps = 3/61 (4%)
Query: 36 YTPPYQTNRNGYQPSYNSANQQSNQISFLNPPYR---QNYGPTSNRYAPATFRSGGLYND 92
+P Y Y P+ S + S S +P Y +Y PTS Y+P +
Sbjct: 1587 TSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPS 1646
Query: 93 Y 93
Y
Sbjct: 1647 Y 1647
Score = 29.7 bits (66), Expect = 0.83
Identities = 15/49 (30%), Positives = 20/49 (40%), Gaps = 3/49 (6%)
Query: 38 PPYQTNRNGYQPSYNSANQQSNQISFLNPPYRQN---YGPTSNRYAPAT 83
P Y Y P+ S + S S +P Y Y PTS Y+P +
Sbjct: 1631 PSYSPTSPSYSPTSPSYSPTSPSYSPTSPAYSPTSPSYSPTSPSYSPTS 1679
Score = 29.7 bits (66), Expect = 0.84
Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 3/50 (6%)
Query: 37 TPPYQTNRNGYQPSYNSANQQSNQISFLNPPYRQ---NYGPTSNRYAPAT 83
+P Y Y P+ S + S S +P Y +Y PTS Y+P +
Sbjct: 1609 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTS 1658
Score = 27.8 bits (61), Expect = 3.3
Identities = 14/50 (28%), Positives = 20/50 (40%), Gaps = 3/50 (6%)
Query: 36 YTPPYQTNRNGY---QPSYNSANQQSNQISFLNPPYRQNYGPTSNRYAPA 82
+P Y Y PSY+ + + S P +Y PTS Y+P
Sbjct: 1566 TSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPT 1615
Score = 27.0 bits (59), Expect = 5.7
Identities = 12/45 (26%), Positives = 20/45 (44%)
Query: 39 PYQTNRNGYQPSYNSANQQSNQISFLNPPYRQNYGPTSNRYAPAT 83
P + + PSY+ + + S P +Y PTS Y+P +
Sbjct: 1565 PTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTS 1609
Score = 27.0 bits (59), Expect = 7.3
Identities = 14/59 (23%), Positives = 22/59 (37%)
Query: 39 PYQTNRNGYQPSYNSANQQSNQISFLNPPYRQNYGPTSNRYAPATFRSGGLYNDYYVIS 97
P + + PSY+ + + S P +Y PTS Y+P + Y S
Sbjct: 1579 PTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTS 1637
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 30.8 bits (69), Expect = 0.41
Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 3/48 (6%)
Query: 37 TPPYQTNRNGYQPSYNSANQQSNQISFLNPPYR---QNYGPTSNRYAP 81
+P Y Y P+ S + S S +P Y +Y PTS Y+P
Sbjct: 1673 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSP 1720
Score = 30.0 bits (67), Expect = 0.60
Identities = 15/56 (26%), Positives = 21/56 (37%), Gaps = 4/56 (7%)
Query: 38 PPYQTNRNGYQPSYNSANQQSNQISFLNPPYRQNYGPTSNRYAPATFRSGGLYNDY 93
P Y Y P+ S + S S +P +Y PTS Y+P + Y
Sbjct: 1618 PSYSPTSPSYSPTSPSYSPTSPSYSPTSP----SYSPTSPSYSPTSPSYSPTSPSY 1669
Score = 29.3 bits (65), Expect = 1.1
Identities = 14/47 (29%), Positives = 20/47 (42%), Gaps = 4/47 (8%)
Query: 37 TPPYQTNRNGYQPSYNSANQQSNQISFLNPPYRQNYGPTSNRYAPAT 83
+P Y Y P+ S + S S P +Y PTS Y+P +
Sbjct: 1645 SPSYSPTSPSYSPTSPSYSPTSPSYS----PTSPSYSPTSPSYSPTS 1687
Score = 28.1 bits (62), Expect = 2.9
Identities = 17/72 (23%), Positives = 24/72 (33%), Gaps = 10/72 (13%)
Query: 36 YTPPYQTNRNGYQPSYNSANQQSNQISFLNPPY----------RQNYGPTSNRYAPATFR 85
+P Y Y P+ S + S S +P Y +Y PTS Y+P +
Sbjct: 1623 TSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPS 1682
Query: 86 SGGLYNDYYVIS 97
Y S
Sbjct: 1683 YSPTSPSYSPTS 1694
Score = 27.7 bits (61), Expect = 3.8
Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 3/50 (6%)
Query: 37 TPPYQTNRNGYQPSYNSANQQSNQISFLNPPYR---QNYGPTSNRYAPAT 83
+P Y Y P+ S + S S +P Y +Y PTS Y+P +
Sbjct: 1701 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTS 1750
Score = 27.3 bits (60), Expect = 5.1
Identities = 15/51 (29%), Positives = 22/51 (43%), Gaps = 3/51 (5%)
Query: 36 YTPPYQTNRNGYQPSYNSANQQSNQISFLNPPY---RQNYGPTSNRYAPAT 83
+P Y Y P+ S + S S +P Y +Y PTS Y+P +
Sbjct: 1658 TSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTS 1708
Score = 27.3 bits (60), Expect = 5.5
Identities = 14/46 (30%), Positives = 20/46 (43%), Gaps = 4/46 (8%)
Query: 38 PPYQTNRNGYQPSYNSANQQSNQISFLNPPYRQNYGPTSNRYAPAT 83
P Y Y P+ S + S S +P +Y PTS Y+P +
Sbjct: 1604 PSYSATSPSYSPTSPSYSPTSPSYSPTSP----SYSPTSPSYSPTS 1645
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
0.322 0.140 0.452
Gapped
Lambda K H
0.267 0.0480 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,491,308
Number of extensions: 197577
Number of successful extensions: 513
Number of sequences better than 10.0: 1
Number of HSP's gapped: 487
Number of HSP's successfully gapped: 35
Length of query: 216
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 126
Effective length of database: 4,188,903
Effective search space: 527801778
Effective search space used: 527801778
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 (21.9 bits)
S2: 55 (25.6 bits)