RPS-BLAST 2.2.26 [Sep-21-2011]
Database: scop70_1_75
13,730 sequences; 2,407,596 total letters
Searching..................................................done
Query= psy14291
(538 letters)
>d1b43a1 a.60.7.1 (A:220-339) Flap endonuclease-1 (Fen-1 nuclease)
{Archaeon Pyrococcus furiosus [TaxId: 2261]}
Length = 120
Score = 79.9 bits (197), Expect = 1e-18
Identities = 44/143 (30%), Positives = 65/143 (45%), Gaps = 34/143 (23%)
Query: 397 LTREKLIQLALLVGSDYTP-GLQGVGPVTALEILAKFSPSDSPNQNYIVESMRRFKNWLA 455
LTREKLI+LA+LVG+DY P G++G+G ALEI +R K+ LA
Sbjct: 1 LTREKLIELAILVGTDYNPGGIKGIGLKKALEI------------------VRHSKDPLA 42
Query: 456 KKNKPDTHLTRKLRNVKLNDDFPNVSVIEAYLKPDINTNVQKLAWGTPDLDGLRRFAANK 515
K + D ++ E +L P + N L W PD +G+ +F ++
Sbjct: 43 K--------------FQKQSDVDLYAIKEFFLNPPVTDNY-NLVWRDPDEEGILKFLCDE 87
Query: 516 FGWSQNRVDQTLIPIMKKISQRS 538
+S+ RV L + K I
Sbjct: 88 HDFSEERVKNGLERLKKAIKSGK 110
>d1rxwa2 c.120.1.2 (A:3-219) Flap endonuclease-1 (Fen-1 nuclease)
{Archaeon Archaeoglobus fulgidus [TaxId: 2234]}
Length = 217
Score = 80.2 bits (197), Expect = 7e-18
Identities = 23/85 (27%), Positives = 38/85 (44%), Gaps = 2/85 (2%)
Query: 323 AQELLQLFGVPFIVAPGEAEAQCASLELGNHTQGVITDDSDIWLFGARTVYKNFF--DKK 380
A+ LL G+PF+ AP E EAQ A + + + D D LFG+ + +N K+
Sbjct: 132 AKTLLSYMGIPFVDAPSEGEAQAAYMAAKGDVEYTGSQDYDSLLFGSPRLARNLAITGKR 191
Query: 381 SHVLRYTAPDIRYYFELTREKLIQL 405
+ D++ + L +L
Sbjct: 192 KLPGKNVYVDVKPEIIILESNLKRL 216
Score = 27.4 bits (60), Expect = 4.2
Identities = 7/24 (29%), Positives = 11/24 (45%), Gaps = 2/24 (8%)
Query: 115 LWKLLEASGKPVPVETLENKVLAV 138
+ L E + V +E K +AV
Sbjct: 3 IGDLFER--EEVELEYFSGKKIAV 24
>d1ul1x1 a.60.7.1 (X:218-357) Flap endonuclease-1 (Fen-1 nuclease)
{Human (Homo sapiens) [TaxId: 9606]}
Length = 140
Score = 71.6 bits (175), Expect = 2e-15
Identities = 26/143 (18%), Positives = 62/143 (43%), Gaps = 25/143 (17%)
Query: 397 LTREKLIQLALLVGSDYTPGLQGVGPVTALEILAKFSPSDSPNQNYIVESMRRFKNWLAK 456
L +E+ + L +L+GSDY ++G+GP A++++ K + IV + K
Sbjct: 1 LNQEQFVDLCILLGSDYCESIRGIGPKRAVDLIQKH-----KSIEEIVRRLDPNKYP--- 52
Query: 457 KNKPDTHLTRKLRNVKLNDDFPNVSVIEAYLKPDI-NTNVQKLAWGTPDLDGLRRFAANK 515
+ +++ + + +L+P++ + +L W P+ + L +F +
Sbjct: 53 ----------------VPENWLHKEAHQLFLEPEVLDPESVELKWSEPNEEELIKFMCGE 96
Query: 516 FGWSQNRVDQTLIPIMKKISQRS 538
+S+ R+ + + K +
Sbjct: 97 KQFSEERIRSGVKRLSKSRQGST 119
>d1b43a2 c.120.1.2 (A:1-219) Flap endonuclease-1 (Fen-1 nuclease)
{Archaeon Pyrococcus furiosus [TaxId: 2261]}
Length = 219
Score = 71.4 bits (174), Expect = 9e-15
Identities = 25/86 (29%), Positives = 41/86 (47%), Gaps = 2/86 (2%)
Query: 322 EAQELLQLFGVPFIVAPGEAEAQCASLELGNHTQGVITDDSDIWLFGARTVYKNFF--DK 379
+A++LL+L G+P + AP E EAQ A + + D D LFGA + +N K
Sbjct: 133 DAKKLLELMGIPIVQAPSEGEAQAAYMAAKGSVYASASQDYDSLLFGAPRLVRNLTITGK 192
Query: 380 KSHVLRYTAPDIRYYFELTREKLIQL 405
+ + +I+ + E L +L
Sbjct: 193 RKLPGKNVYVEIKPELIILEEVLKEL 218
>d1a77a2 c.120.1.2 (A:2-208) Flap endonuclease-1 (Fen-1 nuclease)
{Archaeon Methanococcus jannaschii [TaxId: 2190]}
Length = 207
Score = 70.1 bits (171), Expect = 2e-14
Identities = 26/88 (29%), Positives = 41/88 (46%), Gaps = 1/88 (1%)
Query: 305 ELGTDKKRRPYVSRKML-EAQELLQLFGVPFIVAPGEAEAQCASLELGNHTQGVITDDSD 363
E KR Y++ KM+ + LL L G+P++ AP E EAQ + + V++ D D
Sbjct: 115 EAAKYAKRVSYLTPKMVENCKYLLSLMGIPYVEAPSEGEAQASYMAKKGDVWAVVSQDYD 174
Query: 364 IWLFGARTVYKNFFDKKSHVLRYTAPDI 391
L+GA V +N K ++
Sbjct: 175 ALLYGAPRVVRNLTTTKEMPELIELNEV 202
>d1rxwa1 a.60.7.1 (A:220-324) Flap endonuclease-1 (Fen-1 nuclease)
{Archaeon Archaeoglobus fulgidus [TaxId: 2234]}
Length = 105
Score = 65.7 bits (160), Expect = 7e-14
Identities = 30/131 (22%), Positives = 51/131 (38%), Gaps = 31/131 (23%)
Query: 397 LTREKLIQLALLVGSDYTPGLQGVGPVTALEILAKFSPSDSPNQNYIVESMRRFKNWLAK 456
LTRE+LI +A+LVG+DY G++GVG AL + + + K
Sbjct: 1 LTREQLIDIAILVGTDYNEGVKGVGVKKALNYIKTYGDIFRALKA-------------LK 47
Query: 457 KNKPDTHLTRKLRNVKLNDDFPNVSVIEAYLKPDINTNVQKLAWGTPDLDGLRRFAANKF 516
N R +L P + + ++ + PD + F +
Sbjct: 48 VNIDHVEEIRNF-----------------FLNPPVTDDY-RIEFREPDFEKAIEFLCEEH 89
Query: 517 GWSQNRVDQTL 527
+S+ RV++ L
Sbjct: 90 DFSRERVEKAL 100
>d1ul1x2 c.120.1.2 (X:2-217) Flap endonuclease-1 (Fen-1 nuclease)
{Human (Homo sapiens) [TaxId: 9606]}
Length = 216
Score = 66.0 bits (160), Expect = 6e-13
Identities = 26/86 (30%), Positives = 41/86 (47%), Gaps = 4/86 (4%)
Query: 310 KKRRPYVSRKML-EAQELLQLFGVPFIVAPGEAEAQCASLELGNHTQGVITDDSDIWLFG 368
KR V+++ E + LL L G+P++ AP EAEA CA+L T+D D FG
Sbjct: 126 TKRLVKVTKQHNDECKHLLSLMGIPYLDAPSEAEASCAALVKAGKVYAAATEDMDCLTFG 185
Query: 369 ARTVYKNFF---DKKSHVLRYTAPDI 391
+ + ++ KK + + I
Sbjct: 186 SPVLMRHLTASEAKKLPIQEFHLSRI 211
>d1a77a1 a.60.7.1 (A:209-316) Flap endonuclease-1 (Fen-1 nuclease)
{Archaeon Methanococcus jannaschii [TaxId: 2190]}
Length = 108
Score = 61.8 bits (150), Expect = 2e-12
Identities = 22/143 (15%), Positives = 56/143 (39%), Gaps = 36/143 (25%)
Query: 397 LTREKLIQLALLVGSDYT-PGLQGVGPVTALEILAKFSPSDSPNQNYIVESMRRFKNWLA 455
++ + LI +A+ +G+DY G++G+G A E++
Sbjct: 1 ISLDDLIDIAIFMGTDYNPGGVKGIGFKRAYELVRSG----------------------- 37
Query: 456 KKNKPDTHLTRKLRNVKLNDDFPNVSVIEAYLKPDINTNVQKLAWGTPDLDGLRRFAANK 515
++V + + + +P T+ L+ PD +G+ +F ++
Sbjct: 38 -----------VAKDVLKKEVEYYDEIKRIFKEPK-VTDNYSLSLKLPDKEGIIKFLVDE 85
Query: 516 FGWSQNRVDQTLIPIMKKISQRS 538
++ +RV + + + I+ ++
Sbjct: 86 NDFNYDRVKKHVDKLYNLIANKT 108
>d1cmwa1 a.60.7.1 (A:174-289) 5' to 3' exonuclease domain of DNA
polymerase Taq {Thermus aquaticus [TaxId: 271]}
Length = 116
Score = 30.5 bits (68), Expect = 0.16
Identities = 19/117 (16%), Positives = 34/117 (29%), Gaps = 20/117 (17%)
Query: 397 LTREKLIQLALLVG--SDYTPGLQGVGPVTALEILAKFSPSDSPNQNYIVESMRRFKNWL 454
L ++ L G SD PG++G+G K + + ++
Sbjct: 1 LRPDQWADYRALTGDESDNLPGVKGIGE--------KTARKLLEEWGSLEALLKNLDRLK 52
Query: 455 AKKNKPDTHLTRKLRNVKLNDDFPNVSVIEAYLKPDINTNVQKLAWGTPDLDGLRRF 511
+ L+ A ++ D+ V PD + LR F
Sbjct: 53 PAIREKILAHMDDLKLSW----------DLAKVRTDLPLEVDFAKRREPDRERLRAF 99
>d1xo1a1 a.60.7.1 (A:186-290) T5 5'-exonuclease {Bacteriophage T5
[TaxId: 10726]}
Length = 105
Score = 30.0 bits (67), Expect = 0.22
Identities = 12/80 (15%), Positives = 28/80 (35%), Gaps = 3/80 (3%)
Query: 399 REKLIQLALLVG--SDYTPGLQGVGPVTALEILAKFSPSDSPNQNYIVESMRRFKNWLAK 456
E+ I L ++G D G++G+G I+ +F + +++ L
Sbjct: 4 VEQFISLKAIMGDLGDNIRGVEGIGAKRGYNIIREFGNVLDIIDQLPLPGKQKYIQNL-N 62
Query: 457 KNKPDTHLTRKLRNVKLNDD 476
++ L ++
Sbjct: 63 ASEELLFRNLILVDLPTYCV 82
>d2cqaa1 b.40.4.14 (A:8-89) RuvB-like 2 protein, RUVBL2 (TIP49b)
{Human (Homo sapiens) [TaxId: 9606]}
Length = 82
Score = 29.3 bits (66), Expect = 0.23
Identities = 24/69 (34%), Positives = 35/69 (50%), Gaps = 9/69 (13%)
Query: 164 EEKDILEMIRAEEENEIEFEEEIAGGKEEKTEKIKL-TREM---LAEQQKILDSLVKKKA 219
EE +I+E E EI+ + A G K K+ L T EM K+++SL K K
Sbjct: 2 EETEIIE----GEVVEIQIDRP-ATGTGSKVGKLTLKTTEMETIYDLGTKMIESLTKDKV 56
Query: 220 KSDDVIDVD 228
++ DVI +D
Sbjct: 57 QAGDVITID 65
>d2gy9m1 a.156.1.1 (M:1-114) Ribosomal protein S13 {Escherichia coli
[TaxId: 562]}
Length = 114
Score = 27.5 bits (61), Expect = 1.8
Identities = 14/76 (18%), Positives = 25/76 (32%), Gaps = 9/76 (11%)
Query: 396 ELTREKLIQLALLVGSDYTPGLQGVGPVTALEILAKFS-PSDSPNQNYIVESMRRFKNWL 454
+ K +AL + GVG + ILA D + ++ +
Sbjct: 7 NIPDHKHAVIAL-------TSIYGVGKTRSKAILAAAGIAEDVKISELSEGQIDTLRDEV 59
Query: 455 AKKNKPDTHLTRKLRN 470
A K + L R++
Sbjct: 60 A-KFVVEGDLRREISM 74
>d1o58a_ c.79.1.1 (A:) O-acetylserine sulfhydrylase (Cysteine
synthase) {Thermotoga maritima [TaxId: 2336]}
Length = 293
Score = 28.5 bits (63), Expect = 2.0
Identities = 18/60 (30%), Positives = 26/60 (43%), Gaps = 5/60 (8%)
Query: 120 EASGKPVPVETLENKVLAVGILYFTQGRASALLDRRKEDNIIDAEEKDILEMIR--AEEE 177
E + PV K GI G +LDR D +I E+++ EM R A++E
Sbjct: 194 EPAKSPVLSGGQPGKHAIQGI---GAGFVPKILDRSVIDEVITVEDEEAYEMARYLAKKE 250
>d2uubm1 a.156.1.1 (M:2-126) Ribosomal protein S13 {Thermus
thermophilus [TaxId: 274]}
Length = 125
Score = 27.1 bits (60), Expect = 2.5
Identities = 14/76 (18%), Positives = 29/76 (38%), Gaps = 8/76 (10%)
Query: 396 ELTREKLIQLALLVGSDYTPGLQGVGPVTALEILAKFS-PSDSPNQNYIVESMRRFKNWL 454
E+ R K + +AL + G+G A E L K + ++ + R + ++
Sbjct: 7 EIPRNKRVDVAL-------TYIYGIGKARAKEALEKTGINPATRVKDLTEAEVVRLREYV 59
Query: 455 AKKNKPDTHLTRKLRN 470
K + L ++
Sbjct: 60 ENTWKLEGELRAEVAA 75
>d1mjia_ d.77.1.1 (A:) Ribosomal protein L5 {Thermus thermophilus
[TaxId: 274]}
Length = 180
Score = 26.0 bits (57), Expect = 8.1
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 270 TITEQMSREAQELLQLFGVPF 290
T + EA+ LL+L G PF
Sbjct: 158 VTTAETDEEARALLELLGFPF 178
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
0.315 0.133 0.376
Gapped
Lambda K H
0.267 0.0572 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 13730
Number of Hits to DB: 1,954,036
Number of extensions: 94297
Number of successful extensions: 259
Number of sequences better than 10.0: 1
Number of HSP's gapped: 252
Number of HSP's successfully gapped: 40
Length of query: 538
Length of database: 2,407,596
Length adjustment: 90
Effective length of query: 448
Effective length of database: 1,171,896
Effective search space: 525009408
Effective search space used: 525009408
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: 42 (22.0 bits)
S2: 55 (25.3 bits)