RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9982
(222 letters)
>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 = 115 bits (290), Expect = 5e-30
Identities = 47/111 (42%), Positives = 72/111 (64%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP+Y+ SP+Y+ SP+Y+ SP+Y+ SP+Y P SP+Y+P SPAY+ SP+Y+ SP+Y
Sbjct: 1616 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPAYSPTSPSYSPTSPSY 1675
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYTQ 169
+ SP+Y+ S +Y+ S Y+ SP+Y+ SP Y+ SPAY+
Sbjct: 1676 SPTSPSYSPTSPSYSPTSPNYSPTSPSYSPTSPGYSPGSPAYSPKQDEQKH 1726
Score = 114 bits (286), Expect = 2e-29
Identities = 49/110 (44%), Positives = 76/110 (69%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP+Y+ SP+Y+ SP+Y+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SPAY+ SP+Y
Sbjct: 1609 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPAYSPTSPSY 1668
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYT 168
+ SP+Y+ S +Y+ S +Y+ SP Y+ SP+Y+ SP Y+ S AY+
Sbjct: 1669 SPTSPSYSPTSPSYSPTSPSYSPTSPNYSPTSPSYSPTSPGYSPGSPAYS 1718
Score = 110 bits (275), Expect = 5e-28
Identities = 48/111 (43%), Positives = 78/111 (70%)
Query: 58 VSPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPA 117
SP+Y+ SP+Y+ SP+Y+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SP+Y+ SP+
Sbjct: 1580 TSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPS 1639
Query: 118 YTQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYT 168
Y+ SP+Y+ S +Y+ S AY+ SP+Y+ SP+Y+ SP+Y+ S +Y+
Sbjct: 1640 YSPTSPSYSPTSPSYSPTSPAYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS 1690
Score = 109 bits (274), Expect = 8e-28
Identities = 48/110 (43%), Positives = 78/110 (70%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP+Y+ SP+Y+ SP+Y+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SP+Y+ SP+Y
Sbjct: 1574 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1633
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYT 168
+ SP+Y+ S +Y+ S +Y+ SPAY+ SP+Y+ SP+Y+ S +Y+
Sbjct: 1634 SPTSPSYSPTSPSYSPTSPSYSPTSPAYSPTSPSYSPTSPSYSPTSPSYS 1683
Score = 109 bits (273), Expect = 1e-27
Identities = 50/130 (38%), Positives = 82/130 (63%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP+Y+ SP+Y+ SP+Y+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SP+Y+ SP+Y
Sbjct: 1567 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1626
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYTQVILNKIRPG 178
+ SP+Y+ S +Y+ S +Y+ SP+Y+ SPAY+ SP+Y+ S +Y+ +
Sbjct: 1627 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPAYSPTSPSYSPTSPSYSPTSPSYSPTS 1686
Query: 179 RESNSRSSAY 188
+ S Y
Sbjct: 1687 PSYSPTSPNY 1696
Score = 109 bits (272), Expect = 1e-27
Identities = 46/109 (42%), Positives = 73/109 (66%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP + SP ++ SP Y+ SPAY+ SP+Y P SP+Y+P SP+Y+ SP+Y+ SP+Y
Sbjct: 1532 SPGFGVSSPGFSPTSPTYSPTSPAYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1591
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAY 167
+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+Y+ S +Y
Sbjct: 1592 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1640
Score = 109 bits (272), Expect = 1e-27
Identities = 48/110 (43%), Positives = 76/110 (69%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP+Y+ SP+Y+ SP+Y+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SP+Y+ SPAY
Sbjct: 1602 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPAY 1661
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYT 168
+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP Y+ SP+Y+ S Y+
Sbjct: 1662 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPNYSPTSPSYSPTSPGYS 1711
Score = 108 bits (270), Expect = 2e-27
Identities = 48/112 (42%), Positives = 77/112 (68%)
Query: 58 VSPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPA 117
SP+Y+ SP+Y+ SP+Y+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SP+Y+ SP+
Sbjct: 1594 TSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPS 1653
Query: 118 YTQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYTQ 169
Y+ SPAY+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP Y+ S +Y+
Sbjct: 1654 YSPTSPAYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPNYSPTSPSYSP 1705
Score = 107 bits (269), Expect = 4e-27
Identities = 47/110 (42%), Positives = 76/110 (69%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP ++ SP Y+ SPAY+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SP+Y+ SP+Y
Sbjct: 1539 SPGFSPTSPTYSPTSPAYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1598
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYT 168
+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+Y+ S +Y+
Sbjct: 1599 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS 1648
Score = 107 bits (268), Expect = 5e-27
Identities = 48/111 (43%), Positives = 77/111 (69%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP Y+ SPAY+ SP+Y+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SP+Y+ SP+Y
Sbjct: 1546 SPTYSPTSPAYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1605
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYTQ 169
+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+Y+ S +Y+
Sbjct: 1606 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSP 1656
Score = 106 bits (266), Expect = 8e-27
Identities = 48/110 (43%), Positives = 78/110 (70%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP+Y+ SP+Y+ SP+Y+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SP+Y+ SP+Y
Sbjct: 1560 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1619
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYT 168
+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SPAY+ S +Y+
Sbjct: 1620 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPAYSPTSPSYS 1669
Score = 106 bits (266), Expect = 1e-26
Identities = 48/125 (38%), Positives = 75/125 (60%)
Query: 44 DYLSTDEDEATVYTVSPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPA 103
Y D EAT + SP + SP ++ SP Y+ SPAY P SP+Y+P SP+
Sbjct: 1510 AYGGADYGEATSPFGAYGEAPTSPGFGVSSPGFSPTSPTYSPTSPAYSPTSPSYSPTSPS 1569
Query: 104 YTQVSPAYTQVSPAYTQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQV 163
Y+ SP+Y+ SP+Y+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+Y+
Sbjct: 1570 YSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPT 1629
Query: 164 SSAYT 168
S +Y+
Sbjct: 1630 SPSYS 1634
Score = 106 bits (265), Expect = 1e-26
Identities = 56/151 (37%), Positives = 91/151 (60%), Gaps = 2/151 (1%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SPAY+ SP+Y+ SP+Y+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SP+Y+ SP+Y
Sbjct: 1553 SPAYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1612
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYTQVILNKIRPG 178
+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+Y+ S AY+ +
Sbjct: 1613 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPAYSPTSPSYSPTS 1672
Query: 179 RESNSRSSAYEAFFHEWVWMSWYPDINPTLP 209
+ S +Y + S P+ +PT P
Sbjct: 1673 PSYSPTSPSYSPTSPSYSPTS--PNYSPTSP 1701
Score = 105 bits (264), Expect = 1e-26
Identities = 44/111 (39%), Positives = 70/111 (63%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP+Y+ SP+Y+ SP+Y+ SP+Y+ SP+Y P SPAY+P SP+Y+ SP+Y+ SP+Y
Sbjct: 1623 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPAYSPTSPSYSPTSPSYSPTSPSY 1682
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYTQ 169
+ SP+Y+ S Y+ S +Y+ SP Y+ SPAY+ + ++
Sbjct: 1683 SPTSPSYSPTSPNYSPTSPSYSPTSPGYSPGSPAYSPKQDEQKHNENENSR 1733
Score = 100 bits (249), Expect = 2e-24
Identities = 40/104 (38%), Positives = 65/104 (62%)
Query: 66 SPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAYTQVSPAY 125
+ SP + SP ++ SP Y P SPAY+P SP+Y+ SP+Y+ SP+Y+ SP+Y
Sbjct: 1525 AYGEAPTSPGFGVSSPGFSPTSPTYSPTSPAYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1584
Query: 126 TQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYTQ 169
+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+Y+ S +Y+
Sbjct: 1585 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSP 1628
Score = 94.8 bits (235), Expect = 1e-22
Identities = 38/102 (37%), Positives = 60/102 (58%)
Query: 54 TVYTVSPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQ 113
+ SP+Y+ SP+Y+ SP+Y+ SPAY+ SP+Y P SP+Y+P SP+Y+ SP+Y+
Sbjct: 1632 SYSPTSPSYSPTSPSYSPTSPSYSPTSPAYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSP 1691
Query: 114 VSPAYTQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQ 155
SP Y+ SP+Y+ S Y+ S AY+ ++
Sbjct: 1692 TSPNYSPTSPSYSPTSPGYSPGSPAYSPKQDEQKHNENENSR 1733
Score = 92.1 bits (228), Expect = 9e-22
Identities = 39/122 (31%), Positives = 66/122 (54%)
Query: 47 STDEDEATVYTVSPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQ 106
+++ A +T + SP + SP + P SP Y+P SPAY+
Sbjct: 1499 GSNDAMAGGFTAYGGADYGEATSPFGAYGEAPTSPGFGVSSPGFSPTSPTYSPTSPAYSP 1558
Query: 107 VSPAYTQVSPAYTQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSA 166
SP+Y+ SP+Y+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+Y+ S +
Sbjct: 1559 TSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPS 1618
Query: 167 YT 168
Y+
Sbjct: 1619 YS 1620
Score = 57.0 bits (137), Expect = 8e-10
Identities = 31/150 (20%), Positives = 61/150 (40%), Gaps = 10/150 (6%)
Query: 24 LLLNVLSYILIEKFKRKDLEDYLSTDEDEATVYTVSPAYTQ---VSPAYTQVSPAYTQVS 80
++++ S L++ + + + + T Y+ SP S
Sbjct: 1443 VMIDEES--LVKYMPEQKITEIEDGQDGGVTPYSNESGLVNADLDVKDELMFSPLVD--S 1498
Query: 81 PAYTQVSPAYIPVSPA-YTPVSPAYTQVSPAYTQVSPAYTQVSPAYTQVSLAYTQVSLAY 139
+ ++ + A Y + + A T SP + SP ++ S Y+ S AY
Sbjct: 1499 GSNDAMAGGFTAYGGADYGEATSPFGAYGEAPT--SPGFGVSSPGFSPTSPTYSPTSPAY 1556
Query: 140 TQVSPAYTQVSPAYTQVSPAYTQVSSAYTQ 169
+ SP+Y+ SP+Y+ SP+Y+ S +Y+
Sbjct: 1557 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSP 1586
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 113 bits (283), Expect = 5e-29
Identities = 48/112 (42%), Positives = 77/112 (68%)
Query: 56 YTVSPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVS 115
Y+ SPAY SP+Y+ SP+Y+ SP+Y+ SP+Y P SP+Y+ SP+Y+ SP+Y+ S
Sbjct: 1565 YSTSPAYMPSSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSATSPSYSPTSPSYSPTS 1624
Query: 116 PAYTQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAY 167
P+Y+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+Y+ S +Y
Sbjct: 1625 PSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1676
Score = 111 bits (279), Expect = 2e-28
Identities = 47/110 (42%), Positives = 78/110 (70%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP+Y+ SP+Y+ SP+Y+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SP+Y+ SP+Y
Sbjct: 1582 SPSYSPTSPSYSPTSPSYSPTSPSYSATSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1641
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYT 168
+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+Y+ S +Y+
Sbjct: 1642 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS 1691
Score = 110 bits (276), Expect = 4e-28
Identities = 47/110 (42%), Positives = 78/110 (70%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP+Y+ SP+Y+ SP+Y+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SP+Y+ SP+Y
Sbjct: 1589 SPSYSPTSPSYSPTSPSYSATSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1648
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYT 168
+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+Y+ S +Y+
Sbjct: 1649 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS 1698
Score = 110 bits (275), Expect = 6e-28
Identities = 46/110 (41%), Positives = 77/110 (70%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP+Y+ SP+Y+ SP+Y+ SP+Y+ SP+Y SP+Y+P SP+Y+ SP+Y+ SP+Y
Sbjct: 1575 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSATSPSYSPTSPSYSPTSPSYSPTSPSY 1634
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYT 168
+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+Y+ S +Y+
Sbjct: 1635 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS 1684
Score = 109 bits (274), Expect = 8e-28
Identities = 50/130 (38%), Positives = 81/130 (62%), Gaps = 1/130 (0%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP Y+ SPAY SP+Y+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SP+Y+ SP+Y
Sbjct: 1562 SPGYST-SPAYMPSSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSATSPSYSPTSPSY 1620
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYTQVILNKIRPG 178
+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+Y+ S +Y+ +
Sbjct: 1621 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTS 1680
Query: 179 RESNSRSSAY 188
+ S +Y
Sbjct: 1681 PSYSPTSPSY 1690
Score = 109 bits (273), Expect = 1e-27
Identities = 47/110 (42%), Positives = 78/110 (70%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP+Y+ SP+Y+ SP+Y+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SP+Y+ SP+Y
Sbjct: 1596 SPSYSPTSPSYSATSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1655
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYT 168
+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+Y+ S +Y+
Sbjct: 1656 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS 1705
Score = 108 bits (270), Expect = 2e-27
Identities = 47/110 (42%), Positives = 78/110 (70%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP+Y+ SP+Y+ SP+Y+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SP+Y+ SP+Y
Sbjct: 1631 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1690
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYT 168
+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+Y+ S +Y+
Sbjct: 1691 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS 1740
Score = 106 bits (266), Expect = 9e-27
Identities = 47/111 (42%), Positives = 78/111 (70%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP+Y+ SP+Y+ SP+Y+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SP+Y+ SP+Y
Sbjct: 1610 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1669
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYTQ 169
+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+Y+ S +Y+
Sbjct: 1670 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSP 1720
Score = 106 bits (265), Expect = 1e-26
Identities = 47/109 (43%), Positives = 77/109 (70%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP+Y+ SP+Y+ SP+Y+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SP+Y+ SP+Y
Sbjct: 1603 SPSYSATSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1662
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAY 167
+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+Y+ S +Y
Sbjct: 1663 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1711
Score = 106 bits (265), Expect = 1e-26
Identities = 47/110 (42%), Positives = 78/110 (70%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP+Y+ SP+Y+ SP+Y+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SP+Y+ SP+Y
Sbjct: 1638 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1697
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYT 168
+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+Y+ S +Y+
Sbjct: 1698 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS 1747
Score = 105 bits (264), Expect = 2e-26
Identities = 47/110 (42%), Positives = 78/110 (70%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP+Y+ SP+Y+ SP+Y+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SP+Y+ SP+Y
Sbjct: 1617 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1676
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYT 168
+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+Y+ S +Y+
Sbjct: 1677 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS 1726
Score = 105 bits (263), Expect = 2e-26
Identities = 47/110 (42%), Positives = 78/110 (70%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP+Y+ SP+Y+ SP+Y+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SP+Y+ SP+Y
Sbjct: 1624 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1683
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYT 168
+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+Y+ S +Y+
Sbjct: 1684 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS 1733
Score = 104 bits (259), Expect = 9e-26
Identities = 47/116 (40%), Positives = 74/116 (63%), Gaps = 8/116 (6%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPA------YIPVSPAYTPVSPAYTQVSPAYT 112
SP YT SP + +SP Y SP+Y+ SP Y+P SP+Y+P SP+Y+ SP+Y+
Sbjct: 1536 SPGYT--SPFSSAMSPGYGLTSPSYSPSSPGYSTSPAYMPSSPSYSPTSPSYSPTSPSYS 1593
Query: 113 QVSPAYTQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYT 168
SP+Y+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+Y+ S +Y+
Sbjct: 1594 PTSPSYSPTSPSYSATSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS 1649
Score = 101 bits (253), Expect = 4e-25
Identities = 46/106 (43%), Positives = 75/106 (70%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP+Y+ SP+Y+ SP+Y+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SP+Y+ SP+Y
Sbjct: 1645 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1704
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVS 164
+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+Y+ S
Sbjct: 1705 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTS 1750
Score = 98.6 bits (245), Expect = 6e-24
Identities = 44/101 (43%), Positives = 72/101 (71%)
Query: 59 SPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVSPAY 118
SP+Y+ SP+Y+ SP+Y+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SP+Y+ SP+Y
Sbjct: 1652 SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1711
Query: 119 TQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPA 159
+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+
Sbjct: 1712 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPS 1752
Score = 92.4 bits (229), Expect = 7e-22
Identities = 43/113 (38%), Positives = 65/113 (57%), Gaps = 3/113 (2%)
Query: 56 YTVSPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQVS 115
+ SP SP YT SP + +SP Y SP+Y+P SP Y+ SPAY S
Sbjct: 1519 FGDYGLLGAASPYKGVQSPGYT--SPFSSAMSPGYGLTSPSYSPSSPGYST-SPAYMPSS 1575
Query: 116 PAYTQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYT 168
P+Y+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+Y+ SP+Y+ S +Y+
Sbjct: 1576 PSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSATSPSYSPTSPSYSPTSPSYS 1628
Score = 85.9 bits (212), Expect = 1e-19
Identities = 40/99 (40%), Positives = 63/99 (63%), Gaps = 4/99 (4%)
Query: 54 TVYTVSPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVSPAYTQVSPAYTQ 113
T + SP SP SP+Y+ SP+Y+ SP+Y P SP+Y+P SP+Y+ SP+Y+
Sbjct: 1658 TSPSYSPTSPSYSPT----SPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSP 1713
Query: 114 VSPAYTQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPA 152
SP+Y+ SP+Y+ S +Y+ S +Y+ SP+Y+ SP+
Sbjct: 1714 TSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPS 1752
Score = 72.0 bits (176), Expect = 8e-15
Identities = 38/115 (33%), Positives = 54/115 (46%), Gaps = 5/115 (4%)
Query: 56 YTVSPAYTQVSPAYTQVSPAYTQVSPAY--TQVSPAYIPVSPAYTPVSPAYTQVSPAYTQ 113
+ SP SP S SP SP YT SP + +SP Y
Sbjct: 1496 FVGSPDAAAFSPLVQGGSEGREGFGDYGLLGAASPYKGVQSPGYT--SPFSSAMSPGYGL 1553
Query: 114 VSPAYTQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSPAYTQVSPAYTQVSSAYT 168
SP+Y+ SP Y+ S AY S +Y+ SP+Y+ SP+Y+ SP+Y+ S +Y+
Sbjct: 1554 TSPSYSPSSPGYST-SPAYMPSSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS 1607
Score = 36.6 bits (84), Expect = 0.005
Identities = 16/78 (20%), Positives = 27/78 (34%)
Query: 92 PVSPAYTPVSPAYTQVSPAYTQVSPAYTQVSPAYTQVSLAYTQVSLAYTQVSPAYTQVSP 151
P+ + SP SP S + + + + SP + +SP
Sbjct: 1490 PMVDSGFVGSPDAAAFSPLVQGGSEGREGFGDYGLLGAASPYKGVQSPGYTSPFSSAMSP 1549
Query: 152 AYTQVSPAYTQVSSAYTQ 169
Y SP+Y+ S Y+
Sbjct: 1550 GYGLTSPSYSPSSPGYST 1567
>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 = 30.8 bits (69), Expect = 0.46
Identities = 12/48 (25%), Positives = 24/48 (50%), Gaps = 7/48 (14%)
Query: 10 IGGTLT-VEIFLLVFLLLNVLSYILIEKFKRKDLEDYLSTDEDEATVY 56
G L ++ + NVL++I ++K +L+ LS +E E ++
Sbjct: 1855 AAGDLRALD------TVTNVLNFIKLQKIDIIELQKSLSLEEVEGHLF 1896
>3py7_A Maltose-binding periplasmic protein,paxillin LD1, chimera; viral
protein; HET: MLR; 2.29A {Escherichia coli}
Length = 523
Score = 29.4 bits (66), Expect = 1.0
Identities = 16/85 (18%), Positives = 26/85 (30%), Gaps = 8/85 (9%)
Query: 42 LEDYLSTDEDEATVYTVSPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTPVS 101
LE+YL TDE V P +Y + +++ I P
Sbjct: 281 LENYLLTDEGLEAVNKDKPLGAVALKSYEEELAKDPRIAATMENAQKGEI------MPNI 334
Query: 102 PAYTQVS-PAYTQVSPAYT-QVSPA 124
P + T V A + + +
Sbjct: 335 PQMSAFWYAVRTAVINAASGRQTVD 359
>2jq5_A SEC-C motif; structural genomics, PSI-2, structure initiative,
northeast structural genomics consort NESG; NMR
{Rhodopseudomonas palustris}
Length = 128
Score = 26.0 bits (57), Expect = 6.3
Identities = 6/32 (18%), Positives = 12/32 (37%)
Query: 177 PGRESNSRSSAYEAFFHEWVWMSWYPDINPTL 208
P SR +AY +++ + P+
Sbjct: 28 PEALMRSRYAAYALKDFDYIVETTDPERRDLF 59
>1p16_C Phosphorylated peptide from C-terminal of RNA polymerase II;
guanylyltransferase, transcription, capping, CTD, mRNA;
HET: SEP G GTP; 2.70A {Candida albicans}
Length = 26
Score = 23.8 bits (51), Expect = 6.7
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 90 YIPVSPAYTPVSPAYTQVSPA 110
Y P SP+Y+P SP+Y+ SP+
Sbjct: 1 YSPTSPSYSPTSPSYSPTSPS 21
Score = 23.8 bits (51), Expect = 7.0
Identities = 11/21 (52%), Positives = 16/21 (76%)
Query: 83 YTQVSPAYIPVSPAYTPVSPA 103
Y+ SP+Y P SP+Y+P SP+
Sbjct: 1 YSPTSPSYSPTSPSYSPTSPS 21
>3mi9_A Cell division protein kinase 9; P-TEFB, HIV-1, protein binding;
HET: TPO; 2.10A {Homo sapiens} PDB: 3mia_A* 3blh_A*
3blq_A* 3blr_A* 3lq5_A* 3my1_A* 3tn8_A* 3tnh_A* 3tni_A*
Length = 351
Score = 26.4 bits (59), Expect = 7.8
Identities = 5/39 (12%), Positives = 11/39 (28%)
Query: 184 RSSAYEAFFHEWVWMSWYPDINPTLPIAMGVHCHDSKDK 222
R + +A H++ W P + +
Sbjct: 303 RIDSDDALNHDFFWSDPMPSDLKGMLSTHLTSMFEYLAP 341
>2z8f_A Galacto-N-biose/lacto-N-biose I transporter subst binding protein;
ABC transporter, mucin core-1, human MILK
oligosacchalide; HET: BGC GAL NAG MES; 1.65A
{Bifidobacterium longum} PDB: 2z8e_A* 2z8d_A*
Length = 412
Score = 26.7 bits (59), Expect = 7.9
Identities = 8/74 (10%), Positives = 20/74 (27%), Gaps = 2/74 (2%)
Query: 40 KDLEDYLSTDEDEATVYTVSPAYTQVSPAYTQVSPAYTQVSPAYTQVSPAYIPVSPAYTP 99
+ D+ +T + + PA T + + A +
Sbjct: 305 MEFLDWFNTQVPDLVSQGLVPAATTEDAETPSEWSTFFGGQDIMKEFKTANNNMGD--FT 362
Query: 100 VSPAYTQVSPAYTQ 113
P ++ V+ +
Sbjct: 363 YMPGFSAVAAKMNE 376
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
0.316 0.129 0.381
Gapped
Lambda K H
0.267 0.0628 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,180,688
Number of extensions: 168255
Number of successful extensions: 470
Number of sequences better than 10.0: 1
Number of HSP's gapped: 358
Number of HSP's successfully gapped: 59
Length of query: 222
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 132
Effective length of database: 4,188,903
Effective search space: 552935196
Effective search space used: 552935196
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: 55 (25.2 bits)