RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14708
(513 letters)
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double
chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces
cerevisiae}
Length = 800
Score = 331 bits (851), Expect = e-105
Identities = 85/213 (39%), Positives = 129/213 (60%), Gaps = 5/213 (2%)
Query: 296 SASRNMLQEYELFFRNDKNQFIKEKDLYKFHVLITTFEIIISDCLELKDFNWRLCIIDEA 355
SR+ ++EYE + K K KF+VL+TT+E I+ D EL W+ +DEA
Sbjct: 321 QKSRDTIREYEFYTNPRA----KGKKTMKFNVLLTTYEYILKDRAELGSIKWQFMAVDEA 376
Query: 356 HRLKNRNCKLLEGLRLLHLEHRVLLSGTPLQNNVNELFSLLNFLEPQQFSNNEAFMSEFG 415
HRLKN L E L + +R+L++GTPLQNN+ EL +L+NFL P +F+ ++ E
Sbjct: 377 HRLKNAESSLYESLNSFKVANRMLITGTPLQNNIKELAALVNFLMPGRFTIDQEIDFENQ 436
Query: 416 QLKTESEVNKLQLLLKPMMLRRLKEDVEKSIAPKEETVVEVELTNIQKKYYRGILERNFS 475
+ E ++ L ++P +LRRLK+DVEKS+ K E ++ VEL+++Q +YY+ IL +N+S
Sbjct: 437 DEEQEEYIHDLHRRIQPFILRRLKKDVEKSLPSKTERILRVELSDVQTEYYKNILTKNYS 496
Query: 476 FLSKGTTSANVPNLMNTMMELRKCCIHPYLLNG 508
L+ G +L+N M EL+K HPYL +
Sbjct: 497 ALTAGAKG-GHFSLLNIMNELKKASNHPYLFDN 528
Score = 163 bits (415), Expect = 2e-43
Identities = 52/166 (31%), Positives = 71/166 (42%), Gaps = 31/166 (18%)
Query: 5 KKPKKKPPASDWVKLEKSPVYKNDNTLRAYQLEGLNWLMFSWFNGRNCILADEMGLGKTI 64
+ KL P + LR +QL G+NW+ F W G N ILADEMGLGKT+
Sbjct: 211 YSSNYTSQRPRFEKLSVQPPFIKGGELRDFQLTGINWMAFLWSKGDNGILADEMGLGKTV 270
Query: 65 QSLTRNCILADEMGLGKTIQSLTFVDAVFKTGIRGPFLVIAPLSTIPNWQREFEAWT-DL 123
Q++ I L +F GP +++ PLST+P W FE W DL
Sbjct: 271 QTVA-------------FISWL-----IFARRQNGPHIIVVPLSTMPAWLDTFEKWAPDL 312
Query: 124 NVIVYHATFVVLLQTGSKFFRICL---EFFVDAVFKTGIRGPFLVI 166
N I Y G++ R + EF+ + K F V+
Sbjct: 313 NCICYM---------GNQKSRDTIREYEFYTNPRAKGKKTMKFNVL 349
>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 = 232 bits (595), Expect = 3e-69
Identities = 56/234 (23%), Positives = 99/234 (42%), Gaps = 24/234 (10%)
Query: 292 LKSASASRNMLQEYELFFRNDKNQFIKEKDLYKFHVLITTFEIIISDCLELKDFNWRLCI 351
+ S + + +LI ++E L L I
Sbjct: 146 IDGGSKDEIDSKLVNFISQQGMRI--------PTPILIISYETFRLHAEVLHKGKVGLVI 197
Query: 352 IDEAHRLKNRNCKLLEGLRLLHLEHRVLLSGTPLQNNVNELFSLLNFLEPQQFSNNEAFM 411
DE HRLKN + + L ++ + RVL+SGTP+QN++ E FSL++F+ + F
Sbjct: 198 CDEGHRLKNSDNQTYLALNSMNAQRRVLISGTPIQNDLLEYFSLVHFVNSGILGTAQEFK 257
Query: 412 SEFG---------------QLKTESEVNKLQLLLKPMMLRRLKEDVEKSIAPKEETVVEV 456
F + E ++ +L ++ ++RR + + K + K E VV
Sbjct: 258 KRFEIPILKGRDADASDKDRAAGEQKLQELISIVNRCLIRRTSDILSKYLPVKIEQVVCC 317
Query: 457 ELTNIQKKYYRGILERNFSFLSKGTTSANVPNLMNTMMELRKCCIHPYLLNGKT 510
LT +QK+ Y+ L++ S T +V + ++++ L+K C HP L+ K
Sbjct: 318 NLTPLQKELYKLFLKQAKPVESLQTGKISV-SSLSSITSLKKLCNHPALIYEKC 370
Score = 103 bits (258), Expect = 2e-23
Identities = 37/144 (25%), Positives = 51/144 (35%), Gaps = 36/144 (25%)
Query: 3 LIKKPKKKPPASDWVKLEKSPV-----YKNDNTLRAYQLEGLNWLM-----FSWFNGRNC 52
L + P EK PV LR +Q EG+ +L N C
Sbjct: 23 LYEPPAISAHDLIKADKEKLPVHVVVDPVLSKVLRPHQREGVKFLWDCVTGRRIENSYGC 82
Query: 53 ILADEMGLGKTIQSLTRNCILADEMGLGKTIQSLTFVDAVFKTG-IRGP----FLVIAPL 107
I+ADEMGLGKT+Q CI T + + K P +V++P
Sbjct: 83 IMADEMGLGKTLQ-----CI--------------TLIWTLLKQSPDCKPEIDKVIVVSPS 123
Query: 108 STIPNWQREFEAWT--DLNVIVYH 129
S + NW E W + +
Sbjct: 124 SLVRNWYNEVGKWLGGRVQPVAID 147
Score = 51.9 bits (125), Expect = 3e-07
Identities = 11/64 (17%), Positives = 23/64 (35%), Gaps = 6/64 (9%)
Query: 161 GPFLVIAPLSTIPNWQREFEAWT--DLNVIVYHGRRKKLSRRDKERLRLKYVAADYVPKD 218
+V++P S + NW E W + + G K +L +++ +
Sbjct: 115 DKVIVVSPSSLVRNWYNEVGKWLGGRVQPVAIDGGSKD---EIDSKLV-NFISQQGMRIP 170
Query: 219 GEVL 222
+L
Sbjct: 171 TPIL 174
>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 = 131 bits (332), Expect = 2e-33
Identities = 57/198 (28%), Positives = 106/198 (53%), Gaps = 10/198 (5%)
Query: 318 KEKDLYKFHVLITTFEIIISDCLELKDFNWRLCIIDEAHRLKNRNCKLLEGLRLLHLEHR 377
+ L + +++TT+ +++ D LK+ W+ +IDEA +KN K+ + ++ L ++R
Sbjct: 122 SKIKLEDYDIILTTYAVLLRD-TRLKEVEWKYIVIDEAQNIKNPQTKIFKAVKELKSKYR 180
Query: 378 VLLSGTPLQNNVNELFSLLNFLEPQQFSNNEAFMSEFG---QLKTESEVNKLQLLLKPMM 434
+ L+GTP++N V++L+S++ FL P + F S+F + +L+ ++ P +
Sbjct: 181 IALTGTPIENKVDDLWSIMTFLNPGLLGSYSEFKSKFATPIKKGDNMAKEELKAIISPFI 240
Query: 435 LRRLKEDVEKSIA----PKEETVVEVELTNIQKKYYRGILERNFSFLSKGTTSANVPNLM 490
LRR K D K+I K ET V LT Q Y+ +E F+ + T ++
Sbjct: 241 LRRTKYD--KAIINDLPDKIETNVYCNLTPEQAAMYKAEVENLFNNIDSVTGIKRKGMIL 298
Query: 491 NTMMELRKCCIHPYLLNG 508
+T+++L++ HP LL G
Sbjct: 299 STLLKLKQIVDHPALLKG 316
Score = 105 bits (265), Expect = 1e-24
Identities = 33/103 (32%), Positives = 47/103 (45%), Gaps = 20/103 (19%)
Query: 30 TLRAYQLEGLNWLMFSWFNGRNCILADEMGLGKTIQSLTRNCILADEMGLGKTIQSLTFV 89
LR YQ++G +W+ F ++G G LAD+MGLGKT+Q++
Sbjct: 37 NLRPYQIKGFSWMRFMN----------KLGFG---------ICLADDMGLGKTLQTIAVF 77
Query: 90 DAVFKTGIRGPFLVIAPLSTIPNWQREFEAWT-DLNVIVYHAT 131
K P LVI PLS + NW+ E + L V+H
Sbjct: 78 SDAKKENELTPSLVICPLSVLKNWEEELSKFAPHLRFAVFHED 120
Score = 51.4 bits (124), Expect = 4e-07
Identities = 16/45 (35%), Positives = 21/45 (46%), Gaps = 1/45 (2%)
Query: 158 GIRGPFLVIAPLSTIPNWQREFEAWT-DLNVIVYHGRRKKLSRRD 201
P LVI PLS + NW+ E + L V+H R K+ D
Sbjct: 84 NELTPSLVICPLSVLKNWEEELSKFAPHLRFAVFHEDRSKIKLED 128
>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 = 88.6 bits (219), Expect = 1e-18
Identities = 36/197 (18%), Positives = 64/197 (32%), Gaps = 20/197 (10%)
Query: 324 KFHVLITTFEIIISDCL---ELKDFNWRLCIIDEAHRLKN------RNCKLLEGLRLLHL 374
++I + + L + W L ++DEAH L R + +E L H+
Sbjct: 248 TEQLVICSLDFARRSKQRLEHLCEAEWDLLVVDEAHHLVWSEDAPSREYQAIEQLAE-HV 306
Query: 375 EHRVLLSGTPLQNNVNELFSLLNFLEPQQFSNNEAFMSEFGQLKTESEVNKLQLLLKPMM 434
+LL+ TP Q + F+ L L+P +F + F+ E ++ + +
Sbjct: 307 PGVLLLTATPEQLGMESHFARLRLLDPNRFHDFAQFVEEQKNYCPVAD-----AVAMLLA 361
Query: 435 LRRLKEDVEKSIAPKEETVVEVELTNIQKKYYRGILERNFSFLS-----KGTTSANVPNL 489
+L D + L +S GT+ N
Sbjct: 362 GNKLSNDELNMLGEMIGEQDIEPLLQAANSDSEDAQSARQELVSMLMDRHGTSRVLFRNT 421
Query: 490 MNTMMELRKCCIHPYLL 506
N + K +H L
Sbjct: 422 RNGVKGFPKRELHTIKL 438
Score = 87.4 bits (216), Expect = 3e-18
Identities = 20/101 (19%), Positives = 35/101 (34%), Gaps = 21/101 (20%)
Query: 30 TLRAYQLEGLNWLMFSWFNGRNCILADEMGLGKTIQSLTRNCILADEMGLGKTIQSLTFV 89
+L +QL + + +LADE+GLGKTI++ +
Sbjct: 153 SLIPHQLNIAHDVGRRH---------------------APRVLLADEVGLGKTIEAGMIL 191
Query: 90 DAVFKTGIRGPFLVIAPLSTIPNWQREFEAWTDLNVIVYHA 130
+G L+I P + W E +L ++
Sbjct: 192 HQQLLSGAAERVLIIVPETLQHQWLVEMLRRFNLRFALFDD 232
Score = 48.9 bits (116), Expect = 3e-06
Identities = 9/55 (16%), Positives = 17/55 (30%)
Query: 155 FKTGIRGPFLVIAPLSTIPNWQREFEAWTDLNVIVYHGRRKKLSRRDKERLRLKY 209
+G L+I P + W E +L ++ R ++ D
Sbjct: 195 LLSGAAERVLIIVPETLQHQWLVEMLRRFNLRFALFDDERYAEAQHDAYNPFDTE 249
>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 = 68.4 bits (167), Expect = 1e-12
Identities = 10/73 (13%), Positives = 28/73 (38%), Gaps = 6/73 (8%)
Query: 440 EDVEKSIAPKEETVVEVELTNIQKKYYRGILERNFSFLSKGTTSAN------VPNLMNTM 493
+ S + + ++ QK+ I+ ++S + + +++ + ++
Sbjct: 14 TTLGISGNTSGDYWLPTTMSLYQKELTDQIVSLHYSDILRYFETSHYKEDVILESMKTMC 73
Query: 494 MELRKCCIHPYLL 506
+ HPYLL
Sbjct: 74 LNGSLVATHPYLL 86
>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 = 58.8 bits (143), Expect = 8e-10
Identities = 19/84 (22%), Positives = 35/84 (41%), Gaps = 1/84 (1%)
Query: 425 KLQLLLKPMMLRRLKEDVEKSIAPKEETVVEVELTNIQKKYYRGILERNFSFLSKGTTSA 484
++ R + + K ET V LT Q Y+ +E F+ + T
Sbjct: 5 HHHHHHSSGLVPR-GSHMASDLPDKIETNVYCNLTPEQAAMYKAEVENLFNNIDSVTGIK 63
Query: 485 NVPNLMNTMMELRKCCIHPYLLNG 508
+++T+++L++ HP LL G
Sbjct: 64 RKGMILSTLLKLKQIVDHPALLKG 87
>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 = 47.2 bits (111), Expect = 1e-05
Identities = 62/409 (15%), Positives = 129/409 (31%), Gaps = 123/409 (30%)
Query: 132 FVVLLQTGSKFFRICLEFFVDAVFKTGIRGPFLVIAPLSTIPN----WQREFEA-----W 182
F LL + + FV+ V + FL+ +P+ T R + +
Sbjct: 68 FWTLLSKQEEMV----QKFVEEVLRINY--KFLM-SPIKTEQRQPSMMTRMYIEQRDRLY 120
Query: 183 TDLNVIV-YHGRRKKLSRRDKERL-RLKYVAADYVPKDGEVLYGNWSRSECFKVERGLLT 240
D V Y+ R + + ++ L L+ P ++ G
Sbjct: 121 NDNQVFAKYNVSRLQPYLKLRQALLELR-------PAKNVLIDG---------------V 158
Query: 241 FGWGRW---------KEFLANNEFRNGW--------TEEYVEELARLLDLAGGDGKSFSP 283
G G+ + +F+ W E +E L +LL + S S
Sbjct: 159 LGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD 218
Query: 284 TMSSGTDGLKSASASRNMLQEYELFFR--------NDKNQFIKEKDLYKFH--VLITTFE 333
S+ + S A L + + + + + + + +L+TT
Sbjct: 219 HSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAW----NAFNLSCKILLTTRF 274
Query: 334 IIISDCL--------ELKDFNWRLCIIDEAHRL--KNRNCKLLEGLRLLHLEHRVLLSGT 383
++D L L + L DE L K +C+ + L R +L+
Sbjct: 275 KQVTDFLSAATTTHISLDHHSMTL-TPDEVKSLLLKYLDCR-PQDLP------REVLTTN 326
Query: 384 PLQNNVNELFSLLNFLEPQQFSNNEAFMSEFGQLKTE--SEVNKLQL-LLKPMMLRRLKE 440
P S++ + + A + + + + + + L +L+P R++ +
Sbjct: 327 PR------RLSII----AESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFD 376
Query: 441 DVEKSIAPK----------------EETVVEVELTNIQKKYYRGILERN 473
+ S+ P ++ V V + + K ++E+
Sbjct: 377 RL--SVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKY---SLVEKQ 420
Score = 34.4 bits (78), Expect = 0.091
Identities = 21/117 (17%), Positives = 40/117 (34%), Gaps = 21/117 (17%)
Query: 126 IVYHATFVVLLQTGSKFFRICLEF-FVDAVFKTGIRGPFLVIAPLSTIPNWQREFEAWTD 184
I +H + + + F + L+F F++ K IR W
Sbjct: 477 IGHHLKNIEHPERMTLFRMVFLDFRFLEQ--K--IR---------HDSTAWNASGSILNT 523
Query: 185 LNVIVYHGRRKKLSRRDKERLRLKYVAADYVPKDGEVLYGNWSRSECFK-VERGLLT 240
L + ++ + + D + RL D++PK E L S+ + L+
Sbjct: 524 LQQLKFY--KPYICDNDPKYERLVNAILDFLPKIEENLI----CSKYTDLLRIALMA 574
Score = 34.4 bits (78), Expect = 0.10
Identities = 17/103 (16%), Positives = 35/103 (33%), Gaps = 12/103 (11%)
Query: 402 QQFSNN---EAFMSEFGQLKTESEVNKLQLLLKPMMLRRLKEDVEKSIAPKEET-----V 453
Q+ F F + +Q + K ++ + + + S T
Sbjct: 14 HQYQYKDILSVFEDAF---VDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWT 70
Query: 454 VEVELTNIQKKYYRGILERNFSFL-SKGTTSANVPNLMNTMME 495
+ + + +K+ +L N+ FL S T P++M M
Sbjct: 71 LLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYI 113
>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 = 45.4 bits (107), Expect = 5e-05
Identities = 69/412 (16%), Positives = 124/412 (30%), Gaps = 136/412 (33%)
Query: 146 CLEF--FVDAVFKTGIRGPFLVIAPLSTIPNWQREFEAW----TDLNVIVYH--GRRKKL 197
+F +V ++ + G F + L EFE D++ +
Sbjct: 61 VGKFLGYVSSLVEPSKVGQFDQVLNLCL-----TEFENCYLEGNDIHALAAKLLQENDTT 115
Query: 198 SRRDKERLRLKYVAADYVPKDGEVLYGNWSRSECFK-VERG----LLTFGWGRWKEFLAN 252
+ KE ++ Y+ A + K + S S F+ V G + FG G+
Sbjct: 116 LVKTKELIK-NYITARIMAKRP---FDKKSNSALFRAVGEGNAQLVAIFG-GQ------- 163
Query: 253 NEFRNGWTEEYVEELARLLDLAGGDGKSF-SPTMSSGTDGLKSASASRNMLQEYELFFRN 311
G T++Y EEL L + + L + + E F
Sbjct: 164 -----GNTDDYFEELRDLYQ----TYHVLVGDLIKFSAETLSELIRTT---LDAEKVFTQ 211
Query: 312 --DKNQFIKEKDL-----YKFHVLITTFEIIISDCLELKDFNWRLCIIDEAHRLKNRNCK 364
+ ++++ Y + I + +I +I AH + K
Sbjct: 212 GLNILEWLENPSNTPDKDYLLSIPI-SCPLI--------------GVIQLAHYV--VTAK 254
Query: 365 LLEGLRLLHLEHRVLLSGT--------------------PLQNNVNELFSLLNF---LEP 401
LL G E R L G +V + ++L F +
Sbjct: 255 LL-GFT--PGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVL-FFIGVRC 310
Query: 402 QQFSNNEAFMSEFGQLKTESEVNKLQLLLK-------PMM-LRRL-KEDVEKSIA----- 447
+ + + L+ L+ PM+ + L +E V+ +
Sbjct: 311 YE---------AYPNTSLPPSI--LEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSH 359
Query: 448 -PKEETVVEVELTNIQKKYYRGILERNFSFLSKGTTSANVPNLMNTMMELRK 498
P + VE+ L N G +N +S G + L + LRK
Sbjct: 360 LPAGK-QVEISLVN-------G--AKNLV-VS-GPPQS----LYGLNLTLRK 395
Score = 34.6 bits (79), Expect = 0.094
Identities = 39/215 (18%), Positives = 75/215 (34%), Gaps = 74/215 (34%)
Query: 45 SWFNG-RNCILADEMGLGKTIQSLTRNCILADEMGLGKTIQSLTFVDAVFKTGI----RG 99
S NG +N +++ G QSL GL T++ + ++ I R
Sbjct: 369 SLVNGAKNLVVS-----G-PPQSL---------YGLNLTLRKAKAPSGLDQSRIPFSERK 413
Query: 100 P-----FLVI-AP---------LSTIPNW-QREFEAWT--DLNVIVYHATFVVLLQTGSK 141
FL + +P I + ++ D+ + VY TF GS
Sbjct: 414 LKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYD-TF-----DGSD 467
Query: 142 FFRIC----LEFFVDAVFKTGIRGPFLVIAPLSTIPNWQR--EFEAWTDLNVIVYHG--- 192
R+ E VD + + P+ W+ +F+A +++ + G
Sbjct: 468 -LRVLSGSISERIVDCIIR----------LPV----KWETTTQFKA---THILDF-GPGG 508
Query: 193 --RRKKLSRRDKERLRLKYVAADYVPKDGEVLYGN 225
L+ R+K+ ++ + A + + + YG
Sbjct: 509 ASGLGVLTHRNKDGTGVRVIVAGTLDINPDDDYGF 543
>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 = 42.1 bits (98), Expect = 4e-04
Identities = 32/211 (15%), Positives = 69/211 (32%), Gaps = 15/211 (7%)
Query: 312 DKNQFIKEKDLYKFHVLITTFEIIISDCL--ELKDFNWRLCIIDEAHRLKNR---NCKLL 366
+K+ + K + V++ T + I +D L + + L + DEAHR
Sbjct: 89 EKSPEERSKAWARAKVIVATPQTIENDLLAGRISLEDVSLIVFDEAHRAVGNYAYVFIAR 148
Query: 367 EGLRLLHLEHRVLLSGTPL--QNNVNELFSLLNFLEPQQFSNNEAFMSEFGQLKTESEV- 423
E R + L+ +P + E+ + L + S N + + + V
Sbjct: 149 EYKRQAKNPLVIGLTASPGSTPEKIMEVINNLGIEHIEYRSENSPDVRPYVKGIRFEWVR 208
Query: 424 -------NKLQLLLKPMMLRRLKEDVEKSIAPKEETVVEVELTNIQKKYYRGILERNFSF 476
+++ LL+ M+ LK E + + + + + +
Sbjct: 209 VDLPEIYKEVRKLLREMLRDALKPLAETGLLESSSPDIPKKEVLRAGQIINEEMAKGNHD 268
Query: 477 LSKGTTSANVPNLMNTMMELRKCCIHPYLLN 507
L + ++ +EL + L
Sbjct: 269 LRGLLLYHAMALKLHHAIELLETQGLSALRA 299
Score = 30.5 bits (68), Expect = 1.6
Identities = 10/54 (18%), Positives = 14/54 (25%), Gaps = 24/54 (44%)
Query: 30 TLRAYQLEGLNWLMFSWFNGRNCILADEMGLGKTIQSLTRNCILADEMGLGKTI 83
R YQ + NC++ GLGKT+
Sbjct: 9 QPRIYQEVIYA------------------------KCKETNCLIVLPTGLGKTL 38
>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 = 37.1 bits (86), Expect = 0.014
Identities = 16/119 (13%), Positives = 37/119 (31%), Gaps = 33/119 (27%)
Query: 15 DWVKLEKSPVYKNDNTLRAYQLEGLNWLMFSWFNGRNCILADEMGLGKTIQSLTRNCILA 74
+ +P + + +LR YQ + L W + +
Sbjct: 78 NAADPIPTPYFDAEISLRDYQEKALE----RWLVDKRGCI-------------------- 113
Query: 75 DEM--GLGKTIQSLTFVDAVFKTGIRGPFLVIAPLSTIPN-WQREFEAWTDLNVIVYHA 130
+ G GKT ++ ++ + P L++ P + W+ + + V +
Sbjct: 114 -VLPTGSGKTHVAMAAINE-----LSTPTLIVVPTLALAEQWKERLGIFGEEYVGEFSG 166
Score = 35.2 bits (81), Expect = 0.053
Identities = 15/85 (17%), Positives = 33/85 (38%), Gaps = 6/85 (7%)
Query: 301 MLQEYELFFRNDKNQF-IKEKDLYKFHVLITTFEIIISDCLELKDFNWRLCIIDEAHRLK 359
+ +F +F + K+L + ++T++ + E + L I DE H L
Sbjct: 149 WKERLGIFGEEYVGEFSGRIKELKP--LTVSTYDSAYVN-AEKLGNRFMLLIFDEVHHLP 205
Query: 360 NRNCKLLEGLRLLHLEHRVLLSGTP 384
++ ++ R+ L+ T
Sbjct: 206 AE--SYVQIAQMSIAPFRLGLTATF 228
Score = 32.1 bits (73), Expect = 0.52
Identities = 9/42 (21%), Positives = 18/42 (42%), Gaps = 1/42 (2%)
Query: 159 IRGPFLVIAPLSTIPN-WQREFEAWTDLNVIVYHGRRKKLSR 199
+ P L++ P + W+ + + V + GR K+L
Sbjct: 132 LSTPTLIVVPTLALAEQWKERLGIFGEEYVGEFSGRIKELKP 173
>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 = 35.3 bits (80), Expect = 0.045
Identities = 13/56 (23%), Positives = 21/56 (37%), Gaps = 4/56 (7%)
Query: 9 KKPPASDWVKLEKSPVYKNDNTLRAYQLEGLNWLMFSWFNGRNCILADEMGLGKTI 64
+ S + K P R+YQ+E + G+N ++ G GKT
Sbjct: 227 SENLGSAAEGIGKPPPVYETKKARSYQIELAQPAIN----GKNALICAPTGSGKTF 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 = 35.3 bits (80), Expect = 0.052
Identities = 13/56 (23%), Positives = 21/56 (37%), Gaps = 4/56 (7%)
Query: 9 KKPPASDWVKLEKSPVYKNDNTLRAYQLEGLNWLMFSWFNGRNCILADEMGLGKTI 64
+ S + K P R+YQ+E + G+N ++ G GKT
Sbjct: 227 SENLGSAAEGIGKPPPVYETKKARSYQIELAQPAIN----GKNALICAPTGSGKTF 278
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 35.0 bits (79), Expect = 0.071
Identities = 22/117 (18%), Positives = 38/117 (32%), Gaps = 15/117 (12%)
Query: 21 KSPVYKNDNTLRAYQLEGLNWLMFSWFNGRNCILADEMGLGKTIQSLTRNCILADEMGLG 80
+ +Y R YQLE M G+N I+ G GKT SL + G
Sbjct: 5 DTNLYSP-FKPRNYQLELALPAMK----GKNTIICAPTGCGKTFVSLLICEHHLKKFPQG 59
Query: 81 KTIQSLTFVDAV---------FKTGIRGPFLVIAPLSTIPNWQREFEA-WTDLNVIV 127
+ + + F + + F + +S E + ++I+
Sbjct: 60 QKGKVVFFANQIPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIII 116
>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 = 33.3 bits (76), Expect = 0.13
Identities = 12/49 (24%), Positives = 23/49 (46%), Gaps = 12/49 (24%)
Query: 319 EKDLYKFHVLITTFEIIISDC----------LELKDFNWRLCIIDEAHR 357
+ + ++I+T +I+ + ++L DF+ L IIDE H
Sbjct: 127 PEVVKSCDIIISTAQILENSLLNLENGEDAGVQLSDFS--LIIIDECHH 173
Score = 31.7 bits (72), Expect = 0.35
Identities = 12/45 (26%), Positives = 19/45 (42%), Gaps = 4/45 (8%)
Query: 19 LEKSPVYKNDNTLRAYQLEGLNWLMFSWFNGRNCILADEMGLGKT 63
+ + + LR YQ+E + G+N I+ G GKT
Sbjct: 22 VAARASPEPELQLRPYQMEVAQPAL----EGKNIIICLPTGSGKT 62
>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 = 31.5 bits (70), Expect = 0.35
Identities = 9/22 (40%), Positives = 11/22 (50%), Gaps = 6/22 (27%)
Query: 195 KKLSRRDKERLRLKYVAADYVP 216
KKL + L+L Y A D P
Sbjct: 23 KKL----QASLKL-Y-ADDSAP 38
>3esg_A HUTD, putative uncharacterized protein; beta barrel, unknown
function; 1.80A {Pseudomonas fluorescens}
Length = 193
Score = 31.4 bits (71), Expect = 0.42
Identities = 19/67 (28%), Positives = 26/67 (38%), Gaps = 11/67 (16%)
Query: 330 TTFEIIISDCLELKDFNWRLCI--IDEAHRLK-----NRNCKLLEG----LRLLHLEHRV 378
+T EI L+ F WRL I I E+ R +++G L + E R
Sbjct: 30 STEEITRDAGTGLEGFGWRLSIADIGESGGFSSFAGYQRVITVIQGAGMVLTVDGEEQRG 89
Query: 379 LLSGTPL 385
LL P
Sbjct: 90 LLPLQPF 96
>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 = 31.4 bits (71), Expect = 0.80
Identities = 19/75 (25%), Positives = 34/75 (45%), Gaps = 11/75 (14%)
Query: 317 IKEKDLYKFHVLITTFEIIISDCLELKDFNW----RLCIIDEAHRL--KNRNCKLLEGL- 369
K++ L K+ ++I T E D L +W ++ + DE H + ++R LE +
Sbjct: 107 SKDEWLGKYDIIIATAEKF--DSLLRHGSSWIKDVKILVADEIHLIGSRDRGA-TLEVIL 163
Query: 370 -RLLHLEHRVLLSGT 383
+L + LS T
Sbjct: 164 AHMLGKAQIIGLSAT 178
>1nqk_A Alkanesulfonate monooxygenase; structural genomics, beta barrel,
PSI, protein structure INI midwest center for structural
genomics, MCSG; 2.20A {Escherichia coli} SCOP: c.1.16.4
PDB: 1m41_A
Length = 381
Score = 31.2 bits (71), Expect = 0.87
Identities = 15/58 (25%), Positives = 23/58 (39%), Gaps = 4/58 (6%)
Query: 240 TFGWGRWKEFLANNEFRNGWTEEYVEELARLLDLAGGDGKSFSPTMSSGTDGLKSASA 297
T G G +L E Y++++A+ D G G PT S D A++
Sbjct: 11 THGDGH---YLGTEEGSRPVDHGYLQQIAQAADRLGYTG-VLIPTGRSCEDAWLVAAS 64
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 31.0 bits (69), Expect = 0.93
Identities = 66/424 (15%), Positives = 125/424 (29%), Gaps = 39/424 (9%)
Query: 30 TLRAYQLEGLNWLMFSWFNGRNCILADEMGLGKTIQSLTRNCILADEMGLGKTIQSLTFV 89
R YQLE G+N I+ G GKT SL + G+ + + F
Sbjct: 4 KPRNYQLELALPAKK----GKNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVFFA 59
Query: 90 D---------AVFKTGIRGPFLVIAPLS--TIPNWQREFEAWTDLNVIVY-HATFVVLLQ 137
+ VF IA +S T + + D ++I+ V L
Sbjct: 60 NQIPVYEQQATVFSRYFERLGYNIASISGATSDSVSVQ-HIIEDNDIIILTPQILVNNLN 118
Query: 138 TGSKF-FRICLEFFVDAVFKTGIRGPFLVIAPLSTIPNWQREFEAW---TDLNVIVYHGR 193
G+ + D T P+ I + L V G
Sbjct: 119 NGAIPSLSVFTLMIFDECHNTSKNHPYNQIMFRYLDHKLGESRDPLPQVVGLTASVGVGD 178
Query: 194 RKKLSRRDKERLRLKY-----VAADYVPKDGEVLYGNWSRSECF-KVERGLLTFGWGRWK 247
K + +L V A E+ + + KV
Sbjct: 179 AKTAEEAMQHICKLCAALDASVIATVRDNVAELEQVVYKPQKISRKVASRTSNTFKCIIS 238
Query: 248 EFLANNEFRNGWTEEYVEELARLLDLAGGDGKSFSPTMSSGTDGLKSASASRNMLQEYEL 307
+ + E ++ EEL +L + + + + +++
Sbjct: 239 QLMKETEK---LAKDVSEELGKLFQIQNREFGTQKY--------EQWIVGVHKACSVFQM 287
Query: 308 FFRNDKNQFIKEKDLYKFHVLITTFEIIISDCLELKDFNWRLCIIDEAHRLKNRNCKLLE 367
+ ++++ K LY H+ +IIS+ ++ D L R + E
Sbjct: 288 ADKEEESRVCKALFLYTSHLRKYNDALIISEDAQMTDALNYLKAFFHDVREAAFDETERE 347
Query: 368 GLRLLHLEHRVLLSGTPLQNNVNELFSLLNFLEPQQFSNNEAFMSEFGQLKTESEVNKLQ 427
R + L + +N N L + +++ + +KT + V+ L+
Sbjct: 348 LTRRFEEKLEELEKVSRDPSNENPKLRDLYLVLQEEYHLKPETKTIL-FVKTRALVDALK 406
Query: 428 LLLK 431
++
Sbjct: 407 KWIE 410
>1yll_A PA5104, conserved hypothetical protein; structural genomics,
beta-BA PSI, protein structure initiative, midwest
center for struc genomics; 1.64A {Pseudomonas
aeruginosa} SCOP: b.82.1.17
Length = 200
Score = 30.4 bits (68), Expect = 1.0
Identities = 16/65 (24%), Positives = 23/65 (35%), Gaps = 8/65 (12%)
Query: 330 TTFEIIISDCLELKDFNWRLCI--IDEAHRL-----KNRNCKLLEGLRL-LHLEHRVLLS 381
+T EI L F WRL I + E+ R +LEG + L ++
Sbjct: 25 STEEIARDGGDGLDGFGWRLSIADVGESGGFSGFAGYQRIISVLEGGGMRLRVDGAESAP 84
Query: 382 GTPLQ 386
Q
Sbjct: 85 LRARQ 89
>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS,
immune system; HET: NAG FUL; 2.00A {Homo sapiens}
Length = 570
Score = 30.8 bits (70), Expect = 1.3
Identities = 29/165 (17%), Positives = 55/165 (33%), Gaps = 10/165 (6%)
Query: 250 LANNEFRNGWTEEYVEELARL--LDLAGGDGKSFSPTMSSGTDGLKSASA----SRNMLQ 303
+A+N ++ EY L L LDL+ +S T + + S N +
Sbjct: 131 VAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMN 190
Query: 304 EYELF-FRNDKNQFIKEKDLYKFHVLITTFEIIISDCLELKDFNWRLCIIDEAHRLKNRN 362
+ F+ + + L + + I L+ L L+ +
Sbjct: 191 FIQPGAFKEIRLHKL---TLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFD 247
Query: 363 CKLLEGLRLLHLEHRVLLSGTPLQNNVNELFSLLNFLEPQQFSNN 407
LEGL L +E L +++ +LF+ L + +
Sbjct: 248 KSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSV 292
>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal
helicase, DNA repair,, DNA binding protein/DNA complex;
3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2
c.37.1.19 c.37.1.19 PDB: 2p6u_A
Length = 702
Score = 30.5 bits (69), Expect = 1.6
Identities = 18/75 (24%), Positives = 30/75 (40%), Gaps = 14/75 (18%)
Query: 320 KDLYKFHVLITTFEIIISDCLELKDFNW----RLCIIDEAHRL--KNRNCKLLEGL--RL 371
+ L +++TT E D L +W ++DE H L + R LE L ++
Sbjct: 110 EHLGDCDIIVTTSEKA--DSLIRNRASWIKAVSCLVVDEIHLLDSEKRG-ATLEILVTKM 166
Query: 372 LHLEHR---VLLSGT 383
+ + LS T
Sbjct: 167 RRMNKALRVIGLSAT 181
>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 = 29.6 bits (67), Expect = 2.1
Identities = 11/59 (18%), Positives = 25/59 (42%), Gaps = 5/59 (8%)
Query: 327 VLITTFEIIISDCLELKDFNWRLCIIDEAHRLKNRNCKLLEGLRLLHLEHRVL-LSGTP 384
+ ++T++ + +L + + L I DE H L + + + + L L+ T
Sbjct: 174 LTVSTYDSAYVNAEKLGN-RFMLLIFDEVHHLP---AESYVQIAQMSIAPFRLGLTATF 228
Score = 27.7 bits (62), Expect = 7.3
Identities = 6/24 (25%), Positives = 11/24 (45%)
Query: 175 WQREFEAWTDLNVIVYHGRRKKLS 198
W+ + + V + GR K+L
Sbjct: 149 WKERLGIFGEEYVGEFSGRIKELK 172
>2llk_A Cyclin-D-binding MYB-like transcription factor 1; helix bundle,
SGC, structural genomics consortium, NESG, NOR
structural genomics consortium; NMR {Homo sapiens}
Length = 73
Score = 27.2 bits (60), Expect = 2.9
Identities = 8/43 (18%), Positives = 14/43 (32%)
Query: 243 WGRWKEFLANNEFRNGWTEEYVEELARLLDLAGGDGKSFSPTM 285
F + +T E +E+L L G D + +
Sbjct: 10 GRENLYFQGDRNHVGKYTPEEIEKLKELRIKHGNDWATIGAAL 52
>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 = 29.3 bits (66), Expect = 3.0
Identities = 12/62 (19%), Positives = 23/62 (37%), Gaps = 6/62 (9%)
Query: 302 LQEYELFFRNDKNQFIKEKDLYKFHVLITTFEIIISDCLELKDFN------WRLCIIDEA 355
+ F + +++ K + + ++ I SD + + L IIDE
Sbjct: 252 KDKTFTPFGDARHKIEGGKVVKSREIYFAIYQSIASDERRPGLYKEFPQDFFDLIIIDEC 311
Query: 356 HR 357
HR
Sbjct: 312 HR 313
Score = 28.2 bits (63), Expect = 8.0
Identities = 14/60 (23%), Positives = 23/60 (38%), Gaps = 4/60 (6%)
Query: 8 KKKPPASDWVKLEKSPVYKNDN-TLRAYQLEGLNWLMFSWFNGRNCILADEM--GLGKTI 64
+ + + SP + + R YQ +N + S G+ L M G GKT+
Sbjct: 155 GDEGIKDEDLDTLLSPYHHVSGYSPRYYQQIAINRAVQSVLQGKKRSLI-TMATGTGKTV 213
>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 = 29.5 bits (65), Expect = 3.3
Identities = 10/35 (28%), Positives = 16/35 (45%), Gaps = 4/35 (11%)
Query: 30 TLRAYQLEGLNWLMFSWFNGRNCILADEMGLGKTI 64
R+YQ+E + G+N ++ G GKT
Sbjct: 7 KARSYQIELAQPAIN----GKNALICAPTGSGKTF 37
>1w0u_A Telomeric repeat binding factor 2; telomere, DNA-binding protein,
homeodomain, mitosis, cell cycle, nuclear protein; 1.8A
{Homo sapiens} SCOP: a.4.1.4
Length = 55
Score = 26.5 bits (59), Expect = 3.7
Identities = 10/34 (29%), Positives = 14/34 (41%)
Query: 224 GNWSRSECFKVERGLLTFGWGRWKEFLANNEFRN 257
W+ E V+ G+ +G G W N F N
Sbjct: 3 QKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVN 36
>1w0t_A Telomeric repeat binding factor 1; telomere, DNA-binding protein,
homeodomain, mitosis, cell cycle; 2.00A {Homo sapiens}
SCOP: a.4.1.4 PDB: 1ba5_A
Length = 53
Score = 26.1 bits (58), Expect = 4.0
Identities = 9/34 (26%), Positives = 15/34 (44%)
Query: 224 GNWSRSECFKVERGLLTFGWGRWKEFLANNEFRN 257
W E + G+ +G G W + L + +F N
Sbjct: 3 QAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFNN 36
>1ity_A TRF1; helix-turn-helix, telomeres, DNA binding, MYB domain, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; NMR {Homo sapiens} SCOP: a.4.1.4
PDB: 1iv6_A
Length = 69
Score = 26.7 bits (59), Expect = 4.1
Identities = 9/35 (25%), Positives = 15/35 (42%)
Query: 223 YGNWSRSECFKVERGLLTFGWGRWKEFLANNEFRN 257
W E + G+ +G G W + L + +F N
Sbjct: 10 RQAWLWEEDKNLRSGVRKYGEGNWSKILLHYKFNN 44
>1vf9_A Telomeric repeat binding factor 2; MYB, helix-turn-helix, telomere,
DNA binding protein; NMR {Homo sapiens} SCOP: a.4.1.4
PDB: 1xg1_A 1vfc_A
Length = 64
Score = 26.6 bits (59), Expect = 4.4
Identities = 10/34 (29%), Positives = 14/34 (41%)
Query: 224 GNWSRSECFKVERGLLTFGWGRWKEFLANNEFRN 257
W+ E V+ G+ +G G W N F N
Sbjct: 12 QKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVN 45
>3m1i_C Exportin-1; heat repeat, GTP-binding, nucleotide-binding, NUCL
protein transport, transport, cytoplasm, GTPase
activation; HET: GTP; 2.00A {Saccharomyces cerevisiae}
PDB: 2l1l_B
Length = 1049
Score = 29.1 bits (64), Expect = 4.9
Identities = 27/164 (16%), Positives = 61/164 (37%), Gaps = 10/164 (6%)
Query: 345 FNWRLCIIDEAHRLKNRNCKLLEGLRLLHLEHRVLLSGTPLQNNVNELFSLLNFLE-PQQ 403
W+L D ++N ++ + + + V + L N + + E PQ
Sbjct: 79 RKWKLLPNDHRIGIRN---FVVGMIISMCQDDEVFKTQKNLINKSDLTLVQILKQEWPQN 135
Query: 404 FSNNEAFMSEFGQLKTESEVNKLQLLLKPMMLRRLKEDVEKSIAPKEETVVEVELTNIQK 463
+ F+ E + S + ++L+ L E+V A + + L N
Sbjct: 136 WPE---FIPELIGSSSSSVNVCENNM---IVLKLLSEEVFDFSAEQMTQAKALHLKNSMS 189
Query: 464 KYYRGILERNFSFLSKGTTSANVPNLMNTMMELRKCCIHPYLLN 507
K + I + F L +G++S+ + + +++ + Y+
Sbjct: 190 KEFEQIFKLCFQVLEQGSSSSLIVATLESLLRYLHWIPYRYIYE 233
>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin
ligase, SCF, protein binding; HET: OGK; 2.80A
{Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B*
Length = 592
Score = 28.8 bits (64), Expect = 5.5
Identities = 11/37 (29%), Positives = 17/37 (45%)
Query: 335 IISDCLELKDFNWRLCIIDEAHRLKNRNCKLLEGLRL 371
+I C L+ R I D + + CK L+ LR+
Sbjct: 313 LIQKCPNLEVLETRNVIGDRGLEVLAQYCKQLKRLRI 349
>2ijd_1 Picornain 3C, RNA-directed RNA polymerase; RNA-dependent RNA
polymerase, picornavirus, protease, hydrolase,
transferase; 3.40A {Human poliovirus 1} SCOP: b.47.1.4
e.8.1.4
Length = 644
Score = 28.6 bits (63), Expect = 5.9
Identities = 9/47 (19%), Positives = 19/47 (40%), Gaps = 5/47 (10%)
Query: 81 KTIQSLTFVDAVFKTGIRGPFLVIAPLST-----IPNWQREFEAWTD 122
T +++TF+ F+ + PFL+ + W ++ D
Sbjct: 549 VTWENVTFLKRFFRADEKYPFLIHPVMPMKEIHESIRWTKDPRNTQD 595
>3i4r_B Nuclear pore complex protein NUP133; protein transport, structural
protein, kinetochore, mRNA transport, nucleus,
phosphoprotein, translocation; 3.53A {Homo sapiens}
Length = 644
Score = 27.9 bits (61), Expect = 9.2
Identities = 28/185 (15%), Positives = 60/185 (32%), Gaps = 24/185 (12%)
Query: 250 LANNEFRNGWTEEYVEELARLLDLAGGDGKSFSPTMSSGTD------------------G 291
LAN E R ++ + L++L LA +
Sbjct: 444 LANMETRYFAKKKTLLGLSKLAALASDFSEDMLQEKIEEMAEQERFLLHQETLPEQLLAE 503
Query: 292 LKSASASRNMLQEYELF--FRNDKNQFIKEKDLYK-FHVLITTFEIIISDCLELKDFNWR 348
+ ++ +L +L + ++N+ E D K +L E + +LK
Sbjct: 504 KQLNLSAMPVLTAPQLIGLYICEENRRANEYDFKKALDLLEYIDEEEDININDLKLEILC 563
Query: 349 LCIID---EAHRLKNRNCKLLEGLRLLHLEHRVLLSGTPLQNNVNELFSLLNFLEPQQFS 405
+ + K+ ++ + + + ++L G L + E+ LL +
Sbjct: 564 KALQRDNWSSSDGKDDPIEVSKDSIFVKILQKLLKDGIQLSEYLPEVKDLLQADQLGSLK 623
Query: 406 NNEAF 410
+N F
Sbjct: 624 SNPYF 628
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 0.138 0.421
Gapped
Lambda K H
0.267 0.0443 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,038,621
Number of extensions: 490588
Number of successful extensions: 1118
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1082
Number of HSP's successfully gapped: 62
Length of query: 513
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 415
Effective length of database: 3,965,535
Effective search space: 1645697025
Effective search space used: 1645697025
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: 59 (27.2 bits)