RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10683
(429 letters)
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double
chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces
cerevisiae}
Length = 800
Score = 444 bits (1143), Expect = e-150
Identities = 115/297 (38%), Positives = 172/297 (57%), Gaps = 12/297 (4%)
Query: 141 DHRHRMTEQEEDEELLANANTEGKTIVSFENSPFYIKGGEMRDYQVRGLNWMISLYENGI 200
H + + +N ++ P +IKGGE+RD+Q+ G+NWM L+ G
Sbjct: 197 KHFQNRENSKILPQYSSNYTSQRPRFEKLSVQPPFIKGGELRDFQLTGINWMAFLWSKGD 256
Query: 201 NGILADEMGLGKTLQTISLLGYMKHYRNIAGPHIVIVPKSTLLNWMNEFKKWCPTLRAIC 260
NGILADEMGLGKT+QT++ + ++ R GPHI++VP ST+ W++ F+KW P L IC
Sbjct: 257 NGILADEMGLGKTVQTVAFISWLIFARRQNGPHIIVVPLSTMPAWLDTFEKWAPDLNCIC 316
Query: 261 LIGDQDARNAMIRDVMMPGE---------WDVCITSYEMCIRERGVFKKFNWRYLVIDEA 311
+G+Q +R+ + ++V +T+YE +++R W+++ +DEA
Sbjct: 317 YMGNQKSRDTIREYEFYTNPRAKGKKTMKFNVLLTTYEYILKDRAELGSIKWQFMAVDEA 376
Query: 312 HRIKNEKSKLSEIVREFKTTNRLLLTGTPLQNNLHELWALLNFLLPDIFSSSDDFDSWFN 371
HR+KN +S L E + FK NR+L+TGTPLQNN+ EL AL+NFL+P F+ + D
Sbjct: 377 HRLKNAESSLYESLNSFKVANRMLITGTPLQNNIKELAALVNFLMPGRFTIDQEIDFENQ 436
Query: 372 TEEFMGDHSIIERLHSVLKPFLLRRLKSEVEKRLKPKKELKVYVGLSKMQREWYTKV 428
EE I LH ++PF+LRRLK +VEK L K E + V LS +Q E+Y +
Sbjct: 437 DEE---QEEYIHDLHRRIQPFILRRLKKDVEKSLPSKTERILRVELSDVQTEYYKNI 490
Score = 107 bits (268), Expect = 5e-25
Identities = 31/75 (41%), Positives = 46/75 (61%)
Query: 2 TEQEEDEELLANANTEGKTIVSFENSPFYIKGGEMRDYQVRGLNWMISLYENGINGILAD 61
+ + +N ++ P +IKGGE+RD+Q+ G+NWM L+ G NGILAD
Sbjct: 203 ENSKILPQYSSNYTSQRPRFEKLSVQPPFIKGGELRDFQLTGINWMAFLWSKGDNGILAD 262
Query: 62 EMGLGKTLQTISLLG 76
EMGLGKT+QT++ +
Sbjct: 263 EMGLGKTVQTVAFIS 277
>1z3i_X Similar to RAD54-like; recombination ATPase helicase,
recombination-DNA binding COM; 3.00A {Danio rerio} SCOP:
c.37.1.19 c.37.1.19
Length = 644
Score = 376 bits (967), Expect = e-125
Identities = 78/310 (25%), Positives = 126/310 (40%), Gaps = 29/310 (9%)
Query: 146 MTEQEEDEELLANANTEGKTIVSFENSPFYIKGGEMRDYQVRGLNWMISLY-----ENGI 200
+ E + K V P + +R +Q G+ ++ EN
Sbjct: 23 LYEPPAISAHDLIKADKEKLPVHVVVDP--VLSKVLRPHQREGVKFLWDCVTGRRIENSY 80
Query: 201 NGILADEMGLGKTLQTISLLGYMKHYRNIAGPH----IVIVPKSTLLNWMNEFKKWCP-T 255
I+ADEMGLGKTLQ I+L+ + P IV+ P S + NW NE KW
Sbjct: 81 GCIMADEMGLGKTLQCITLIWTLLKQSPDCKPEIDKVIVVSPSSLVRNWYNEVGKWLGGR 140
Query: 256 LRAICLIGDQDARNA-----MIRDVMMPGEWDVCITSYEMCIRERGVFKKFNWRYLVIDE 310
++ + + G I M + I SYE V K ++ DE
Sbjct: 141 VQPVAIDGGSKDEIDSKLVNFISQQGMRIPTPILIISYETFRLHAEVLHKGKVGLVICDE 200
Query: 311 AHRIKNEKSKLSEIVREFKTTNRLLLTGTPLQNNLHELWALLNFLLPDIFSSSDDFDSWF 370
HR+KN ++ + R+L++GTP+QN+L E ++L++F+ I ++ +F F
Sbjct: 201 GHRLKNSDNQTYLALNSMNAQRRVLISGTPIQNDLLEYFSLVHFVNSGILGTAQEFKKRF 260
Query: 371 NTEEFMGDHS------------IIERLHSVLKPFLLRRLKSEVEKRLKPKKELKVYVGLS 418
G + ++ L S++ L+RR + K L K E V L+
Sbjct: 261 EIPILKGRDADASDKDRAAGEQKLQELISIVNRCLIRRTSDILSKYLPVKIEQVVCCNLT 320
Query: 419 KMQREWYTKV 428
+Q+E Y
Sbjct: 321 PLQKELYKLF 330
Score = 88.5 bits (220), Expect = 5e-19
Identities = 27/93 (29%), Positives = 38/93 (40%), Gaps = 14/93 (15%)
Query: 1 MTEQEEDEELLANANTEGKTIVSFENSPFYIKGGEMRDYQVRGLNWMISLY-----ENGI 55
+ E + K V P + +R +Q G+ ++ EN
Sbjct: 23 LYEPPAISAHDLIKADKEKLPVHVVVDP--VLSKVLRPHQREGVKFLWDCVTGRRIENSY 80
Query: 56 NGILADEMGLGKTLQTISLLGPKIDRFDYLLKQ 88
I+ADEMGLGKTLQ I+L+ LLKQ
Sbjct: 81 GCIMADEMGLGKTLQCITLIW-------TLLKQ 106
>1z63_A Helicase of the SNF2/RAD54 hamily; protein-DNA complex,
hydrolase/DNA complex complex; 3.00A {Sulfolobus
solfataricus} SCOP: c.37.1.19 c.37.1.19 PDB: 1z6a_A
Length = 500
Score = 262 bits (672), Expect = 6e-83
Identities = 90/252 (35%), Positives = 137/252 (54%), Gaps = 12/252 (4%)
Query: 179 GEMRDYQVRGLNWMISLYENGINGILADEMGLGKTLQTISLLGYMKHYRNIAGPHIVIVP 238
+R YQ++G +WM + + G LAD+MGLGKTLQTI++ K N P +VI P
Sbjct: 36 ANLRPYQIKGFSWMRFMNKLGFGICLADDMGLGKTLQTIAVFSDAKK-ENELTPSLVICP 94
Query: 239 KSTLLNWMNEFKKWCPTLRAICLIGDQDARNAMIRDVMMPGEWDVCITSYEMCIRERGVF 298
S L NW E K+ P LR D+ ++D+ +T+Y + +R+
Sbjct: 95 LSVLKNWEEELSKFAPHLRFAVFHEDRSKIKL--------EDYDIILTTYAVLLRDT-RL 145
Query: 299 KKFNWRYLVIDEAHRIKNEKSKLSEIVREFKTTNRLLLTGTPLQNNLHELWALLNFLLPD 358
K+ W+Y+VIDEA IKN ++K+ + V+E K+ R+ LTGTP++N + +LW+++ FL P
Sbjct: 146 KEVEWKYIVIDEAQNIKNPQTKIFKAVKELKSKYRIALTGTPIENKVDDLWSIMTFLNPG 205
Query: 359 IFSSSDDFDSWFNTEEFMGDHSIIERLHSVLKPFLLRRLKSE--VEKRLKPKKELKVYVG 416
+ S +F S F T GD+ E L +++ PF+LRR K + + L K E VY
Sbjct: 206 LLGSYSEFKSKFATPIKKGDNMAKEELKAIISPFILRRTKYDKAIINDLPDKIETNVYCN 265
Query: 417 LSKMQREWYTKV 428
L+ Q Y
Sbjct: 266 LTPEQAAMYKAE 277
Score = 84.5 bits (210), Expect = 6e-18
Identities = 20/42 (47%), Positives = 29/42 (69%)
Query: 34 GEMRDYQVRGLNWMISLYENGINGILADEMGLGKTLQTISLL 75
+R YQ++G +WM + + G LAD+MGLGKTLQTI++
Sbjct: 36 ANLRPYQIKGFSWMRFMNKLGFGICLADDMGLGKTLQTIAVF 77
>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription
factor, RNA polymerase recycling, activator,
ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}
Length = 968
Score = 173 bits (440), Expect = 2e-47
Identities = 49/248 (19%), Positives = 94/248 (37%), Gaps = 23/248 (9%)
Query: 180 EMRDYQVRGLNWMISLYENGINGILADEMGLGKTLQTISLLGYMKHYRNIAGPHIVIVPK 239
+ +Q+ + + + + +LADE+GLGKT++ +L A ++IVP+
Sbjct: 153 SLIPHQLNIAHDVGRRHAPRV--LLADEVGLGKTIEAGMILHQQLL-SGAAERVLIIVPE 209
Query: 240 STLLNWMNEFKKWCPTLRAICLIGDQDARNAMIRDVMMPGEW-DVCITSYEMCIRERGVF 298
+ W+ E + LR ++ A D P + + I S + R +
Sbjct: 210 TLQHQWLVEMLRRF-NLRFALFDDERYAE--AQHDAYNPFDTEQLVICSLDFARRSKQRL 266
Query: 299 KKF---NWRYLVIDEAHRI---KNEKSKLSEIVREF--KTTNRLLLTGTPLQNNLHELWA 350
+ W LV+DEAH + ++ S+ + + + LLLT TP Q + +A
Sbjct: 267 EHLCEAEWDLLVVDEAHHLVWSEDAPSREYQAIEQLAEHVPGVLLLTATPEQLGMESHFA 326
Query: 351 LLNFLLPDIFSSSDDFDSWFN----TEEFMGDHSIIERL----HSVLKPFLLRRLKSEVE 402
L L P+ F F + + +L ++L + + +
Sbjct: 327 RLRLLDPNRFHDFAQFVEEQKNYCPVADAVAMLLAGNKLSNDELNMLGEMIGEQDIEPLL 386
Query: 403 KRLKPKKE 410
+ E
Sbjct: 387 QAANSDSE 394
Score = 58.2 bits (140), Expect = 3e-09
Identities = 11/47 (23%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 35 EMRDYQVRGLNWMISLYENGINGILADEMGLGKTLQTISLLGPKIDR 81
+ +Q+ + + + + +LADE+GLGKT++ +L ++
Sbjct: 153 SLIPHQLNIAHDVGRRHAPRV--LLADEVGLGKTIEAGMILHQQLLS 197
>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein;
HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19
c.37.1.19 PDB: 2fzl_A*
Length = 472
Score = 69.1 bits (169), Expect = 7e-13
Identities = 27/170 (15%), Positives = 55/170 (32%), Gaps = 27/170 (15%)
Query: 172 SPFYIKGGEMRDYQVRGLNWMISLYENGINGILADEMGLGKTLQTISLLGYMKHYRNIAG 231
+P++ +RDYQ + L + + G + G GKT +++ +
Sbjct: 85 TPYFDAEISLRDYQEKALERWL---VDK-RGCIVLPTGSGKTH--VAMAAINELSTPT-- 136
Query: 232 PHIVIVPKSTLLN-WMNEFKKWCPTLRAICLIGDQDARNAMIRDVMMPGEWDVCITSYEM 290
+++VP L W + + + + +++Y+
Sbjct: 137 --LIVVPTLALAEQWKERLGIF--GEEYVGEFSGRIKELK-----------PLTVSTYDS 181
Query: 291 CIRERGVFKKFNWRYLVIDEAHRIKNEKSKLSEIVREFKTTNRLLLTGTP 340
+ L+ DE H + E +I + RL LT T
Sbjct: 182 AYVNAEKLGN-RFMLLIFDEVHHLPAE--SYVQIAQMSIAPFRLGLTATF 228
Score = 28.3 bits (63), Expect = 6.2
Identities = 11/43 (25%), Positives = 19/43 (44%), Gaps = 4/43 (9%)
Query: 27 SPFYIKGGEMRDYQVRGLNWMISLYENGINGILADEMGLGKTL 69
+P++ +RDYQ + L + + G + G GKT
Sbjct: 85 TPYFDAEISLRDYQEKALERWL---VDK-RGCIVLPTGSGKTH 123
>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA
repair, DNA recombina hydrolase; 2.90A {Pyrococcus
furiosus} SCOP: c.37.1.19 c.37.1.19
Length = 494
Score = 67.9 bits (165), Expect = 2e-12
Identities = 44/252 (17%), Positives = 85/252 (33%), Gaps = 26/252 (10%)
Query: 180 EMRDYQVRGLNWMISLYENGINGILADEMGLGKTLQTISLLGYMKHYRNIAGPHIVIVPK 239
+ R YQ N + + GLGKTL + + Y G +++ P
Sbjct: 9 QPRIYQEVIYA--KCKETNCL---IVLPTGLGKTLIAMMIAEY--RLTKYGGKVLMLAPT 61
Query: 240 STLLN-WMNEFKKWC--PTLRAICLIGD--QDARNAMIRDVMMPGEWDVCITSYEMCIRE 294
L+ F++ P + + L G+ + R+ V + + + +
Sbjct: 62 KPLVLQHAESFRRLFNLPPEKIVALTGEKSPEERSKAWARA------KVIVATPQTIEND 115
Query: 295 --RGVFKKFNWRYLVIDEAHRIKNEKSKLSEIVREFKTTNR----LLLTGTPLQNNLHEL 348
G + +V DEAHR + I RE+K + + LT +P +
Sbjct: 116 LLAGRISLEDVSLIVFDEAHRAVGNYAY-VFIAREYKRQAKNPLVIGLTASPGSTPEKIM 174
Query: 349 WALLNFLLPDIFSSSDDFDSWFNTEEFMGDHSIIERLHSVLKPFLLRRLKSEVEKRLKPK 408
+ N + I S++ + + + L + + + L+ + LKP
Sbjct: 175 EVINNLGIEHIEYRSENSPDVRPYVKGIRFEWVRVDL-PEIYKEVRKLLREMLRDALKPL 233
Query: 409 KELKVYVGLSKM 420
E + S
Sbjct: 234 AETGLLESSSPD 245
Score = 27.8 bits (61), Expect = 9.0
Identities = 10/35 (28%), Positives = 13/35 (37%), Gaps = 5/35 (14%)
Query: 35 EMRDYQVRGLNWMISLYENGINGILADEMGLGKTL 69
+ R YQ N + + GLGKTL
Sbjct: 9 QPRIYQEVIYA--KCKETNCL---IVLPTGLGKTL 38
>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition
domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus
fulgidus} SCOP: c.37.1.19
Length = 237
Score = 65.5 bits (160), Expect = 2e-12
Identities = 26/163 (15%), Positives = 51/163 (31%), Gaps = 27/163 (16%)
Query: 179 GEMRDYQVRGLNWMISLYENGINGILADEMGLGKTLQTISLLGYMKHYRNIAGPHIVIVP 238
+RDYQ + L + + G + G GKT ++ + + +++VP
Sbjct: 92 ISLRDYQEKALERWL---VDK-RGCIVLPTGSGKTHVAMAAINELS--TPT----LIVVP 141
Query: 239 KSTLLN-WMNEFKKWCPTLRAICLIGDQDARNAMIRDVMMPGEWDVCITSYEMCIRERGV 297
L W + + + + +++Y+
Sbjct: 142 TLALAEQWKERLGIFGE--EYVGEFSGRIKELK-----------PLTVSTYDSAYVNAEK 188
Query: 298 FKKFNWRYLVIDEAHRIKNEKSKLSEIVREFKTTNRLLLTGTP 340
+ L+ DE H + E +I + RL LT T
Sbjct: 189 LGN-RFMLLIFDEVHHLPAE--SYVQIAQMSIAPFRLGLTATF 228
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 47.5 bits (112), Expect = 7e-06
Identities = 49/361 (13%), Positives = 103/361 (28%), Gaps = 110/361 (30%)
Query: 130 LTKEKKNVD----------PSDHRHRMTEQEEDEELLAN-ANT-------EGKTIVSFEN 171
T+ K+ D DH +E + LL + E T
Sbjct: 271 TTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT----- 325
Query: 172 SPFYIK--GGEMRDYQVRGLNWMISLYENGINGILADEMGLGKTLQTISLLGYMKHYRNI 229
+P + +RD NW + + I+ +L + Y K + +
Sbjct: 326 NPRRLSIIAESIRDGLATWDNWKHVNCDK-LTTIIE------SSLNVLEPAEYRKMFDRL 378
Query: 230 AGPHI----VIVPKSTL-LNW-----------MNEFKKWCPTLRAICLIGDQDARNAMIR 273
+ + +P L L W +N+ K+ + I
Sbjct: 379 S---VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYS------LVEKQPKESTISIP 429
Query: 274 DVMMPGEWDVCITS---YEM---CIRERGVFKKFNWRYLVIDE---------AHRIKNEK 318
+ + ++ + Y + + + K F+ L+ H +KN
Sbjct: 430 SIYL----ELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKN-- 483
Query: 319 SKLSEIVREFKTT--------NRLLLTGTPLQNNLHELWALLNFLLPDIFSSSDDFDSWF 370
+ E + F+ ++ T W +L + +
Sbjct: 484 IEHPERMTLFRMVFLDFRFLEQKIRHDSTA--------WNASGSILNTL----QQLKFY- 530
Query: 371 NTEEFMGDHS-IIERLHSVLKPFLLRR----LKSE----VEKRLKPKKELKVYVGLSKMQ 421
+ ++ D+ ERL + + FL + + S+ + L + E ++Q
Sbjct: 531 --KPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQVQ 588
Query: 422 R 422
R
Sbjct: 589 R 589
Score = 36.0 bits (82), Expect = 0.026
Identities = 50/324 (15%), Positives = 95/324 (29%), Gaps = 107/324 (33%)
Query: 133 EKKNVDPSDHRHRMTEQEEDEELLANANTEGKTIVSFENSPFYIKGGEMRDYQVRGL-NW 191
+ + PS EQ + + ++ + K R L
Sbjct: 99 KTEQRQPSMMTRMYIEQRD---------------RLYNDNQVFAKYNVSRLQPYLKLRQA 143
Query: 192 MISLYENGINGILADEM-GLGKTLQTISLLGYMKHYRNIAGPHIVIVPKSTLLNWMNEFK 250
++ L +L D + G GKT + + K + + W+N
Sbjct: 144 LLELRPAK--NVLIDGVLGSGKTWVALDVCLSYKVQCKMDFK----------IFWLNLKN 191
Query: 251 KWCPT-----LRAICLIGDQD--ARNAMIRDVMMPGEWDVCITSYEMCIRERGVFKKF-- 301
P L+ + D + +R+ ++ + I+ ++
Sbjct: 192 CNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS----------IQAE--LRRLLK 239
Query: 302 NWRY----LVIDEAHRIKNEKSKLSEIVREFKTTNRLLLTGT------------------ 339
+ Y LV+ ++N ++ F + ++LLT T
Sbjct: 240 SKPYENCLLVLLN---VQN-----AKAWNAFNLSCKILLT-TRFKQVTDFLSAATTTHIS 290
Query: 340 --PLQNNLHE---LWALLNFL------LP-----------DIFSSS--DDFDSWFNTEEF 375
L LL +L LP I + S D +W N +
Sbjct: 291 LDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHV 350
Query: 376 MGD--HSIIERLHSVLKPFLLRRL 397
D +IIE +VL+P R++
Sbjct: 351 NCDKLTTIIESSLNVLEPAEYRKM 374
Score = 34.4 bits (78), Expect = 0.074
Identities = 51/353 (14%), Positives = 103/353 (29%), Gaps = 106/353 (30%)
Query: 3 EQEEDEELLAN-ANT-------EGKTIVSFENSPFYIK--GGEMRDYQVRGLNWMISLYE 52
+E + LL + E T +P + +RD NW +
Sbjct: 299 TPDEVKSLLLKYLDCRPQDLPREVLTT-----NPRRLSIIAESIRDGLATWDNWKHVNCD 353
Query: 53 NGINGILADEMGLGKTLQ-TISLLGPKIDR--FDYLLKQTEIFSHFMTNQGVKGGGPKTA 109
L ++ ++++L P R FD L +F
Sbjct: 354 K-----------LTTIIESSLNVLEPAEYRKMFDRL----SVF----------------- 381
Query: 110 APASAAAPGTPKAKGRPKKSLT---KEKKNVDPSD-----HRHRMTEQEEDE-------- 153
P + P L+ + D H++ + E++ E
Sbjct: 382 ----------PPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI 431
Query: 154 --ELLANANTEG---KTIVSFENSPFYIKGGEMRDYQVRG-LNWMIS--LYENGINGILA 205
EL E ++IV N P ++ + I L
Sbjct: 432 YLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIE----HP 487
Query: 206 DEMGLGKTLQTISL-LGYMKHYRNIAGPHIVIVPKSTLLNWMNEFKKWCPTLRAICLIGD 264
+ M L + + L +++ + I ++LN + + K + IC D
Sbjct: 488 ERMTL---FRMVFLDFRFLE--QKIRHDSTAWNASGSILNTLQQLKFY---KPYIC---D 536
Query: 265 QDARN-AMIRDVM--MPGEWDVCITSYEMCIRERGVFKKFNWRYLVIDEAHRI 314
D + ++ ++ +P + I S + + + + +EAH+
Sbjct: 537 NDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEA---IFEEAHKQ 586
>3h1t_A Type I site-specific restriction-modification system, R
(restriction) subunit; hydrolase, restriction enzyme
HSDR, ATP-binding; 2.30A {Vibrio vulnificus}
Length = 590
Score = 45.5 bits (108), Expect = 2e-05
Identities = 37/209 (17%), Positives = 69/209 (33%), Gaps = 30/209 (14%)
Query: 149 QEEDEELLANANTEGKTIVSFENSPFYIKGG-EMRDYQVRGLNWMISLYENGINGILADE 207
+E + L + SP++ G R YQ +N + G L
Sbjct: 146 PDELFKRLCGDEGIKDEDLDTLLSPYHHVSGYSPRYYQQIAINRAVQSVLQGKKRSLI-T 204
Query: 208 M--GLGKTLQTISLLGYMKHYRNIAGPHIV------IVPKSTLLN-WMNEFKKWCPTLRA 258
M G GKT+ + + R + ++ L++ ++ R
Sbjct: 205 MATGTGKTVVAFQISWKLWSARWNRTGDYRKPRILFLADRNVLVDDPKDKTFTPFGDARH 264
Query: 259 ICLIGDQDARNAMIRDVMMPGEWDVCITSYEM---CIRERGVFKKFN---WRYLVIDEAH 312
G ++ Y+ R G++K+F + ++IDE H
Sbjct: 265 KIEGGKVVK------------SREIYFAIYQSIASDERRPGLYKEFPQDFFDLIIIDECH 312
Query: 313 R-IKNEKSKLSEIVREFKTTNRLLLTGTP 340
R + S EI+ F+ ++ +T TP
Sbjct: 313 RGSARDNSNWREILEYFEPAFQIGMTATP 341
Score = 27.8 bits (62), Expect = 7.8
Identities = 16/68 (23%), Positives = 23/68 (33%), Gaps = 4/68 (5%)
Query: 4 QEEDEELLANANTEGKTIVSFENSPFYIKGG-EMRDYQVRGLNWMISLYENGINGILADE 62
+E + L + SP++ G R YQ +N + G L
Sbjct: 146 PDELFKRLCGDEGIKDEDLDTLLSPYHHVSGYSPRYYQQIAINRAVQSVLQGKKRSLI-T 204
Query: 63 M--GLGKT 68
M G GKT
Sbjct: 205 MATGTGKT 212
>1z5z_A Helicase of the SNF2/RAD54 family; hydrolase, recombination,
hydrolase-recombination complex; 2.00A {Sulfolobus
solfataricus} SCOP: c.37.1.19
Length = 271
Score = 44.1 bits (105), Expect = 4e-05
Identities = 11/46 (23%), Positives = 14/46 (30%), Gaps = 1/46 (2%)
Query: 383 ERLHSVLKPFLLRRLKSEVEKRLKPKKELKVYVGLSKMQREWYTKV 428
H L+ S + L K E VY L+ Q Y
Sbjct: 4 SHHHHHHSSGLVP-RGSHMASDLPDKIETNVYCNLTPEQAAMYKAE 48
>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 = 43.9 bits (103), Expect = 1e-04
Identities = 37/240 (15%), Positives = 75/240 (31%), Gaps = 83/240 (34%)
Query: 21 IVSFENSP--FYIKGGEMRDYQVRGLNWMISLYENGINGILADE---MGLGKTLQTISLL 75
IV N+P I G + ++R N+ ++E ++G L E + + + +
Sbjct: 1664 IV--INNPVNLTIHFGGEKGKRIRE-NYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFR 1720
Query: 76 GPKIDRFDYLLKQTE------------IFSHFMTNQGVKGGGPKTAAPA-------SA-A 115
K LL T+ F + ++G+ P A A +A A
Sbjct: 1721 SEKG-----LLSATQFTQPALTLMEKAAFED-LKSKGLI---PADATFAGHSLGEYAALA 1771
Query: 116 APG----------TPKAKGR------PKKSLTKEKK---NVDPSDHRHRMTEQ------- 149
+ +G P+ L + ++P +++
Sbjct: 1772 SLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVE 1831
Query: 150 ---EEDEELL--ANANTEGKTIVSFENSPFYIKGGEMRDYQVRGLNWMIS-LYENGINGI 203
+ L+ N N E + V+ G+ +R L+ + + L + I
Sbjct: 1832 RVGKRTGWLVEIVNYNVENQQYVA---------AGD-----LRALDTVTNVLNFIKLQKI 1877
Score = 38.5 bits (89), Expect = 0.004
Identities = 73/458 (15%), Positives = 128/458 (27%), Gaps = 183/458 (39%)
Query: 10 LLANANTEGKTIVS-FE---NSPFYIKGGEMRDYQVRGLNWMISLYE--NGINGILADEM 63
L +V+ F N+ Y + E+RD LY+ + + G L
Sbjct: 145 LFRAVGEGNAQLVAIFGGQGNTDDYFE--ELRD-----------LYQTYHVLVGDLIKFS 191
Query: 64 GLGKTLQTISLLGPKIDRFDYLLKQTEIFSH------FMTNQGVKGGGPKTAAPASAAA- 116
+TL + ++ F+ ++ N P S
Sbjct: 192 A--ETLSELIRTTLDAEKV---------FTQGLNILEWLENPSNT---PDKDYLLSIPIS 237
Query: 117 -PG-----------TPKAKGRPKKSLTKEKKNVDPSDHRHRM---TEQEEDEELL-ANAN 160
P T K G P + R + T + L+ A A
Sbjct: 238 CPLIGVIQLAHYVVTAKLLG------------FTPGELRSYLKGATGHSQG--LVTAVAI 283
Query: 161 TEGKTIVSF-ENSP------FYI----------------------KGGE-----MRDYQV 186
E + SF + F+I + E M +
Sbjct: 284 AETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPM--LSI 341
Query: 187 RGLNWMISLYENGI---NGILADEMGLGKTLQTISLL-GYMKHYRN--IAGPHIVIVPKS 240
L ++ + N L K ++ ISL+ G +N ++GP P+S
Sbjct: 342 SNLT--QEQVQDYVNKTNSHLPAG----KQVE-ISLVNGA----KNLVVSGP-----PQS 385
Query: 241 TLLNWMNEFKKWCPTLRAICLIGDQDARNAMIRDVMMPGEWDVCITSYEMCIRERGVFKK 300
L + L +R P D + ER + K
Sbjct: 386 ---------------LYGLNL---------TLRKAKAPSGLDQSRIPF----SERKL--K 415
Query: 301 FNWRYLVIDEA-HRIKNEKSKL----SEIVREFKTTNRLLLTGTPLQ---------NNLH 346
F+ R+L + H S L S+++ + N + +Q ++L
Sbjct: 416 FSNRFLPVASPFH------SHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLR 469
Query: 347 ELWA-LLNFLLPDIFSSSDDFDSWFNTEEFMGDHSIIE 383
L + ++ I W T +F H I++
Sbjct: 470 VLSGSISERIVDCIIRLPVK---WETTTQFKATH-ILD 503
Score = 33.9 bits (77), Expect = 0.13
Identities = 33/233 (14%), Positives = 76/233 (32%), Gaps = 68/233 (29%)
Query: 211 GKTLQTISLLGYMKHYRNIAGPHIVIVPKSTLLNWMN------EFKKWCPTLRAICLIGD 264
+ + ++L + ++ H+++VP ++ + +F K P D
Sbjct: 3 AYSTRPLTL-----SHGSLE--HVLLVPTAS---FFIASQLQEQFNKILPE-PTEGFAAD 51
Query: 265 QD--------ARN-AMIRDVMMPGEWDVCITSYEMCIRERGVFKKFNWRYLVIDEAHRI- 314
+ + + ++ P + + ++ + +F YL ++ H +
Sbjct: 52 DEPTTPAELVGKFLGYVSSLVEPSK----VGQFDQVLNL--CLTEFENCYLEGNDIHALA 105
Query: 315 -------KNEKSKLSEIVREFKTTNRLLLTGTPLQNNLHELWALLN---------FLLPD 358
K E+++ + T ++ P + AL
Sbjct: 106 AKLLQENDTTLVKTKELIKNYITA--RIMAKRPFDKKSNS--ALFRAVGEGNAQLVA--- 158
Query: 359 IF---SSSDD-FD---SWFNT-EEFMGDHSIIERLHSVLKPFLLRRLKSEVEK 403
IF ++DD F+ + T +GD +I+ L L R + EK
Sbjct: 159 IFGGQGNTDDYFEELRDLYQTYHVLVGD--LIKFSAETLSE--LIRTTLDAEK 207
Score = 31.6 bits (71), Expect = 0.63
Identities = 10/58 (17%), Positives = 20/58 (34%), Gaps = 17/58 (29%)
Query: 4 QEEDEELL--ANANTEGKTIVSFENSPFYIKGGEMRDYQVRGLNWMIS-LYENGINGI 58
+ L+ N N E + V+ G+ +R L+ + + L + I
Sbjct: 1834 GKRTGWLVEIVNYNVENQQYVA---------AGD-----LRALDTVTNVLNFIKLQKI 1877
>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.40A {Anas platyrhynchos}
Length = 797
Score = 43.0 bits (100), Expect = 2e-04
Identities = 31/214 (14%), Positives = 70/214 (32%), Gaps = 16/214 (7%)
Query: 123 KGRPKKSLTKEKKNVDPSDHRHRMTEQEEDEELLANANTEGKTIVSFENSPFYIKGGEMR 182
+ K + E + MT EE E + G P + + R
Sbjct: 191 REDNAKDVDSEMTDASEDCLEASMTYSEEAEPDDNLSENLGSAAEGIGKPPPVYETKKAR 250
Query: 183 DYQVRGLNWMISLYENGINGILADEMGLGKTLQTISLLGYMKHYRNIAGPH----IVIVP 238
YQ+ + NG N ++ G GKT +S+L H++N+ + +
Sbjct: 251 SYQIE----LAQPAINGKNALICAPTGSGKTF--VSILICEHHFQNMPAGRKAKVVFLAT 304
Query: 239 KSTLLN-WMNEFKKWCPTLRAICLIGDQDARNAMIRDVMMPGEWDVCITSYEM---CIRE 294
K + N FK + + + + ++ + D+ + + ++ +
Sbjct: 305 KVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIE-DSDIIVVTPQILVNSFED 363
Query: 295 RGVFKKFNWRYLVIDEAHRIKNEKSKLSEIVREF 328
+ + ++ DE H + ++ +
Sbjct: 364 GTLTSLSIFTLMIFDECHNTTG-NHPYNVLMTRY 396
Score = 27.6 bits (60), Expect = 8.8
Identities = 17/69 (24%), Positives = 24/69 (34%), Gaps = 4/69 (5%)
Query: 1 MTEQEEDEELLANANTEGKTIVSFENSPFYIKGGEMRDYQVRGLNWMISLYENGINGILA 60
MT EE E + G P + + R YQ+ + NG N ++
Sbjct: 214 MTYSEEAEPDDNLSENLGSAAEGIGKPPPVYETKKARSYQIE----LAQPAINGKNALIC 269
Query: 61 DEMGLGKTL 69
G GKT
Sbjct: 270 APTGSGKTF 278
>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.70A {Anas platyrhynchos}
Length = 936
Score = 39.9 bits (92), Expect = 0.002
Identities = 32/215 (14%), Positives = 69/215 (32%), Gaps = 15/215 (6%)
Query: 123 KGRPKKSLTKEKKNVDPSDHRHRMTEQEEDEELLANANTEGKTIVSFENSPFYIKGGEMR 182
+ K + E + MT EE E + G P + + R
Sbjct: 191 REDNAKDVDSEMTDASEDCLEASMTYSEEAEPDDNLSENLGSAAEGIGKPPPVYETKKAR 250
Query: 183 DYQVRGLNWMISLYENGINGILADEMGLGKTLQTISLLGYMKHYRNIAGPH----IVIVP 238
YQ+ + NG N ++ G GKT +S+L H++N+ + +
Sbjct: 251 SYQIE----LAQPAINGKNALICAPTGSGKTF--VSILICEHHFQNMPAGRKAKVVFLAT 304
Query: 239 KSTLLN-WMNEFKKWCPTLRAICLIGDQDARNAMIRDVMMPGEWDVCITSYEM---CIRE 294
K + N FK + + + + ++ + D+ + + ++ +
Sbjct: 305 KVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIE-DSDIIVVTPQILVNSFED 363
Query: 295 RGVFKKFNWRYLVIDEAHRIKNEKSKLSEIVREFK 329
+ + ++ DE H + R +
Sbjct: 364 GTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLE 398
Score = 28.0 bits (61), Expect = 6.8
Identities = 17/69 (24%), Positives = 24/69 (34%), Gaps = 4/69 (5%)
Query: 1 MTEQEEDEELLANANTEGKTIVSFENSPFYIKGGEMRDYQVRGLNWMISLYENGINGILA 60
MT EE E + G P + + R YQ+ + NG N ++
Sbjct: 214 MTYSEEAEPDDNLSENLGSAAEGIGKPPPVYETKKARSYQIE----LAQPAINGKNALIC 269
Query: 61 DEMGLGKTL 69
G GKT
Sbjct: 270 APTGSGKTF 278
>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H
RNA-binding helicase, innate immunity, IFIH1, S
genomics; 1.60A {Homo sapiens}
Length = 216
Score = 38.6 bits (90), Expect = 0.002
Identities = 31/162 (19%), Positives = 62/162 (38%), Gaps = 20/162 (12%)
Query: 180 EMRDYQVRGLNWMISLYENGINGILADEMGLGKTLQTISLLGYMKHYRNIAGPH---IVI 236
++R YQ+ + G N I+ G GKT + + + A IV+
Sbjct: 33 QLRPYQME----VAQPALEGKNIIICLPTGSGKTRVAVYIAKDHLDKKKKASEPGKVIVL 88
Query: 237 VPKSTLLN--WMNEFKKW-CPTLRAICLIGD---QDARNAMIRD----VMMPGEWDVCIT 286
V K L+ + EF+ + R I L GD + + +++ + + +
Sbjct: 89 VNKVLLVEQLFRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCDIIISTAQILENSLL 148
Query: 287 SYEMCIRERGVFKKFNWRYLVIDEAHRIKNEKSKLSEIVREF 328
+ E F+ ++IDE H +++ + I+R +
Sbjct: 149 NLENGEDAGVQLSDFS--LIIIDECHHTN-KEAVYNNIMRHY 187
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 38.7 bits (89), Expect = 0.004
Identities = 18/155 (11%), Positives = 51/155 (32%), Gaps = 12/155 (7%)
Query: 180 EMRDYQVRGLNWMISLYENGINGILADEMGLGKTLQTISLLGYMKHYRNIAGPH--IVIV 237
+ R+YQ+ G N I+ G GKT ++ + + +
Sbjct: 4 KPRNYQLELALPAKK----GKNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVFFA 59
Query: 238 PKSTLLN-WMNEFKKWCPTLRAICLIGDQDARNAMIRDVMMPGEWDVCITSYEM---CIR 293
+ + F ++ L +++ ++ + D+ I + ++ +
Sbjct: 60 NQIPVYEQQATVFSRYFERLGYNIASISGATSDSVSVQHII-EDNDIIILTPQILVNNLN 118
Query: 294 ERGVFKKFNWRYLVIDEAHRIKNEKSKLSEIVREF 328
+ + ++ DE H + ++I+ +
Sbjct: 119 NGAIPSLSVFTLMIFDECHNTS-KNHPYNQIMFRY 152
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 34.2 bits (77), Expect = 0.085
Identities = 23/154 (14%), Positives = 56/154 (36%), Gaps = 14/154 (9%)
Query: 182 RDYQVRGLNWMISLYENGINGILADEMGLGKTLQTISLLGYM--KHYRNIAGPHIVIVPK 239
R+YQ+ + G N I+ G GKT ++ + + K + G + +
Sbjct: 15 RNYQLELALPAMK----GKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFANQ 70
Query: 240 STLLN-WMNEFKKWCP-TLRAICLIGDQDARNAMIRDVMMPGEWDVCITSYEM---CIRE 294
+ + F K+ + I A N + ++ D+ I + ++ +++
Sbjct: 71 IPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVE--NNDIIILTPQILVNNLKK 128
Query: 295 RGVFKKFNWRYLVIDEAHRIKNEKSKLSEIVREF 328
+ + ++ DE H + + I+ +
Sbjct: 129 GTIPSLSIFTLMIFDECHNTSK-QHPYNMIMFNY 161
>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding,
hydrolase, nucleotide- binding; 2.00A {Pyrococcus
furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*
Length = 720
Score = 34.1 bits (78), Expect = 0.11
Identities = 39/195 (20%), Positives = 67/195 (34%), Gaps = 39/195 (20%)
Query: 194 SLYENGINGILADEMGLGKTLQTISLLGYMKHYRNIAGPHIVIVPKSTLLN-WMNEFKKW 252
S G N +++ GKTL I+ + + G + IVP L EF+ W
Sbjct: 34 SGILEGKNALISIPTASGKTL--IAEIAMVHRILTQGGKAVYIVPLKALAEEKFQEFQDW 91
Query: 253 CPT-LRAICLIGDQDARNAMIRDVMMPGEWDVCITSYE----MCIRERGVFKKFNWRYLV 307
LR GD D+++ + D+ I + E + K + LV
Sbjct: 92 EKIGLRVAMATGDYDSKDEWLGKY------DIIIATAEKFDSLLRHGSSWIKDV--KILV 143
Query: 308 IDEAHRIKNEK--SKLSEIVREFKTTNRLL-LTGTPLQNNLHELWALLNFLLPDIFSSSD 364
DE H I + + L I+ +++ L+ T + + +
Sbjct: 144 ADEIHLIGSRDRGATLEVILAHMLGKAQIIGLSAT----------------IGNP----E 183
Query: 365 DFDSWFNTEEFMGDH 379
+ W N E + D
Sbjct: 184 ELAEWLNAELIVSDW 198
>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*
Length = 556
Score = 32.6 bits (73), Expect = 0.25
Identities = 25/210 (11%), Positives = 64/210 (30%), Gaps = 18/210 (8%)
Query: 180 EMRDYQVRGLNWMISLYENGINGILADEMGLGKTLQTISLLGYMKHYRNIAGPHIVI--V 237
+ R YQ+ I+ G N ++ G GKT +I + + V+
Sbjct: 7 KARSYQIELAQPAIN----GKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLA 62
Query: 238 PKSTLLN-WMNEFKKWCPTLRAICLIGDQDARNAMIRDVMMPGEWDVCITSYEM---CIR 293
K + N FK + + + + ++ + D+ + + ++
Sbjct: 63 TKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIE-DSDIIVVTPQILVNSFE 121
Query: 294 ERGVFKKFNWRYLVIDEAHRIKNEKSKLSEIVREFKTTNRLLLTGTPLQNNLHELWALLN 353
+ + + ++ DE H + ++ + L + L ++ L
Sbjct: 122 DGTLTSLSIFTLMIFDECHNTTG-NHPYNVLMTRY------LEQKFNSASQLPQILGLTA 174
Query: 354 FLLPDIFSSSDDFDSWFNTEEFMGDHSIIE 383
+ + ++ + D I
Sbjct: 175 SVGVGNAKNIEETIEHICSLCSYLDIQAIS 204
>3iz5_T 60S ribosomal protein L19 (L19E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_T
Length = 209
Score = 30.4 bits (68), Expect = 0.34
Identities = 1/41 (2%), Positives = 5/41 (12%)
Query: 101 VKGGGPKTAAPASAAAPGTPKAKGRPKKSLTKEKKNVDPSD 141
+ + G + +
Sbjct: 62 RARRAHEAKQKGRHSGYGKRRGTREARLPTKILWMRRMRVL 102
>2q2r_A Glucokinase 1, putative; ATPase hexose kinase family, transferase;
HET: BGC ADP; 2.10A {Trypanosoma cruzi}
Length = 373
Score = 30.8 bits (69), Expect = 0.95
Identities = 14/100 (14%), Positives = 29/100 (29%), Gaps = 1/100 (1%)
Query: 72 ISLLGPKIDRFDYLLKQTEIFSHFMTNQGVKGGGPKTAAPASAAAPGTPKAKGRPKKSLT 131
+ + F + + T + G APGT +
Sbjct: 145 VLAVSDA-HVFSEYFGVMWEGTQWRTCEQEPAGSVIGRGRCLVLAPGTGLGSSLIYYNPP 203
Query: 132 KEKKNVDPSDHRHRMTEQEEDEELLANANTEGKTIVSFEN 171
+ V P + + +D + + + E K ++EN
Sbjct: 204 MNQHIVVPLELGSQTLPMRKDIDYIQTLHAELKLFPNYEN 243
>2fvy_A D-galactose-binding periplasmic protein; periplasmic binding
protien, hinge, chemotaxis, transport,; HET: BGC; 0.92A
{Escherichia coli} SCOP: c.93.1.1 PDB: 1glg_A* 2fw0_A*
2gbp_A* 2qw1_A* 2hph_A* 2ipn_A* 2ipm_A* 2ipl_A* 1gca_A*
1gcg_A 3ga5_A* 3gbp_A*
Length = 309
Score = 29.7 bits (67), Expect = 1.8
Identities = 7/24 (29%), Positives = 11/24 (45%), Gaps = 2/24 (8%)
Query: 45 NWMISLYENGINGILA--DEMGLG 66
W+ N I ++A D M +G
Sbjct: 194 AWLSGPNANKIEVVIANNDAMAMG 217
Score = 29.7 bits (67), Expect = 1.8
Identities = 7/24 (29%), Positives = 11/24 (45%), Gaps = 2/24 (8%)
Query: 190 NWMISLYENGINGILA--DEMGLG 211
W+ N I ++A D M +G
Sbjct: 194 AWLSGPNANKIEVVIANNDAMAMG 217
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.8 bits (63), Expect = 1.9
Identities = 7/28 (25%), Positives = 14/28 (50%), Gaps = 9/28 (32%)
Query: 382 IERLHSVLK-------PFLLRRLKSEVE 402
+++L + LK P L +K+ +E
Sbjct: 22 LKKLQASLKLYADDSAPAL--AIKATME 47
Score = 28.0 bits (61), Expect = 3.6
Identities = 11/31 (35%), Positives = 16/31 (51%), Gaps = 7/31 (22%)
Query: 212 KTLQTISLLGYMKHYRNIAGPHIVIVPKSTL 242
K LQ SL K Y + + P + I K+T+
Sbjct: 23 KKLQA-SL----KLYADDSAPALAI--KATM 46
>3izc_t 60S acidic ribosomal protein RPP11 (P1); eukaryotic
ribosome,homology modeling,de novo modeling,ribos
proteins,novel ribosomal proteins; NMR {Saccharomyces
cerevisiae} PDB: 3izs_t
Length = 106
Score = 28.1 bits (62), Expect = 1.9
Identities = 17/88 (19%), Positives = 29/88 (32%), Gaps = 6/88 (6%)
Query: 58 ILADEMGLGKTLQTISLLGPKIDRFDYLLKQTEIFSHFMTNQGVK----GGGPKTAAPAS 113
ILAD + + + + L +IF+ + Q +K AAPA
Sbjct: 13 ILADS-EIEISSEKLLTLT-NAANVPDENIWADIFAKALDGQNLKDLLVNFSAGAAAPAG 70
Query: 114 AAAPGTPKAKGRPKKSLTKEKKNVDPSD 141
A G + +E+ + D
Sbjct: 71 VAGGVAGGEAGEAEAEKEEEEAKEESDD 98
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.2 bits (62), Expect = 3.6
Identities = 8/50 (16%), Positives = 16/50 (32%), Gaps = 9/50 (18%)
Query: 122 AKGRPKKSLTKEKKNVDPSDHRHRMTEQ---------EEDEELLANANTE 162
A + + +EK D + R +EQ D+ + +
Sbjct: 103 AASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQPDAD 152
>3iz5_V 60S ribosomal protein L17 (L22P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_V
Length = 171
Score = 27.2 bits (60), Expect = 4.2
Identities = 5/41 (12%), Positives = 8/41 (19%)
Query: 101 VKGGGPKTAAPASAAAPGTPKAKGRPKKSLTKEKKNVDPSD 141
G A + G AK + +
Sbjct: 65 GGVGRTAQAKSRHSNGQGRWPAKSARFILDLLKNAESNAEV 105
Score = 27.2 bits (60), Expect = 4.2
Identities = 6/39 (15%), Positives = 10/39 (25%)
Query: 103 GGGPKTAAPASAAAPGTPKAKGRPKKSLTKEKKNVDPSD 141
G + + S P R L K ++
Sbjct: 68 GRTAQAKSRHSNGQGRWPAKSARFILDLLKNAESNAEVK 106
>2vl7_A XPD; helicase, unknown function; 2.25A {Sulfolobus tokodaii}
Length = 540
Score = 28.4 bits (63), Expect = 4.7
Identities = 43/301 (14%), Positives = 89/301 (29%), Gaps = 65/301 (21%)
Query: 180 EMRDYQVRGLNWMISLYENGINGILADEMGLGKTLQTISLLGYMKHYRNIAGPHIVIVPK 239
++R +Q L I+ ++G +L + GLGKT+ L G + + I
Sbjct: 7 QLRQWQAEKLGEAINALKHGKTLLLNAKPGLGKTVFVEVL-GMQLKKKVL----IFTRTH 61
Query: 240 STLLNWMNEFKKW-------------CPTLRAICLIGD------------QDARNAMIRD 274
S L + K C + + + +
Sbjct: 62 SQLDSIYKNAKLLGLKTGFLIGKSASCIYAQGDEEPDEINCSKCRLKDKIKTIEDKEPSK 121
Query: 275 VMMPG--EWDVC---------------ITSY----EMCIRERGVFKKFNW-----RYLVI 308
++ D C +Y + IR K + +VI
Sbjct: 122 LIEEFKDAVDYCPYYSLRANLKDKDVIAMTYPYLFQKPIRNSVFCNKDDCLKLEDYLIVI 181
Query: 309 DEAHRIKNEKSKLSEIV--REFKTTNRLLLTGTPLQN-NLHELWALLNFLLPDIFSSSDD 365
DEAH + + + + + + + L + ++ +N L+ + D
Sbjct: 182 DEAHNLLEADKWFTRKISRKMLERALKEIEIVERLNRIDAKKVKDYINLLIDYMSKLIKD 241
Query: 366 FDSWFNTEEFMGDHSIIERLHSVLKPFLLRRLKSEVEKRLKPKKELKVYVGLSKMQREWY 425
+ + D L V + +L +++ K LK + +M+ + Y
Sbjct: 242 GRCHELSLMPLPDRETNGELIVVTRAYL------NIDEGPVKKSSLKSLLKFVEMKGDLY 295
Query: 426 T 426
Sbjct: 296 N 296
>3hgt_A HDA1 complex subunit 3; RECA-like domain, SWI2/SNF2 helical domain,
chromatin regulator, coiled coil, nucleus, repressor,
transcription; 2.20A {Saccharomyces cerevisiae} PDB:
3hgq_A
Length = 328
Score = 28.0 bits (62), Expect = 5.8
Identities = 3/22 (13%), Positives = 9/22 (40%)
Query: 407 PKKELKVYVGLSKMQREWYTKV 428
+ + +S Q+E ++
Sbjct: 22 TSGDYWLPTTMSLYQKELTDQI 43
>1z1a_A Regulatory protein SIR1; novel fold, transcription; HET: MSE; 2.50A
{Saccharomyces cerevisiae} SCOP: d.339.1.1 PDB: 1zhi_B
1zbx_B
Length = 142
Score = 27.1 bits (59), Expect = 7.2
Identities = 8/54 (14%), Positives = 18/54 (33%)
Query: 131 TKEKKNVDPSDHRHRMTEQEEDEELLANANTEGKTIVSFENSPFYIKGGEMRDY 184
E+K ++P D R ++ ++ N P +K + +
Sbjct: 35 LAEEKPINPKDPRLLTLLKDHQRAMIDQMNLVKWNDFKKYQDPIPLKAKTLFKF 88
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
0.318 0.136 0.407
Gapped
Lambda K H
0.267 0.0563 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,738,333
Number of extensions: 413233
Number of successful extensions: 962
Number of sequences better than 10.0: 1
Number of HSP's gapped: 931
Number of HSP's successfully gapped: 56
Length of query: 429
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 333
Effective length of database: 4,021,377
Effective search space: 1339118541
Effective search space used: 1339118541
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 (21.7 bits)
S2: 59 (26.9 bits)