RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy4856
(654 letters)
>d2vnud1 b.40.4.5 (D:400-494) Exosome complex exonuclease RRP44
{Saccharomyces cerevisiae [TaxId: 4932]}
Length = 95
Score = 123 bits (310), Expect = 3e-34
Identities = 42/93 (45%), Positives = 56/93 (60%), Gaps = 4/93 (4%)
Query: 238 WRQYCGILQPNPLAGSSRH----LFVPAERKIPKIRVETRQIATLSGQRIVVAIDSWPRH 293
WRQY G L P+ + S + ++ +PK+R+ TR+ A L +RIV++IDSWP
Sbjct: 1 WRQYVGQLAPSSVDPQSSSTQNVFVILMDKCLPKVRIRTRRAAELLDKRIVISIDSWPTT 60
Query: 294 SRYPQGHFVRALGPIGDKDTENEVLLLEHDVPH 326
+YP GHFVR LG I E E LLLEHDV +
Sbjct: 61 HKYPLGHFVRDLGTIESAQAETEALLLEHDVEY 93
>d2vnud3 b.40.4.5 (D:252-399) Exosome complex exonuclease RRP44
{Saccharomyces cerevisiae [TaxId: 4932]}
Length = 148
Score = 125 bits (315), Expect = 3e-34
Identities = 43/147 (29%), Positives = 69/147 (46%), Gaps = 24/147 (16%)
Query: 114 DSLYPLHATPSEIHAGIKNQSLLQGSFQASRENFLEGQVNCEGYDKPILVQGREGLNRAI 173
D +P + + + + G+KN L QG+ Q S NFLEG V+ + KP+L+ G++ LNRA
Sbjct: 1 DFTFPEYYSTARVMGGLKNGVLYQGNIQISEYNFLEGSVSLPRFSKPVLIVGQKNLNRAF 60
Query: 174 DGDTVAVRLLPESQWSAPLELVLEDEGSGEDEEGEDG----------------------- 210
+GD V V LLP+S+W AP +VL+ E ++ +
Sbjct: 61 NGDQVIVELLPQSEWKAPSSIVLDSEHFDVNDNPDIEAGDDDDNNESSSNTTVISDKQRR 120
Query: 211 -KLIKGNKTVPPAERRPTGQIVGIIKR 236
+ +PT ++V I +R
Sbjct: 121 LLAKDAMIAQRSKKIQPTAKVVYIQRR 147
>d2vnud4 b.40.4.16 (D:495-910) Exosome complex exonuclease RRP44
{Saccharomyces cerevisiae [TaxId: 4932]}
Length = 416
Score = 84.3 bits (207), Expect = 7e-18
Identities = 35/77 (45%), Positives = 42/77 (54%)
Query: 397 FILLFLFQAVYFSSGMLQQSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADAT 456
+ A YF SG DF HYGLA IYTHFTSPIRRY D++ HR LA IG +
Sbjct: 314 MSTRCMMAAQYFYSGAYSYPDFRHYGLAVDIYTHFTSPIRRYCDVVAHRQLAGAIGYEPL 373
Query: 457 YPSLLDKKASTALCYNL 473
+ DK +C N+
Sbjct: 374 SLTHRDKNKMDMICRNI 390
Score = 82.0 bits (201), Expect = 3e-17
Identities = 39/129 (30%), Positives = 51/129 (39%), Gaps = 47/129 (36%)
Query: 476 DFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGADATYPSLLDKKASTALCYNLPGC 535
DF HYGLA IYTHFTSPIRRY D++ HR LA IG + + DK
Sbjct: 334 DFRHYGLAVDIYTHFTSPIRRYCDVVAHRQLAGAIGYEPLSLTHRDKNK----------- 382
Query: 536 TDIDDALHCRPLPNGNIEVTYPSLGMSQSCKDIQACLLELGYNLNYRNRQAQYAGRASVA 595
+ + N+N ++R AQ+AGRAS+
Sbjct: 383 ------------------------------------MDMICRNINRKHRNAQFAGRASIE 406
Query: 596 LHTHLFFRR 604
+ R
Sbjct: 407 YYVGQVMRN 415
Score = 67.7 bits (164), Expect = 1e-12
Identities = 24/48 (50%), Positives = 31/48 (64%)
Query: 604 RKSITEEEVARRTDLRHLDVCSVDPPGCTDIDDALHCRPLPNGNIEVT 651
+ + +R DLR +CS+DPPGC DI+DALH + LPNGN EV
Sbjct: 26 EAVSKDPLLTKRKDLRDKLICSIDPPGCVDINDALHAKKLPNGNWEVG 73
Score = 38.4 bits (88), Expect = 0.002
Identities = 16/23 (69%), Positives = 18/23 (78%)
Query: 533 PGCTDIDDALHCRPLPNGNIEVT 555
PGC DI+DALH + LPNGN EV
Sbjct: 51 PGCVDINDALHAKKLPNGNWEVG 73
>d2r7da2 b.40.4.16 (A:3-403) Ribonuclease II family protein DR0020
{Deinococcus radiodurans [TaxId: 1299]}
Length = 401
Score = 75.8 bits (185), Expect = 3e-15
Identities = 23/95 (24%), Positives = 39/95 (41%), Gaps = 2/95 (2%)
Query: 374 FPSLLKPRTTFVFYDFPRTTRTNFILLFLFQAV-YFSSGMLQQSDFHHYGLATPIYTHFT 432
F + F D+P L ++ + Q S H+G+ +Y T
Sbjct: 278 FADDNEIPLPFATQDYPTREVAGDTLPAMWARRKTLARTRFQPSPGPHHGMGLDLYAQAT 337
Query: 433 SPIRRYADIIVHRLLAACI-GADATYPSLLDKKAS 466
SP+RRY D++VH+ L A + G D ++ +
Sbjct: 338 SPMRRYLDLVVHQQLRAFLAGRDPLSSKVMAAHIA 372
Score = 73.9 bits (180), Expect = 1e-14
Identities = 27/153 (17%), Positives = 44/153 (28%), Gaps = 51/153 (33%)
Query: 453 ADATYPSLLDKKASTALCYNLVSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACIGA 512
A T P++ ++ + A S H+G+ +Y TSP+RRY D++VH+ L A +
Sbjct: 299 AGDTLPAMWARRKTLARTRFQPSPGPHHGMGLDLYAQATSPMRRYLDLVVHQQLRAFLA- 357
Query: 513 DATYPSLLDKKASTALCYNLPGCTDIDDALHCRPLPNGNIEVTYPSLGMSQSCKDIQACL 572
PL + +
Sbjct: 358 ------------------------------GRDPLSSKVMA------------------- 368
Query: 573 LELGYNLNYRNRQAQYAGRASVALHTHLFFRRK 605
+ A R S HT F +
Sbjct: 369 -AHIAESQMNADATRQAERLSRRHHTLRFIAAQ 400
Score = 51.9 bits (123), Expect = 1e-07
Identities = 23/93 (24%), Positives = 33/93 (35%), Gaps = 6/93 (6%)
Query: 558 SLGMSQSCKDIQACLLELGYNLNYRNRQAQYAGRASVALHTHLFFRRKSITEEEVARRTD 617
L + ++ + A LL LG R A A A+ + R D
Sbjct: 28 DLKLPETPEAAHALLLRLGVWDEARTPYADRLRAALNAVEL------PVPDFDPAEERLD 81
Query: 618 LRHLDVCSVDPPGCTDIDDALHCRPLPNGNIEV 650
L HL ++D G D DDA+ L G +
Sbjct: 82 LTHLPTFAIDDEGNQDPDDAVGVEDLGGGLTRL 114
Score = 43.4 bits (101), Expect = 7e-05
Identities = 11/68 (16%), Positives = 24/68 (35%), Gaps = 5/68 (7%)
Query: 280 GQRIVVAIDSWPRHSRYPQGHFVRALGPIGDKDTENEVLLLEH--DVPHSKFSDLVLSYL 337
QR V + + R + +R L + + +LL D + ++D + + L
Sbjct: 7 AQRTEVELLARGRA---DKSRVLRDLKLPETPEAAHALLLRLGVWDEARTPYADRLRAAL 63
Query: 338 PPMPWEKS 345
+
Sbjct: 64 NAVELPVP 71
Score = 28.0 bits (61), Expect = 4.1
Identities = 9/42 (21%), Positives = 13/42 (30%)
Query: 533 PGCTDIDDALHCRPLPNGNIEVTYPSLGMSQSCKDIQACLLE 574
G D DDA+ L G + ++ LE
Sbjct: 93 EGNQDPDDAVGVEDLGGGLTRLWVHVADVAALVAPDSPLDLE 134
>d2ix0a4 b.40.4.16 (A:173-557) Exoribonuclease 2, RNB {Escherichia
coli [TaxId: 562]}
Length = 385
Score = 72.7 bits (177), Expect = 3e-14
Identities = 23/54 (42%), Positives = 29/54 (53%), Gaps = 1/54 (1%)
Query: 407 YFSSGMLQQSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACI-GADATYPS 459
+ S + H+GL Y +TSPIR+Y D+I HRLL A I G AT P
Sbjct: 299 FQSFAEISTEPGPHFGLGLEAYATWTSPIRKYGDMINHRLLKAVIKGETATRPQ 352
Score = 71.5 bits (174), Expect = 6e-14
Identities = 22/50 (44%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 470 CYNLVSDFHHYGLATPIYTHFTSPIRRYADIIVHRLLAACI-GADATYPS 518
H+GL Y +TSPIR+Y D+I HRLL A I G AT P
Sbjct: 303 AEISTEPGPHFGLGLEAYATWTSPIRKYGDMINHRLLKAVIKGETATRPQ 352
Score = 66.9 bits (162), Expect = 2e-12
Identities = 14/42 (33%), Positives = 23/42 (54%)
Query: 609 EEEVARRTDLRHLDVCSVDPPGCTDIDDALHCRPLPNGNIEV 650
+E R DL LD ++D D+DDAL + LP+ +++
Sbjct: 11 LDEGLVREDLTALDFVTIDSASTEDMDDALFAKALPDDKLQL 52
Score = 40.0 bits (92), Expect = 7e-04
Identities = 7/22 (31%), Positives = 13/22 (59%)
Query: 533 PGCTDIDDALHCRPLPNGNIEV 554
D+DDAL + LP+ +++
Sbjct: 31 ASTEDMDDALFAKALPDDKLQL 52
>d2ix0a1 b.40.4.5 (A:83-172) Exoribonuclease 2, RNB {Escherichia
coli [TaxId: 562]}
Length = 90
Score = 42.5 bits (100), Expect = 8e-06
Identities = 14/91 (15%), Positives = 25/91 (27%), Gaps = 9/91 (9%)
Query: 240 QYCGILQPNPLAGSSRHLFVPAERKIPK---IRVETRQIATLS-GQRIVVAIDSWP-RHS 294
++ G +Q + R VP + R G V + P +
Sbjct: 3 RFVGKVQGK----NDRLAIVPDHPLLKDAIPCRAARGLNHEFKEGDWAVAEMRRHPLKGD 58
Query: 295 RYPQGHFVRALGPIGDKDTENEVLLLEHDVP 325
R + + D V L H++
Sbjct: 59 RSFYAELTQYITFGDDHFVPWWVTLARHNLE 89
>d2vglb_ a.118.1.10 (B:) Adaptin beta subunit N-terminal fragment
{Human (Homo sapiens) [TaxId: 9606]}
Length = 579
Score = 30.1 bits (67), Expect = 0.96
Identities = 14/73 (19%), Positives = 35/73 (47%), Gaps = 2/73 (2%)
Query: 31 ESVNDRNDRALRRVATWYV-KYEEHLESAVRVI-LLSEDVRNRDLATQSGLLTSSIEGYI 88
E+++ ++ R W V +Y E +++A ++ E + Q LLT+ ++ ++
Sbjct: 431 ENLDSLDEPDARAAMIWIVGEYAERIDNADELLESFLEGFHDESTQVQLTLLTAIVKLFL 490
Query: 89 STLSNGEPLLDKL 101
S + L+ ++
Sbjct: 491 KKPSETQELVQQV 503
>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo
sapiens) [TaxId: 9606]}
Length = 213
Score = 27.6 bits (60), Expect = 4.6
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 426 PIYTHFTSPIRRYADIIVHR 445
P + F P ++YAD+I+ R
Sbjct: 173 PAFEEFCLPTKKYADVIIPR 192
Score = 27.6 bits (60), Expect = 4.6
Identities = 8/20 (40%), Positives = 13/20 (65%)
Query: 485 PIYTHFTSPIRRYADIIVHR 504
P + F P ++YAD+I+ R
Sbjct: 173 PAFEEFCLPTKKYADVIIPR 192
>d1lcla_ b.29.1.3 (A:) Charcot-Leyden crystal (CLC) protein {Human
(Homo sapiens) [TaxId: 9606]}
Length = 141
Score = 26.0 bits (57), Expect = 8.5
Identities = 9/30 (30%), Positives = 13/30 (43%)
Query: 5 ISNPSRKFYVFVNEHHYETYVEQEPGESVN 34
IS K+ V VN T+ + E+V
Sbjct: 92 ISVLPDKYQVMVNGQSSYTFDHRIKPEAVK 121
Database: scop70_1_75
Posted date: Mar 27, 2010 6:21 PM
Number of letters in database: 2,407,596
Number of sequences in database: 13,730
Lambda K H
0.319 0.137 0.414
Gapped
Lambda K H
0.267 0.0432 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 2,485,284
Number of extensions: 118158
Number of successful extensions: 239
Number of sequences better than 10.0: 1
Number of HSP's gapped: 237
Number of HSP's successfully gapped: 25
Length of query: 654
Length of database: 2,407,596
Length adjustment: 91
Effective length of query: 563
Effective length of database: 1,158,166
Effective search space: 652047458
Effective search space used: 652047458
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: 56 (26.1 bits)