RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11640
(552 letters)
>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 = 253 bits (647), Expect = 3e-78
Identities = 73/286 (25%), Positives = 126/286 (44%), Gaps = 50/286 (17%)
Query: 215 IHEVHTIPAKMFRRVLTIVQSHCKLGLTATLLREDDKIADLNFLIGPKLYEANWLELQKR 274
EVH +PA+ + ++ + + +LGLTAT RED + L ++G K++E L
Sbjct: 198 FDEVHHLPAESYVQIAQMSIAPFRLGLTATFEREDGRHEILKEVVGGKVFELFPDSLAG- 256
Query: 275 GFIARVQCAEVWCPMSPEFYREYLVCKTS------------------------------- 303
+A+ ++ P++ + EY +
Sbjct: 257 KHLAKYTIKRIFVPLAEDERVEYEKREKVYKQFLRARGITLRRAEDFNKIVMASGYDERA 316
Query: 304 --------KRLLLYVMNPNKYRATQYLIAYHERRGDKTIVFSDNVFALKHYAVKMNKPYI 355
+ + + NK R + ++ H R DK I+F+ + + + P I
Sbjct: 317 YEALRAWEEARRIAFNSKNKIRKLREILERH--RKDKIIIFTRHNELVYRISKVFLIPAI 374
Query: 356 YGPTSQSERIQILQNFKLNPKVNTIFVSKVADTSFDLPEANVLIQISSHGGSRRQEAQRL 415
TS+ ER +IL+ F+ + I S+V D D+P+ANV + + S GS R+ QRL
Sbjct: 375 THRTSREEREEILEGFR-TGRFRAIVSSQVLDEGIDVPDANVGVIM-SGSGSAREYIQRL 432
Query: 416 GRILRAKKGAIAEEYNAFFYTLVSQDTMEMSYSRKRQRFLINQGYS 461
GRILR KG + A Y L+S+ T E++ +R+R+ +G +
Sbjct: 433 GRILRPSKG----KKEAVLYELISRGTGEVNTARRRK--NAAKGAA 472
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 83.0 bits (204), Expect = 6e-17
Identities = 32/255 (12%), Positives = 84/255 (32%), Gaps = 12/255 (4%)
Query: 215 IHEVHTIPAKMFRRVLTIVQSH-CKLGLTATLLREDDKIADLNFLIGPKLYEANWLELQK 273
E H K +++ + + K GL+ +L I + G +L +
Sbjct: 231 NDECHLATGKSISSIISGLNNCMFKFGLSGSLRDGKANIMQYVGMFGEIFKPVTTSKLME 290
Query: 274 RGFIARVQCAEVWCPMSPEFYREYLVCKTSKRLLLYVMNPNKYRATQYLIAYHERRGDKT 333
G + ++ ++ EF + + + + + + L ++ +
Sbjct: 291 DGQVTELKINSIFLRYPDEFTTKLKGKTYQEEIKIITGLSKRNKWIAKLAIKLAQKDENA 350
Query: 334 IVFSDNVFALKHYAVKMNKP-----YIYGPTSQSERIQILQNFKLNPKVNTIFVSKVADT 388
V +V K + Y+ G R + + + + V T
Sbjct: 351 FVMFKHVSHGKAIFDLIKNEYDKVYYVSGEVDTETRNIMKTLAENGKGIIIVASYGVFST 410
Query: 389 SFDLPEANVLIQISSHGGSRRQEAQRLGRILRAKKGAIAEEYNAFFYTLVSQDTMEMSYS 448
+ + ++ ++ S+ Q +GR+LR + A + L+ ++ +
Sbjct: 411 GISVKNLHHVV-LAHGVKSKIIVLQTIGRVLRKHGS----KTIATVWDLIDDAGVKPKSA 465
Query: 449 RKRQRFLINQGYSYK 463
+++++ + Y K
Sbjct: 466 NTKKKYV-HLNYLLK 479
>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 = 79.3 bits (196), Expect = 6e-17
Identities = 15/98 (15%), Positives = 35/98 (35%), Gaps = 17/98 (17%)
Query: 38 AGKSLVGVTACCTVRKRALVLCNSGVSVEQWKHQFKLWSTADDSMICRFTSEAKDKPMGC 97
+GK+ V + A + L++ + EQWK + ++ + + F+ K+
Sbjct: 119 SGKTHVAMAAINELSTPTLIVVPTLALAEQWKERLGIFG---EEYVGEFSGRIKE---LK 172
Query: 98 GILVTTYSMISHTQKRSWEADQTMQWLQNQEWGIMLLD 135
+ V+TY + +++ D
Sbjct: 173 PLTVSTYDSAYV-----------NAEKLGNRFMLLIFD 199
Score = 66.2 bits (162), Expect = 2e-12
Identities = 14/35 (40%), Positives = 23/35 (65%)
Query: 217 EVHTIPAKMFRRVLTIVQSHCKLGLTATLLREDDK 251
EVH +PA+ + ++ + + +LGLTAT RED +
Sbjct: 200 EVHHLPAESYVQIAQMSIAPFRLGLTATFEREDGR 234
>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 = 52.5 bits (125), Expect = 3e-07
Identities = 78/528 (14%), Positives = 136/528 (25%), Gaps = 196/528 (37%)
Query: 20 KKKKKKKKKKKKKKKRPSAGKSLVGVTACCTVRKRALVL--CNSGVSVEQ-------W-- 68
+ + K ++ + RP+ + GV K + L C S V+ W
Sbjct: 133 RLQPYLKLRQALLELRPAKNVLIDGVLGS---GKTWVALDVCLS-YKVQCKMDFKIFWLN 188
Query: 69 -----------KHQFKLWSTADDSMICRF---------TSEAKDKP-------------- 94
+ KL D + R + +
Sbjct: 189 LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL 248
Query: 95 ---------------MGCGILVTTYSMISHTQKRSWEADQTMQWLQNQEWGIMLLDDGVP 139
+ C IL+TT T S A T + + D+
Sbjct: 249 VLLNVQNAKAWNAFNLSCKILLTTRF-KQVTDFLS--AATTTHISLDHHSMTLTPDEVKS 305
Query: 140 VAAKK-NVEKDDAAVPEDE----------FGAKDYRAQMVLKPDHKSRP-LWVAPNG--- 184
+ K + D +P + D + W N
Sbjct: 306 LLLKYLDCRPQD--LPREVLTTNPRRLSIIAE--------SIRDGLATWDNWKHVNCDKL 355
Query: 185 ----HIFLESFSPV-YRHAHDFLIAIAEPVCRPEHIHEVHTIPAKMFRR---------VL 230
L P YR D L ++ P H IP + V+
Sbjct: 356 TTIIESSLNVLEPAEYRKMFDRL-SVF-----PPSAH----IPTILLSLIWFDVIKSDVM 405
Query: 231 TIVQSHCKLGLTATLLREDDK-----IADLNFLIGPKLYEANWLELQKRGFIARVQCAEV 285
+V K L+ + K I + + KL N L + + +
Sbjct: 406 VVVNKLHKYS----LVEKQPKESTISIPSIYLELKVKL--ENEYALHRS-IVDHYNIPKT 458
Query: 286 WCP--MSPEFYREYLVCKTSKRLLLYVMNPNKYRATQYLIAYH---ERRGDKTIVFSDNV 340
+ + P + +Y Y + I +H ++ +F V
Sbjct: 459 FDSDDLIPPYLDQY----------FY----------SH-IGHHLKNIEHPERMTLFR-MV 496
Query: 341 F--------ALKHYAVKMNKPYIYGPTSQSERIQILQNFK---------LNPKVNTI--F 381
F ++H + N S +Q L+ +K VN I F
Sbjct: 497 FLDFRFLEQKIRHDSTAWN-----ASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDF 551
Query: 382 VSKVADTSFDLPEANVLIQISSHGGSRRQEAQRLGRILRAKKGAIAEE 429
+ K+ + + L++I+ L A+ AI EE
Sbjct: 552 LPKIEENLICSKYTD-LLRIA----------------LMAEDEAIFEE 582
Score = 51.4 bits (122), Expect = 6e-07
Identities = 61/400 (15%), Positives = 118/400 (29%), Gaps = 99/400 (24%)
Query: 185 HIFLESFSPVY--RHAHDFLIAIAEPVCRPEHIHEVHTIPAKM--FRRVLTIVQSHCKLG 240
+F ++F + + D + + E I + + R+ + S +
Sbjct: 23 SVFEDAFVDNFDCKDVQDMP----KSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEM 78
Query: 241 LTATLLREDDKIADLNFLIGPKLYEANWLELQKRGFIARVQCAEVWCPMSPEFYREYLVC 300
+ + + FL+ P E + R +I + ++ + + +Y V
Sbjct: 79 VQKFVEEVLRI--NYKFLMSPIKTEQRQPSMMTRMYIEQRD--RLY--NDNQVFAKYNVS 132
Query: 301 KTSK----RLLLYVMNPNKYRATQYLIAYHERRGD----KTIVFSDNVFALKHYAVKMNK 352
+ R L + P K + G KT V D Y V+
Sbjct: 133 RLQPYLKLRQALLELRPAKN------VLID---GVLGSGKTWVALD---VCLSYKVQCKM 180
Query: 353 PY-IY----GP-TSQSERIQILQNFKLNPKVNTIFVSKVADTSFDLPEANVLIQISSHGG 406
+ I+ S +++LQ L +++ + S+ +D S ++
Sbjct: 181 DFKIFWLNLKNCNSPETVLEMLQK--LLYQIDPNWTSR-SDHSSNIKL------------ 225
Query: 407 SRRQEAQ-RLGRILRAKKGAIA----------EEYNAFFY---TLVSQDTMEMSYSRKRQ 452
R Q L R+L++K + +NAF L+ T +R +Q
Sbjct: 226 -RIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILL---T-----TRFKQ 276
Query: 453 RFLINQGYSYKVITKLAGMEEERGMHYSTRDEQGQLLQQVLAASETDADEERVAGEVGGV 512
+ I+ + T DE LL + L D E
Sbjct: 277 VTDFLSAATTTHIS---LDHHSMTL---TPDEVKSLLLKYLDCRPQDLPRE--------- 321
Query: 513 SGGFKRSGGTMA-SLSGADDAVYHESRFSNVKHPLFKKFR 551
+ S+ + + N KH K
Sbjct: 322 ----VLTTNPRRLSIIAESIRD-GLATWDNWKHVNCDKLT 356
Score = 47.2 bits (111), Expect = 1e-05
Identities = 56/450 (12%), Positives = 119/450 (26%), Gaps = 145/450 (32%)
Query: 133 LLDDGVPVAAKKNVEKDDAAVPEDEFGA-------KDYRAQMV-------LKPDHKSRPL 178
+ D + +K+ ++ + G + +MV L+ ++K
Sbjct: 38 VQDMPKSILSKEEID-HIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYK---- 92
Query: 179 WVA-----------PNGHIFLESFSPVYRHAHDFLIAIAEPVCRPEHIHEVHTI-----P 222
++ +++E +Y F V R + ++ P
Sbjct: 93 FLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVF---AKYNVSRLQPYLKLRQALLELRP 149
Query: 223 AK------MF---RRVLTI--VQSH---CKLG-----LTATLLREDDKI----ADLNFLI 259
AK + + + + S+ CK+ L + + L + I
Sbjct: 150 AKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI 209
Query: 260 GPKL-----------YEANWLELQKRGFIAR---VQC----AEVWCPMSPEFYREYLV-C 300
P + ++ + R + C V + + + + + C
Sbjct: 210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQ---NAKAWNAFNLSC 266
Query: 301 KTSKRLLL----YVMNPNKYRATQYLIAYHERRG---DKTI-VFSD----NVFALKHYAV 348
K LL V + T ++ H D+ + L +
Sbjct: 267 KI---LLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVL 323
Query: 349 KMNKPYIYG--PTSQSERIQILQNFKLNPKVNTIFVSKVADTSFD--------------- 391
N P S + + N+K VN ++ + ++S +
Sbjct: 324 TTN-PRRLSIIAESIRDGLATWDNWK---HVNCDKLTTIIESSLNVLEPAEYRKMFDRLS 379
Query: 392 -LPEANVLIQISSHGGSRRQEAQRLGRILRAKKGAIAEEYNAFF--YTLVSQDTMEMSYS 448
P + I L I + Y+LV + E + S
Sbjct: 380 VFPP-SAHI-----------PTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTIS 427
Query: 449 RKRQRFLINQGYSYKVITKLAGMEEERGMH 478
I Y + +E E +H
Sbjct: 428 -------IPSIY----LELKVKLENEYALH 446
>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 = 50.4 bits (120), Expect = 2e-06
Identities = 56/335 (16%), Positives = 93/335 (27%), Gaps = 120/335 (35%)
Query: 173 HKSRPL----------WVAPNGHIFL-----ESFSPVYRHAHDFLIAIAEPVCRPE---- 213
+ +RPL + P F+ E F+ + + A EP E
Sbjct: 4 YSTRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGK 63
Query: 214 ---HI-HEVHTIPAKMFRRVLTIVQS------------HCKLGLTATLLREDDK-IADLN 256
++ V F +VL + + H L A LL+E+D +
Sbjct: 64 FLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHA---LAAKLLQENDTTLVKTK 120
Query: 257 FLI------------------GPKLYEA-------------------NWL-ELQK----- 273
LI L+ A ++ EL+
Sbjct: 121 ELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTY 180
Query: 274 RGFIARV--QCAEVWCPMSPEFYREYLVCKTSKRLLLYVMNPNKYRATQYLIAYHERRGD 331
+ + AE + V +L ++ NP+ YL+
Sbjct: 181 HVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLL-------- 232
Query: 332 KTIVFSDN---VFALKHYAVKMN---------KPYIYGPTSQSERIQILQNFKLNPKVNT 379
+I S V L HY V + Y+ G T S+ + V
Sbjct: 233 -SIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGL-----------VTA 280
Query: 380 IFVSKVADT--SFDLPEANVLIQISSHGGSRRQEA 412
+ ++ D+ SF I + G R EA
Sbjct: 281 VAIA-ETDSWESF-FVSVRKAITVLFFIGVRCYEA 313
Score = 38.9 bits (90), Expect = 0.005
Identities = 81/503 (16%), Positives = 143/503 (28%), Gaps = 189/503 (37%)
Query: 54 RALVLCNSGVSVEQWKHQF----KLWSTAD---DSMICRFTS---------EAKDKPMGC 97
R L L + G S+E H + A + +F A D+P
Sbjct: 7 RPLTL-SHG-SLE---HVLLVPTASFFIASQLQE----QFNKILPEPTEGFAADDEPTTP 57
Query: 98 GILVTTY-SMISHTQKRSWEADQTMQWLQNQ----EWGIMLLDDGVPVAAKKNVEKDDAA 152
LV + +S + S + Q Q L E + +D + A K ++++D
Sbjct: 58 AELVGKFLGYVSSLVEPS-KVGQFDQVLNLCLTEFENCYLEGND-IHALAAKLLQENDTT 115
Query: 153 VPEDEFGAKDY-RAQMVLK----PDHKSRPLWVAPNGH-----IF--------------- 187
+ + + K+Y A+++ K S G+ IF
Sbjct: 116 LVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRD 175
Query: 188 -------------------LESFS-------PVYRHAHDFLIAIAEPVCRPEHIHEVHTI 221
L V+ + L + P P+ + + +I
Sbjct: 176 LYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDY-LLSI 234
Query: 222 PAKMFRRVLTIVQ-SH----CK-LGLTATLLREDDKIADLNFLIGPKLYEANWLELQKRG 275
P ++ ++Q +H K LG T LR +L G +G
Sbjct: 235 PISC--PLIGVIQLAHYVVTAKLLGFTPGELRS--------YLKG--------ATGHSQG 276
Query: 276 FIARVQCAEV--WCPMSPEFY---REYLVCKTSKRLLLYVMNPNKYRATQY--------- 321
+ V AE W F+ R+ + +L ++ R +
Sbjct: 277 LVTAVAIAETDSW----ESFFVSVRKAI------TVLFFI----GVRCYEAYPNTSLPPS 322
Query: 322 LIAYHERRGDKT-----IVFSDNVFALKHYAVKMNKPYIYGPTSQSERIQI-LQNFKLNP 375
++ + + + ++ Y K N + P ++++I L N
Sbjct: 323 ILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNS---HLP--AGKQVEISLVN---GA 374
Query: 376 KVNTIFVSKVADTSFDLPEANVLIQISSHGGSRRQEAQRLGRILRAKKGAIAEEYNAFFY 435
K N V V+ L L LR K +
Sbjct: 375 K-N--LV--VSGPPQSL--------------------YGLNLTLRKAKAPSGLD------ 403
Query: 436 TLVSQDTMEMSYSRK---RQRFL 455
Q + S RK RFL
Sbjct: 404 ----QSRIPFS-ERKLKFSNRFL 421
Score = 31.6 bits (71), Expect = 0.86
Identities = 12/46 (26%), Positives = 20/46 (43%), Gaps = 8/46 (17%)
Query: 130 GIMLLDDGVPVAAK--KNVEKDDAAVPEDEFGAKDYRAQMV-LKPD 172
+M ++ V V ++ AVP DE G +Y M+ + P
Sbjct: 1775 DVMSIESLVEVVFYRGMTMQV---AVPRDELGRSNYG--MIAINPG 1815
>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 = 45.2 bits (106), Expect = 5e-05
Identities = 33/191 (17%), Positives = 68/191 (35%), Gaps = 26/191 (13%)
Query: 278 ARVQCAEVWCPMSPEFYREYLVCKTSKRLLLYVMNPNKYRATQYLIAYHERRGD--KTIV 335
A+ + + + + + + + + +P K + +I +R K IV
Sbjct: 308 AKAGSTKASKEIFSDKRMKKAISLLVQAKEIGLDHP-KMDKLKEIIREQLQRKQNSKIIV 366
Query: 336 FSDNVFALKHYAVKMNKPYIY-------------GPTSQSERIQILQNFKLNPKVNTIFV 382
F++ K ++ K I SQ E+ IL F + N +
Sbjct: 367 FTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFA-RGEFNVLVA 425
Query: 383 SKVADTSFDLPEANVLIQISSHGGSRRQEAQRLGRILRAKKGAIAEEYNAFFYTLVSQDT 442
+ V + D+PE ++++ + R QR GR R G L+++ T
Sbjct: 426 TSVGEEGLDVPEVDLVVFYEPVPSAIRSI-QRRGRTGRHMPG--------RVIILMAKGT 476
Query: 443 MEMSYSRKRQR 453
+ +Y ++
Sbjct: 477 RDEAYYWSSRQ 487
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 41.8 bits (97), Expect = 5e-04
Identities = 23/116 (19%), Positives = 45/116 (38%), Gaps = 14/116 (12%)
Query: 360 SQSERIQILQNFKLNPKVNTIFVSKVADTSFDLPEANVLIQISSHGGSRRQEAQRLGRIL 419
+ + +L+ F+ + N + + VAD D+ E N++I G + Q GR
Sbjct: 436 TLPAQKCVLEAFRASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKMI-QTRGRG- 493
Query: 420 RAKKGAIAEEYNAFFYTLVSQDTMEMSYSRKRQRFLINQGYSYKVITKLAGMEEER 475
RA+ + L S + K + +I + + I +L +E +
Sbjct: 494 RARDSK--------CFLLTSSADVI----EKEKANMIKEKIMNESILRLQTWDEMK 537
>1rif_A DAR protein, DNA helicase UVSW; bacteriophage, RECG, SF2, DNA
binding protein; HET: DNA; 2.00A {Enterobacteria phage
T4} SCOP: c.37.1.23
Length = 282
Score = 38.5 bits (88), Expect = 0.003
Identities = 9/46 (19%), Positives = 16/46 (34%), Gaps = 1/46 (2%)
Query: 217 EVHTIPAKMFRRVLT-IVQSHCKLGLTATLLREDDKIADLNFLIGP 261
E H K +++ + K GL+ +L I + G
Sbjct: 233 ECHLATGKSISSIISGLNNCMFKFGLSGSLRDGKANIMQYVGMFGE 278
>3u5c_Z RP45, S31, YS23, 40S ribosomal protein S25-A; translation,
ribosome, ribosomal, ribosomal R ribosomal protein,
eukaryotic ribosome, RNA-protein C; 3.00A
{Saccharomyces cerevisiae} PDB: 3izb_V 3o30_Q 3o2z_Q
3u5g_Z
Length = 108
Score = 33.8 bits (77), Expect = 0.031
Identities = 8/30 (26%), Positives = 11/30 (36%)
Query: 12 KKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
K++ K K KK KK+ S
Sbjct: 3 PKQQLSKAAKAAAALAGGKKSKKKWSKKSM 32
Score = 30.0 bits (67), Expect = 0.66
Identities = 9/25 (36%), Positives = 10/25 (40%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
K K KK KKK KK +
Sbjct: 9 KAAKAAAALAGGKKSKKKWSKKSMK 33
Score = 29.2 bits (65), Expect = 1.1
Identities = 9/24 (37%), Positives = 9/24 (37%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKK 34
K K KK KKK KK
Sbjct: 8 SKAAKAAAALAGGKKSKKKWSKKS 31
Score = 28.8 bits (64), Expect = 1.5
Identities = 9/25 (36%), Positives = 9/25 (36%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
K K KK KKK KK
Sbjct: 7 LSKAAKAAAALAGGKKSKKKWSKKS 31
Score = 28.8 bits (64), Expect = 1.8
Identities = 9/24 (37%), Positives = 10/24 (41%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKK 34
K KK KKK KK K +
Sbjct: 12 KAAAALAGGKKSKKKWSKKSMKDR 35
Score = 28.4 bits (63), Expect = 1.9
Identities = 8/24 (33%), Positives = 9/24 (37%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKK 34
+ K K KK KKK K
Sbjct: 6 QLSKAAKAAAALAGGKKSKKKWSK 29
Score = 28.4 bits (63), Expect = 2.1
Identities = 11/33 (33%), Positives = 13/33 (39%)
Query: 1 MGFRDVISGCKKKKKKKKKKKKKKKKKKKKKKK 33
M + +S K KK KKK KK K
Sbjct: 1 MPPKQQLSKAAKAAAALAGGKKSKKKWSKKSMK 33
>3iz6_V 40S ribosomal protein S25 (S25E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel
ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
Length = 108
Score = 33.4 bits (76), Expect = 0.039
Identities = 12/30 (40%), Positives = 14/30 (46%)
Query: 12 KKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
KK K K K K+KKK+ S GK
Sbjct: 4 KKDKAPPPSSKPAKSGGGKQKKKKWSKGKQ 33
Score = 29.6 bits (66), Expect = 0.75
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
K K K+KKKK K K++
Sbjct: 10 PPSSKPAKSGGGKQKKKKWSKGKQK 34
Score = 29.6 bits (66), Expect = 0.97
Identities = 9/24 (37%), Positives = 10/24 (41%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKK 34
K K K K+KKKK K
Sbjct: 7 KAPPPSSKPAKSGGGKQKKKKWSK 30
Score = 29.2 bits (65), Expect = 1.0
Identities = 9/24 (37%), Positives = 10/24 (41%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKK 34
K K K+KKKK K K
Sbjct: 9 PPPSSKPAKSGGGKQKKKKWSKGK 32
Score = 29.2 bits (65), Expect = 1.1
Identities = 8/25 (32%), Positives = 10/25 (40%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
K K K+KKKK K +
Sbjct: 8 APPPSSKPAKSGGGKQKKKKWSKGK 32
Score = 29.2 bits (65), Expect = 1.3
Identities = 11/34 (32%), Positives = 15/34 (44%)
Query: 1 MGFRDVISGCKKKKKKKKKKKKKKKKKKKKKKKK 34
M + + K K K+KKKK K K+K
Sbjct: 1 MAPKKDKAPPPSSKPAKSGGGKQKKKKWSKGKQK 34
Score = 28.8 bits (64), Expect = 1.9
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKK 34
K K K+KKKK K K+K+K
Sbjct: 13 SKPAKSGGGKQKKKKWSKGKQKEK 36
Score = 28.0 bits (62), Expect = 3.2
Identities = 8/25 (32%), Positives = 10/25 (40%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
K K K K+KKKK +
Sbjct: 6 DKAPPPSSKPAKSGGGKQKKKKWSK 30
>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine
proteinase, wild type, viral protein; 2.38A {Sindbis
virus} SCOP: b.47.1.3 PDB: 1ld4_A 3j0f_A
Length = 264
Score = 35.2 bits (80), Expect = 0.044
Identities = 13/30 (43%), Positives = 21/30 (70%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
++KK+ K+ K KK K ++KKKK+P+ K
Sbjct: 70 RQKKQAPKQPPKPKKPKPQEKKKKQPAKTK 99
Score = 35.2 bits (80), Expect = 0.046
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRP 36
K+ K KK K ++KKKK+ K +P
Sbjct: 75 APKQPPKPKKPKPQEKKKKQPAKTKP 100
Score = 34.0 bits (77), Expect = 0.100
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
K KK K ++KKKK+ K K K++ A K
Sbjct: 80 PKPKKPKPQEKKKKQPAKTKPGKRQRMALK 109
Score = 33.2 bits (75), Expect = 0.18
Identities = 11/35 (31%), Positives = 18/35 (51%), Gaps = 5/35 (14%)
Query: 11 KKKKKKKKK-----KKKKKKKKKKKKKKKRPSAGK 40
++KK+ KK K ++KKKK+ + GK
Sbjct: 68 PPRQKKQAPKQPPKPKKPKPQEKKKKQPAKTKPGK 102
Score = 33.2 bits (75), Expect = 0.18
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
K KK K ++KKKK+ K K KR
Sbjct: 79 PPKPKKPKPQEKKKKQPAKTKPGKR 103
Score = 32.5 bits (73), Expect = 0.33
Identities = 12/32 (37%), Positives = 17/32 (53%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKSL 42
K+ K KK K ++KKKK+ K K +L
Sbjct: 77 KQPPKPKKPKPQEKKKKQPAKTKPGKRQRMAL 108
Score = 31.7 bits (71), Expect = 0.56
Identities = 7/30 (23%), Positives = 14/30 (46%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
+ ++KK+ K+ K KK K + +
Sbjct: 65 PRPPPRQKKQAPKQPPKPKKPKPQEKKKKQ 94
Score = 31.7 bits (71), Expect = 0.58
Identities = 8/30 (26%), Positives = 15/30 (50%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
+ + ++KK+ K+ K KK K + K
Sbjct: 64 RPRPPPRQKKQAPKQPPKPKKPKPQEKKKK 93
Score = 30.9 bits (69), Expect = 0.83
Identities = 8/30 (26%), Positives = 15/30 (50%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
+ + ++KK+ K+ K KK +P K
Sbjct: 62 NPRPRPPPRQKKQAPKQPPKPKKPKPQEKK 91
Score = 29.8 bits (66), Expect = 2.0
Identities = 8/30 (26%), Positives = 14/30 (46%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
+ + ++KK+ K+ K KK K K
Sbjct: 63 PRPRPPPRQKKQAPKQPPKPKKPKPQEKKK 92
Score = 27.9 bits (61), Expect = 9.2
Identities = 7/30 (23%), Positives = 14/30 (46%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
+ + + ++KK+ K+ K KK K
Sbjct: 61 QNPRPRPPPRQKKQAPKQPPKPKKPKPQEK 90
>1i7d_A DNA topoisomerase III; decatenating enzyme, protein-DNA complex,
single-stranded DNA, isomerase/DNA complex; HET: DNA;
2.05A {Escherichia coli} SCOP: e.10.1.1 PDB: 2o5c_A*
2o54_A* 2o59_A* 2o19_A* 2o5e_A* 1d6m_A*
Length = 659
Score = 35.7 bits (83), Expect = 0.045
Identities = 7/35 (20%), Positives = 10/35 (28%)
Query: 10 CKKKKKKKKKKKKKKKKKKKKKKKKRPSAGKSLVG 44
KKK +K+ KK G +
Sbjct: 619 APGSGGSADKKKAAPRKRSAKKSPPADEVGSGAIA 653
>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 = 0.059
Identities = 18/115 (15%), Positives = 41/115 (35%), Gaps = 14/115 (12%)
Query: 360 SQSERIQILQNFKLNPKVNTIFVSKVADTSFDLPEANVLIQISSHGGSRRQEAQRLGRIL 419
+ + +L FK + + + VAD D+ + N+++ G+ + Q GR
Sbjct: 678 TLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYS-GNVTKMIQVRGR-- 734
Query: 420 RAKKGAIAEEYNAFFYTLVSQDTMEMSYSRKRQRFLINQGYSYKVITKLAGMEEE 474
+ + S+ + + R + + K + K+ +EE
Sbjct: 735 -------GRAAGSKCILVTSKTEVVENEKCNRYK----EEMMNKAVEKIQKWDEE 778
>2nqb_D Histone H2B; nucleosome, NCP, chromatin, structural protein/DNA
complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_D*
Length = 123
Score = 33.1 bits (75), Expect = 0.068
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
K KK K +K K KKKK+KR
Sbjct: 7 GKAAKKAGKAQKNITKTDKKKKRKR 31
Score = 32.0 bits (72), Expect = 0.15
Identities = 11/31 (35%), Positives = 14/31 (45%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
K K KK K +K K KKK+ +S
Sbjct: 4 KTSGKAAKKAGKAQKNITKTDKKKKRKRKES 34
Score = 31.6 bits (71), Expect = 0.20
Identities = 9/25 (36%), Positives = 11/25 (44%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
K K KK K +K K KK+
Sbjct: 3 PKTSGKAAKKAGKAQKNITKTDKKK 27
Score = 27.7 bits (61), Expect = 4.3
Identities = 8/29 (27%), Positives = 10/29 (34%)
Query: 13 KKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
K K KK K +K K + K
Sbjct: 3 PKTSGKAAKKAGKAQKNITKTDKKKKRKR 31
>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 = 0.074
Identities = 17/94 (18%), Positives = 31/94 (32%), Gaps = 10/94 (10%)
Query: 360 SQSERIQILQNFKLNPKVNTIFVSKVADTSFDLPEANVLIQISSHGGSRRQEAQRLGRIL 419
+ + IL FK + N + + VAD D+ + N++I G + Q GR
Sbjct: 445 TLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMI-QTRGR-- 501
Query: 420 RAKKGAIAEEYNAFFYTLVSQDTMEMSYSRKRQR 453
+ + L S + +
Sbjct: 502 -------GRARGSKCFLLTSNAGVIEKEQINMYK 528
>1b6a_A Methionine aminopeptidase; angiogenesis inhibitor; HET: TN4; 1.60A
{Homo sapiens} SCOP: a.4.5.25 d.127.1.1 PDB: 1qzy_A*
1boa_A* 1kq0_A 1kq9_A 1bn5_A* 1b59_A* 1yw9_A* 1r5g_A*
1r5h_A* 1r58_A* 1yw8_A* 1yw7_A* 2adu_A* 2ea2_A* 2ea4_A*
2ga2_A* 2oaz_A*
Length = 478
Score = 34.1 bits (78), Expect = 0.12
Identities = 11/26 (42%), Positives = 13/26 (50%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRP 36
KKKKKKKKK+ K + P
Sbjct: 90 GDGDGATGKKKKKKKKKRGPKVQTDP 115
Score = 33.4 bits (76), Expect = 0.20
Identities = 10/27 (37%), Positives = 12/27 (44%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPS 37
KKKKKKKKK+ K +
Sbjct: 87 DGDGDGDGATGKKKKKKKKKRGPKVQT 113
Score = 33.4 bits (76), Expect = 0.21
Identities = 10/28 (35%), Positives = 12/28 (42%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSA 38
+ KKKKKKKKK+ P
Sbjct: 84 DDEDGDGDGDGATGKKKKKKKKKRGPKV 111
Score = 33.0 bits (75), Expect = 0.27
Identities = 13/33 (39%), Positives = 15/33 (45%)
Query: 5 DVISGCKKKKKKKKKKKKKKKKKKKKKKKKRPS 37
D KKKKKKKKK+ K + PS
Sbjct: 85 DEDGDGDGDGATGKKKKKKKKKRGPKVQTDPPS 117
Score = 31.0 bits (70), Expect = 0.93
Identities = 10/28 (35%), Positives = 12/28 (42%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSA 38
+ + KKKKKKKKKR
Sbjct: 83 EDDEDGDGDGDGATGKKKKKKKKKRGPK 110
Score = 29.9 bits (67), Expect = 2.5
Identities = 8/29 (27%), Positives = 11/29 (37%)
Query: 12 KKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
+ + KKKKKKKK+
Sbjct: 83 EDDEDGDGDGDGATGKKKKKKKKKRGPKV 111
Score = 29.1 bits (65), Expect = 3.9
Identities = 7/31 (22%), Positives = 12/31 (38%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
++ + + KKKKKK+ G
Sbjct: 80 ERDEDDEDGDGDGDGATGKKKKKKKKKRGPK 110
>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 421
Score = 33.7 bits (76), Expect = 0.14
Identities = 13/30 (43%), Positives = 15/30 (50%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
K KK KK KK KK K+P+A K
Sbjct: 376 KGKKTVGVKKPKKPVVGKKAAATKKPAADK 405
Score = 32.2 bits (72), Expect = 0.43
Identities = 10/27 (37%), Positives = 13/27 (48%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPS 37
KK KK KK KK +K+P+
Sbjct: 387 KKPVVGKKAAATKKPAADKKPAEKKPT 413
Score = 32.2 bits (72), Expect = 0.47
Identities = 12/30 (40%), Positives = 14/30 (46%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
K KK ++KK KK KK KK K
Sbjct: 365 KGVPGKKPRRKKGKKTVGVKKPKKPVVGKK 394
Score = 32.2 bits (72), Expect = 0.50
Identities = 11/30 (36%), Positives = 13/30 (43%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
KK KK KK KK K+P+ K
Sbjct: 382 GVKKPKKPVVGKKAAATKKPAADKKPAEKK 411
Score = 32.2 bits (72), Expect = 0.53
Identities = 11/33 (33%), Positives = 12/33 (36%)
Query: 9 GCKKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
G KK KK KK KK KK +
Sbjct: 382 GVKKPKKPVVGKKAAATKKPAADKKPAEKKPTT 414
Score = 31.8 bits (71), Expect = 0.58
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
KK ++KK KK KK KK K+ +A K
Sbjct: 370 KKPRRKKGKKTVGVKKPKKPVVGKKAAATK 399
Score = 31.8 bits (71), Expect = 0.63
Identities = 12/30 (40%), Positives = 15/30 (50%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
K ++KK KK KK KK KK + K
Sbjct: 371 KPRRKKGKKTVGVKKPKKPVVGKKAAATKK 400
Score = 31.4 bits (70), Expect = 0.71
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSA 38
K KK KK +KK ++K+P+A
Sbjct: 394 KAAATKKPAADKKPAEKKPTTEEKKPAA 421
Score = 31.4 bits (70), Expect = 0.81
Identities = 13/45 (28%), Positives = 15/45 (33%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKSLVGVTACCTVRKRA 55
KK KK KK KK KK + A T K+
Sbjct: 375 KKGKKTVGVKKPKKPVVGKKAAATKKPAADKKPAEKKPTTEEKKP 419
Score = 30.6 bits (68), Expect = 1.5
Identities = 11/31 (35%), Positives = 15/31 (48%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
KK ++KK KK KK KK + +A
Sbjct: 369 GKKPRRKKGKKTVGVKKPKKPVVGKKAAATK 399
Score = 27.9 bits (61), Expect = 8.7
Identities = 10/30 (33%), Positives = 13/30 (43%)
Query: 12 KKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
KK ++KK KK KK KK +
Sbjct: 368 PGKKPRRKKGKKTVGVKKPKKPVVGKKAAA 397
>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 = 34.0 bits (78), Expect = 0.15
Identities = 41/228 (17%), Positives = 73/228 (32%), Gaps = 56/228 (24%)
Query: 215 IHEVHTIPAKM---FRRVLTIVQSHCKLGLTATLLREDDK------------------IA 253
I E H A+ +R +L + ++G+TAT LRED++ I
Sbjct: 308 IDECHRGSARDNSNWREILEYFEPAFQIGMTATPLREDNRDTYRYFGNPIYTYSLRQGID 367
Query: 254 DLNFLIGPKLYEANWLELQKRGFIARVQCAEVWCPMSPEFYREYLVCKTSKRLLLYVMNP 313
D FL +++ E+ G+ + + P+ EY +K +
Sbjct: 368 D-GFLAPYRVHRVI-SEVDAAGWRPSKGDVDRFGREIPD--GEY----QTKDFERVIALK 419
Query: 314 NKYRATQYLIAYHERRGD---KTIVFSDNVFALKHYAVKM----NKPYI----------- 355
+ A + +R D KTIVF + +H A +M N
Sbjct: 420 ARTDAFAKHLTDFMKRTDRFAKTIVFCVDQ---EH-ADEMRRALNNLNSDLSRKHPDYVA 475
Query: 356 ----YGPTSQSERIQILQNFKLNPKVNTIFVSKVADTSFDLPEANVLI 399
+ Q + + S++ T D P ++
Sbjct: 476 RVTSEEGKIGKGHLSRFQELE-TSTPVILTTSQLLTTGVDAPTCKNVV 522
>1tzy_B Histone H2B; histone-fold, tetramer-dimer-dimer, DNA binding
protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB:
1eqz_B 1hq3_B 2aro_B 2hio_B 3c9k_B 3azg_D 3a6n_D 3an2_D
3av1_D 3av2_D 3ayw_D 3aze_D 3azf_D 3afa_D 3azh_D 3azi_D
3azj_D 3azk_D 3azl_D 3azm_D ...
Length = 126
Score = 32.1 bits (72), Expect = 0.15
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
KK KK K +KK KK+KK R
Sbjct: 10 APKKGSKKAVTKTQKKGDKKRKKSR 34
Score = 30.9 bits (69), Expect = 0.40
Identities = 11/25 (44%), Positives = 12/25 (48%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
K KK KK K +KK KKR
Sbjct: 6 KSAPAPKKGSKKAVTKTQKKGDKKR 30
Score = 30.5 bits (68), Expect = 0.52
Identities = 11/31 (35%), Positives = 15/31 (48%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
KK KK K +KK KK++ S +S
Sbjct: 7 SAPAPKKGSKKAVTKTQKKGDKKRKKSRKES 37
Score = 28.6 bits (63), Expect = 2.2
Identities = 9/25 (36%), Positives = 11/25 (44%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
K KK KK K +KK K+
Sbjct: 5 AKSAPAPKKGSKKAVTKTQKKGDKK 29
Score = 28.6 bits (63), Expect = 2.3
Identities = 10/31 (32%), Positives = 12/31 (38%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
+ K KK KK K +KK KS
Sbjct: 3 EPAKSAPAPKKGSKKAVTKTQKKGDKKRKKS 33
>3kio_B Ribonuclease H2 subunit B; aicardi-goutieres syndrome, RNAse H2,
protein complex, autoimmune disease, endonuclease,
hydrolase, metal-binding; 2.90A {Mus musculus} PDB:
3p5j_B 3puf_B 3p56_B
Length = 332
Score = 32.9 bits (74), Expect = 0.22
Identities = 10/32 (31%), Positives = 12/32 (37%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKSL 42
K K KK K +K K S KS+
Sbjct: 287 NTKDLKTGKKNSKMTAAQKALAKVDKSGMKSI 318
Score = 31.0 bits (69), Expect = 0.92
Identities = 8/31 (25%), Positives = 10/31 (32%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
K K KK K +K K +G
Sbjct: 286 FNTKDLKTGKKNSKMTAAQKALAKVDKSGMK 316
Score = 30.6 bits (68), Expect = 1.3
Identities = 7/26 (26%), Positives = 8/26 (30%)
Query: 8 SGCKKKKKKKKKKKKKKKKKKKKKKK 33
K K KK K +K K
Sbjct: 285 KFNTKDLKTGKKNSKMTAAQKALAKV 310
Score = 30.2 bits (67), Expect = 1.9
Identities = 11/37 (29%), Positives = 15/37 (40%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKSLVGVTA 47
+ K+ K K K KK K +A K+L V
Sbjct: 276 PVEAKEDYTKFNTKDLKTGKKNSKMTAAQKALAKVDK 312
Score = 29.4 bits (65), Expect = 3.1
Identities = 9/37 (24%), Positives = 10/37 (27%), Gaps = 13/37 (35%)
Query: 11 KKKKKKKKKKKKKKK-------------KKKKKKKKK 34
KK K +K K K KK K
Sbjct: 295 KKNSKMTAAQKALAKVDKSGMKSIDAFFGAKNKKTGK 331
Score = 29.4 bits (65), Expect = 3.1
Identities = 8/34 (23%), Positives = 11/34 (32%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKSLVG 44
+ K K K KK K ++ A G
Sbjct: 281 EDYTKFNTKDLKTGKKNSKMTAAQKALAKVDKSG 314
Score = 29.0 bits (64), Expect = 3.8
Identities = 7/30 (23%), Positives = 13/30 (43%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
+ + K+ K K K KK + +A +
Sbjct: 275 EPVEAKEDYTKFNTKDLKTGKKNSKMTAAQ 304
>3izc_e 60S ribosomal protein RPL7 (L30P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel
ribosomal proteins; NMR {Saccharomyces cerevisiae} PDB:
3izs_e 3o58_G 3o5h_G 3u5e_F 3u5i_F
Length = 244
Score = 32.9 bits (74), Expect = 0.22
Identities = 4/26 (15%), Positives = 12/26 (46%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRP 36
++ ++ +K K+K+ +R
Sbjct: 23 AEQVAAERAARKAANKEKRAIILERN 48
Score = 29.8 bits (66), Expect = 1.8
Identities = 6/25 (24%), Positives = 14/25 (56%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
K ++K ++ ++ +K K+KR
Sbjct: 17 KAQQKTAEQVAAERAARKAANKEKR 41
Score = 29.8 bits (66), Expect = 2.3
Identities = 4/24 (16%), Positives = 11/24 (45%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKK 34
K ++ ++ +K K+K+
Sbjct: 21 KTAEQVAAERAARKAANKEKRAII 44
Score = 29.0 bits (64), Expect = 3.3
Identities = 4/24 (16%), Positives = 11/24 (45%)
Query: 12 KKKKKKKKKKKKKKKKKKKKKKKR 35
K ++ ++ +K K+K+
Sbjct: 21 KTAEQVAAERAARKAANKEKRAII 44
Score = 29.0 bits (64), Expect = 3.5
Identities = 5/35 (14%), Positives = 16/35 (45%)
Query: 13 KKKKKKKKKKKKKKKKKKKKKKRPSAGKSLVGVTA 47
KK K ++K ++ ++ +K ++++
Sbjct: 14 KKSKAQQKTAEQVAAERAARKAANKEKRAIILERN 48
Score = 28.2 bits (62), Expect = 5.9
Identities = 3/24 (12%), Positives = 10/24 (41%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKK 34
++ +K K+K+ ++
Sbjct: 27 AAERAARKAANKEKRAIILERNAA 50
Score = 28.2 bits (62), Expect = 6.4
Identities = 3/25 (12%), Positives = 10/25 (40%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
++ +K K+K+ ++
Sbjct: 26 VAAERAARKAANKEKRAIILERNAA 50
>4a17_V RPL7, 60S ribosomal protein L7; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_V 4a1c_V 4a1e_V
Length = 239
Score = 32.8 bits (74), Expect = 0.22
Identities = 5/26 (19%), Positives = 14/26 (53%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRP 36
+K K +++K + K++K + +
Sbjct: 20 RKAKAEQRKASSAQMKQRKAEWISKA 45
Score = 30.5 bits (68), Expect = 1.0
Identities = 5/25 (20%), Positives = 15/25 (60%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
+ +K +K K +++K + K+++
Sbjct: 14 ARDEKLRKAKAEQRKASSAQMKQRK 38
Score = 30.5 bits (68), Expect = 1.2
Identities = 6/25 (24%), Positives = 14/25 (56%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
KK + +K +K K +++K + +
Sbjct: 11 KKLARDEKLRKAKAEQRKASSAQMK 35
Score = 29.7 bits (66), Expect = 1.9
Identities = 8/35 (22%), Positives = 16/35 (45%)
Query: 13 KKKKKKKKKKKKKKKKKKKKKKRPSAGKSLVGVTA 47
KK + +K +K K +++K + K+ A
Sbjct: 11 KKLARDEKLRKAKAEQRKASSAQMKQRKAEWISKA 45
Score = 29.7 bits (66), Expect = 2.0
Identities = 8/30 (26%), Positives = 16/30 (53%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
K +K K +++K + K++K + A K
Sbjct: 18 KLRKAKAEQRKASSAQMKQRKAEWISKAQK 47
Score = 29.0 bits (64), Expect = 3.3
Identities = 6/25 (24%), Positives = 14/25 (56%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
K + +K +K K +++K + K+
Sbjct: 12 KLARDEKLRKAKAEQRKASSAQMKQ 36
>3bbn_K Ribosomal protein S11; small ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Spinacea oleracea} SCOP:
i.1.1.1
Length = 140
Score = 31.5 bits (72), Expect = 0.25
Identities = 4/28 (14%), Positives = 10/28 (35%)
Query: 12 KKKKKKKKKKKKKKKKKKKKKKKRPSAG 39
K K ++ + +K ++ G
Sbjct: 3 KPIPKIGSRRNGRISSRKSASARKIPKG 30
Score = 31.1 bits (71), Expect = 0.35
Identities = 5/27 (18%), Positives = 10/27 (37%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPS 37
K K ++ + +K +K P
Sbjct: 3 KPIPKIGSRRNGRISSRKSASARKIPK 29
Score = 28.8 bits (65), Expect = 2.4
Identities = 3/28 (10%), Positives = 9/28 (32%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSA 38
K ++ + +K +K +
Sbjct: 5 IPKIGSRRNGRISSRKSASARKIPKGVI 32
>2yew_A Capsid protein, coat protein; alphavirus, molecular dynamics;
5.00A {Barmah forest virus}
Length = 253
Score = 32.7 bits (74), Expect = 0.25
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
K KK +K KK +KKK K KR
Sbjct: 70 PPPKPKKTQKPKKPTQKKKSKPGKR 94
>3iz5_e 60S ribosomal protein L7 (L30P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel
ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
PDB: 3izr_e
Length = 244
Score = 32.5 bits (73), Expect = 0.25
Identities = 7/26 (26%), Positives = 11/26 (42%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRP 36
+KK+K +K K + K R
Sbjct: 25 AAEKKQKVAAEKIKAAENTKVIYARA 50
Score = 30.2 bits (67), Expect = 1.5
Identities = 5/25 (20%), Positives = 13/25 (52%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
++++ +KK+K +K K +
Sbjct: 19 RREEVWAAEKKQKVAAEKIKAAENT 43
Score = 29.8 bits (66), Expect = 1.7
Identities = 6/24 (25%), Positives = 10/24 (41%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKK 34
+KK+K +K K + K
Sbjct: 23 VWAAEKKQKVAAEKIKAAENTKVI 46
Score = 29.8 bits (66), Expect = 2.1
Identities = 6/25 (24%), Positives = 14/25 (56%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
K+++++ +KK+K +K K
Sbjct: 16 LKRRREEVWAAEKKQKVAAEKIKAA 40
Score = 29.4 bits (65), Expect = 3.0
Identities = 6/24 (25%), Positives = 10/24 (41%)
Query: 12 KKKKKKKKKKKKKKKKKKKKKKKR 35
+KK+K +K K + K
Sbjct: 23 VWAAEKKQKVAAEKIKAAENTKVI 46
Score = 29.0 bits (64), Expect = 3.1
Identities = 6/25 (24%), Positives = 14/25 (56%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
K+++++ +KK+K +K K
Sbjct: 15 ILKRRREEVWAAEKKQKVAAEKIKA 39
Score = 29.0 bits (64), Expect = 3.5
Identities = 6/25 (24%), Positives = 14/25 (56%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
K+++++ +KK+K +K K
Sbjct: 17 KRRREEVWAAEKKQKVAAEKIKAAE 41
Score = 29.0 bits (64), Expect = 3.8
Identities = 6/36 (16%), Positives = 18/36 (50%)
Query: 12 KKKKKKKKKKKKKKKKKKKKKKKRPSAGKSLVGVTA 47
K+++++ +KK+K +K + + ++ A
Sbjct: 15 ILKRRREEVWAAEKKQKVAAEKIKAAENTKVIYARA 50
Score = 28.6 bits (63), Expect = 4.4
Identities = 6/25 (24%), Positives = 12/25 (48%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
KK+K +K K + K + ++
Sbjct: 28 KKQKVAAEKIKAAENTKVIYARAEQ 52
>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 = 33.0 bits (76), Expect = 0.27
Identities = 14/98 (14%), Positives = 33/98 (33%), Gaps = 24/98 (24%)
Query: 53 KRALVLCNSGVSVEQWKHQFKLW-----------STADDSMICRFTSEAKDKPMGC--GI 99
+ +V+ S + V W ++ W + D + + + + M I
Sbjct: 115 DKVIVVSPSSL-VRNWYNEVGKWLGGRVQPVAIDGGSKDEIDSKLVNFISQQGMRIPTPI 173
Query: 100 LVTTYSMISHTQKRSWEADQTMQWLQNQEWGIMLLDDG 137
L+ +Y + L + G+++ D+G
Sbjct: 174 LIISYETFRLHAEV----------LHKGKVGLVICDEG 201
>2hvy_B GAR1, small nucleolar RNP similar to GAR1; H/ACA RNA, RNP,
pseudouridine synthase, guide RNA, isomerase
biosynthetic protein-RNA complex; HET: ATP; 2.30A
{Pyrococcus furiosus} SCOP: b.43.3.5 PDB: 3hay_B*
Length = 104
Score = 30.7 bits (69), Expect = 0.30
Identities = 11/25 (44%), Positives = 18/25 (72%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
++K+K+ KK K+K+ KKKK+ R
Sbjct: 80 DERKRKESPKKNKEKRMKKKKRLNR 104
Score = 28.8 bits (64), Expect = 1.7
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 14 KKKKKKKKKKKKKKKKKKKKKRP 36
++K+K+ KK K+K+ KKKKR
Sbjct: 80 DERKRKESPKKNKEKRMKKKKRL 102
>2zkr_w 60S ribosomal protein L7; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 270
Score = 32.1 bits (72), Expect = 0.37
Identities = 7/26 (26%), Positives = 14/26 (53%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRP 36
K K+ +KK K +K ++K ++
Sbjct: 51 KVKRLRKKFALKTLRKARRKLIYEKA 76
Score = 29.1 bits (64), Expect = 3.4
Identities = 7/25 (28%), Positives = 13/25 (52%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
+ + K K+ +KK K +K +R
Sbjct: 45 RNFAELKVKRLRKKFALKTLRKARR 69
Score = 29.1 bits (64), Expect = 4.0
Identities = 7/24 (29%), Positives = 13/24 (54%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKK 34
+ K K+ +KK K +K ++K
Sbjct: 49 ELKVKRLRKKFALKTLRKARRKLI 72
Score = 28.7 bits (63), Expect = 4.7
Identities = 7/25 (28%), Positives = 14/25 (56%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
KK++ + K K+ +KK K ++
Sbjct: 42 KKRRNFAELKVKRLRKKFALKTLRK 66
Score = 28.3 bits (62), Expect = 5.7
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
KKK++ + K K+ +KK K R
Sbjct: 41 KKKRRNFAELKVKRLRKKFALKTLR 65
Score = 28.3 bits (62), Expect = 5.7
Identities = 7/24 (29%), Positives = 13/24 (54%)
Query: 12 KKKKKKKKKKKKKKKKKKKKKKKR 35
+ K K+ +KK K +K ++K
Sbjct: 49 ELKVKRLRKKFALKTLRKARRKLI 72
Score = 28.3 bits (62), Expect = 7.3
Identities = 7/25 (28%), Positives = 13/25 (52%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
+ +KK K +K ++K +K K
Sbjct: 54 RLRKKFALKTLRKARRKLIYEKAKH 78
Score = 27.9 bits (61), Expect = 8.7
Identities = 7/25 (28%), Positives = 13/25 (52%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
K++ + K K+ +KK K +K
Sbjct: 43 KRRNFAELKVKRLRKKFALKTLRKA 67
>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 = 0.39
Identities = 22/128 (17%), Positives = 45/128 (35%), Gaps = 15/128 (11%)
Query: 360 SQSERIQILQNFKLNPKVNTIFVSKVADTSFDLPEANVLIQISSHGGSRRQEAQRLGRIL 419
+ + +L FK + + + VAD D+ + N+++ G+ + Q GR
Sbjct: 437 TLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYS-GNVTKMIQVRGRG- 494
Query: 420 RAKKGAIAEEYNAFFYTLVSQDTMEMSYSRKRQRFLINQGYSYKVITKLAGMEEERGMHY 479
RA LV+ T + + + + K + K+ +EE
Sbjct: 495 RAAGSK---------CILVTSKTEVVENEKCNRY---KEEMMNKAVEKIQKWDEET-FAK 541
Query: 480 STRDEQGQ 487
+ Q +
Sbjct: 542 KIHNLQMK 549
>3vbb_A Seryl-tRNA synthetase, cytoplasmic; coiled-coil, ligase; 2.89A
{Homo sapiens}
Length = 522
Score = 32.4 bits (74), Expect = 0.40
Identities = 10/39 (25%), Positives = 19/39 (48%)
Query: 2 GFRDVISGCKKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
G +++I K +++ KK+KK+ + KKK
Sbjct: 463 GLQELIPFVKPAPIEQEPSKKQKKQHEGSKKKAAARDVT 501
>1cg7_A Protein (NON histone protein 6 A); HMG BOX, DNA bending, DNA
recognition, chromatin, DNA binding protein; NMR
{Saccharomyces cerevisiae} SCOP: a.21.1.1 PDB: 1j5n_A
1lwm_A
Length = 93
Score = 30.0 bits (68), Expect = 0.41
Identities = 8/26 (30%), Positives = 13/26 (50%)
Query: 13 KKKKKKKKKKKKKKKKKKKKKKRPSA 38
++ KK+ +KKK K+ SA
Sbjct: 2 VTPREPKKRTTRKKKDPNAPKRALSA 27
Score = 28.1 bits (63), Expect = 2.1
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 20 KKKKKKKKKKKKKKKRPSAGK 40
++ KK+ +KKK P+A K
Sbjct: 2 VTPREPKKRTTRKKKDPNAPK 22
>2xzm_L 40S ribosomal protein S12; ribosome, translation; 3.93A
{Tetrahymena thermophila} PDB: 2xzn_L 3j0o_L 3j0l_L
3j0p_L 3j0q_L 3iz6_L 3jyv_L* 1s1h_L*
Length = 142
Score = 31.2 bits (70), Expect = 0.46
Identities = 5/31 (16%), Positives = 12/31 (38%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
+ +K ++ K+ + + P G S
Sbjct: 16 ARHRKDQRWADNDFNKRLLGSRWRNPFMGAS 46
>3iz5_X 60S ribosomal protein L23A (L23P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel
ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
PDB: 3izr_X 2go5_4 2j37_4
Length = 152
Score = 31.0 bits (70), Expect = 0.47
Identities = 7/23 (30%), Positives = 9/23 (39%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKK 33
K KK K ++ K K K
Sbjct: 4 KAAVKKADGKTQQALKVAKAVKS 26
Score = 31.0 bits (70), Expect = 0.47
Identities = 7/23 (30%), Positives = 9/23 (39%)
Query: 12 KKKKKKKKKKKKKKKKKKKKKKK 34
K KK K ++ K K K
Sbjct: 4 KAAVKKADGKTQQALKVAKAVKS 26
Score = 30.6 bits (69), Expect = 0.61
Identities = 10/27 (37%), Positives = 13/27 (48%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPS 37
K ++ K K K K+K KK R S
Sbjct: 13 KTQQALKVAKAVKSGSIKRKSKKIRTS 39
Score = 29.1 bits (65), Expect = 2.3
Identities = 7/23 (30%), Positives = 9/23 (39%)
Query: 13 KKKKKKKKKKKKKKKKKKKKKKR 35
K KK K ++ K K K
Sbjct: 4 KAAVKKADGKTQQALKVAKAVKS 26
Score = 29.1 bits (65), Expect = 2.5
Identities = 8/24 (33%), Positives = 11/24 (45%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKK 34
K ++ K K K K+K KK
Sbjct: 12 GKTQQALKVAKAVKSGSIKRKSKK 35
>2xzm_8 RPS25E,; ribosome, translation; 3.93A {Tetrahymena thermophila}
PDB: 2xzn_8
Length = 143
Score = 30.9 bits (69), Expect = 0.50
Identities = 10/30 (33%), Positives = 16/30 (53%)
Query: 12 KKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
+KK K+ K + KK KK+ + GK+
Sbjct: 6 AAGQKKTKEAIAKAAQAKKGGKKKWTKGKA 35
Score = 28.6 bits (63), Expect = 2.9
Identities = 10/25 (40%), Positives = 13/25 (52%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
KK K+ K + KK KKK K +
Sbjct: 10 KKTKEAIAKAAQAKKGGKKKWTKGK 34
Score = 28.2 bits (62), Expect = 3.6
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
K+ K + KK KKK K K +
Sbjct: 12 TKEAIAKAAQAKKGGKKKWTKGKAK 36
Score = 28.2 bits (62), Expect = 4.2
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKK 34
+KK K+ K + KK KKK K
Sbjct: 9 QKKTKEAIAKAAQAKKGGKKKWTK 32
Score = 27.4 bits (60), Expect = 7.3
Identities = 9/25 (36%), Positives = 13/25 (52%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
+KK K+ K + KK KKK +
Sbjct: 8 GQKKTKEAIAKAAQAKKGGKKKWTK 32
>3u5c_X RP37, S28, YS14, 40S ribosomal protein S23-A; translation,
ribosome, ribosomal, ribosomal R ribosomal protein,
eukaryotic ribosome, RNA-protein C; 3.00A
{Saccharomyces cerevisiae} PDB: 3izb_L 3o30_P 3o2z_P
3u5g_X 3jyv_L* 1s1h_L* 2zkq_l 3iz6_L
Length = 145
Score = 30.8 bits (69), Expect = 0.57
Identities = 7/53 (13%), Positives = 14/53 (26%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKSLVGVTACCTVRKRALVLCNSGV 63
+ ++ + + KK+ K G S NS +
Sbjct: 16 RVHRRNNRWAENNYKKRLLGTAFKSSPFGGSSHAKGIVLEKLGIESKQPNSAI 68
Score = 29.7 bits (66), Expect = 1.3
Identities = 7/40 (17%), Positives = 12/40 (30%)
Query: 2 GFRDVISGCKKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
G ++ + + KK+ K P G S
Sbjct: 8 GLNSARKLRVHRRNNRWAENNYKKRLLGTAFKSSPFGGSS 47
>2oqk_A Putative translation initiation factor EIF-1A; malaria,
eukaryotic initiation facto SGC, structural genomics;
1.80A {Cryptosporidium parvum iowa II}
Length = 117
Score = 30.0 bits (67), Expect = 0.67
Identities = 15/86 (17%), Positives = 26/86 (30%), Gaps = 3/86 (3%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKSLVGVTACCTVRKRALVLCNSGVSV---EQ 67
K K K K +++ K + K++ G R C G +
Sbjct: 3 KNKGKGGKNRRRGKNDSEGDKRELVFKEEGQEYGQVQRMLGNGRLDAYCFDGQKRLCHIR 62
Query: 68 WKHQFKLWSTADDSMICRFTSEAKDK 93
K + K+W D ++ K
Sbjct: 63 GKMRKKVWVNPGDIVLVSLRDFQDSK 88
>1914_A Signal recognition particle 9/14 fusion protein; ALU domain, RNA
binding, signal recognition particle (SRP), translation
regulation; 2.53A {Mus musculus} SCOP: d.49.1.1 d.49.1.1
PDB: 1e8o_A* 1e8s_A 1ry1_C*
Length = 232
Score = 31.1 bits (70), Expect = 0.69
Identities = 13/39 (33%), Positives = 19/39 (48%), Gaps = 2/39 (5%)
Query: 7 ISGCKKKKKKKKKKKKKKKKKKKKKKKKRP--SAGKSLV 43
+ G KK+ KK K KK K + ++K SAG +
Sbjct: 110 MDGLKKRDKKNKSKKSKPAQGGEQKLISEEDDSAGSPMP 148
>4a17_C RPL4, ribosomal protein L3; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_C 4a1c_C 4a1e_C
Length = 410
Score = 31.7 bits (71), Expect = 0.72
Identities = 8/33 (24%), Positives = 13/33 (39%)
Query: 10 CKKKKKKKKKKKKKKKKKKKKKKKKRPSAGKSL 42
+ K K++ K +K K KK A +
Sbjct: 347 AAEASKAKRQATLKANRKAAKTHKKGSQAWIAA 379
Score = 30.2 bits (67), Expect = 2.0
Identities = 8/30 (26%), Positives = 13/30 (43%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
K K++ K +K K KK + +A
Sbjct: 352 KAKRQATLKANRKAAKTHKKGSQAWIAAFN 381
Score = 30.2 bits (67), Expect = 2.1
Identities = 8/31 (25%), Positives = 14/31 (45%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
K++ KK + K K++ K +K K
Sbjct: 341 KEQAKKAAEASKAKRQATLKANRKAAKTHKK 371
Score = 30.2 bits (67), Expect = 2.1
Identities = 7/31 (22%), Positives = 13/31 (41%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
KK + K K++ K +K K ++
Sbjct: 345 KKAAEASKAKRQATLKANRKAAKTHKKGSQA 375
Score = 29.8 bits (66), Expect = 2.4
Identities = 7/32 (21%), Positives = 13/32 (40%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKSL 42
+ K K++ K +K K KK + +
Sbjct: 349 EASKAKRQATLKANRKAAKTHKKGSQAWIAAF 380
Score = 29.8 bits (66), Expect = 2.5
Identities = 8/31 (25%), Positives = 13/31 (41%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
K K++ K +K K KK + A +
Sbjct: 351 SKAKRQATLKANRKAAKTHKKGSQAWIAAFN 381
Score = 29.8 bits (66), Expect = 2.7
Identities = 7/31 (22%), Positives = 13/31 (41%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
K++ K +K K KK + + K+
Sbjct: 353 AKRQATLKANRKAAKTHKKGSQAWIAAFNKA 383
Score = 29.0 bits (64), Expect = 4.9
Identities = 9/47 (19%), Positives = 18/47 (38%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKSLVGVTACCTVRKRALV 57
+ KK + K K++ K +K + S + A + A+
Sbjct: 343 QAKKAAEASKAKRQATLKANRKAAKTHKKGSQAWIAAFNKANEEAIA 389
Score = 28.2 bits (62), Expect = 8.7
Identities = 7/31 (22%), Positives = 14/31 (45%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
++ KK + K K++ K +K + K
Sbjct: 342 EQAKKAAEASKAKRQATLKANRKAAKTHKKG 372
>3qne_A Seryl-tRNA synthetase, cytoplasmic; amino acid biosynthesis,
CTG-clade, codon ambiguity, pathoge II aminoacyl-tRNA
synthetase family; 2.00A {Candida albicans} PDB: 3qo7_A*
3qo8_A* 3qo5_A
Length = 485
Score = 31.4 bits (72), Expect = 0.76
Identities = 8/41 (19%), Positives = 10/41 (24%)
Query: 1 MGFRDVISGCKKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
+ K+ K KK K K K A
Sbjct: 435 IPGEPEFIPYIKELPKNTTSVKKAKGKNPKNTTSVKKAKGK 475
>2lhj_A High mobility group protein homolog NHP1; structural genomics,
seattle structural genomics center for infectious
disease, ssgcid; NMR {Babesia bovis}
Length = 97
Score = 29.3 bits (66), Expect = 0.78
Identities = 5/27 (18%), Positives = 11/27 (40%)
Query: 12 KKKKKKKKKKKKKKKKKKKKKKKRPSA 38
+ ++ +K KK K+ S+
Sbjct: 3 GASDRTGVRRPRKAKKDPNAPKRALSS 29
Score = 27.0 bits (60), Expect = 5.9
Identities = 6/22 (27%), Positives = 11/22 (50%)
Query: 19 KKKKKKKKKKKKKKKKRPSAGK 40
+ ++ +K KK P+A K
Sbjct: 3 GASDRTGVRRPRKAKKDPNAPK 24
>2jmi_A Protein YNG1, ING1 homolog 1; PHD, histone, recognition, yeast,
protein binding; NMR {Saccharomyces cerevisiae} PDB:
2jmj_A*
Length = 90
Score = 29.3 bits (65), Expect = 0.78
Identities = 6/18 (33%), Positives = 13/18 (72%)
Query: 10 CKKKKKKKKKKKKKKKKK 27
CK+ ++ K K++K++K
Sbjct: 73 CKEIANQRSKSKRQKRRK 90
Score = 27.8 bits (61), Expect = 2.5
Identities = 5/19 (26%), Positives = 12/19 (63%)
Query: 10 CKKKKKKKKKKKKKKKKKK 28
K+ ++ K K++K++K
Sbjct: 72 DCKEIANQRSKSKRQKRRK 90
Score = 27.4 bits (60), Expect = 3.5
Identities = 7/22 (31%), Positives = 14/22 (63%)
Query: 10 CKKKKKKKKKKKKKKKKKKKKK 31
C K K+ ++ K K++K++K
Sbjct: 69 CSKDCKEIANQRSKSKRQKRRK 90
>3iz5_D 60S ribosomal protein L4 (L4P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_D
Length = 405
Score = 31.4 bits (70), Expect = 0.82
Identities = 9/31 (29%), Positives = 17/31 (54%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
+ K +K+K K+ K ++ K +AGK+
Sbjct: 350 ARIKARKEKLDSKRTKLSPEEAAKVKAAGKA 380
Score = 28.3 bits (62), Expect = 7.2
Identities = 6/32 (18%), Positives = 15/32 (46%)
Query: 10 CKKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
+K + + K +K+K K+ + S ++
Sbjct: 340 ARKMATLAEAARIKARKEKLDSKRTKLSPEEA 371
Score = 28.3 bits (62), Expect = 8.1
Identities = 6/31 (19%), Positives = 14/31 (45%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
+ + K +K+K K+ K + + K+
Sbjct: 346 LAEAARIKARKEKLDSKRTKLSPEEAAKVKA 376
>3bn0_A 30S ribosomal protein S16; ribonucleoprotein, ribosome; 2.00A
{Aquifex aeolicus} SCOP: d.27.1.1
Length = 112
Score = 29.6 bits (67), Expect = 1.0
Identities = 6/27 (22%), Positives = 12/27 (44%)
Query: 8 SGCKKKKKKKKKKKKKKKKKKKKKKKK 34
G + K+ +K++ KK K +
Sbjct: 85 EGYEMKRVGDYYVFEKRESKKSKGGEA 111
Score = 29.2 bits (66), Expect = 1.3
Identities = 6/28 (21%), Positives = 13/28 (46%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSA 38
+ + K+ +K++ KK K +A
Sbjct: 85 EGYEMKRVGDYYVFEKRESKKSKGGEAA 112
Score = 28.8 bits (65), Expect = 1.8
Identities = 4/31 (12%), Positives = 14/31 (45%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
+ + + K+ +K++ K+ G++
Sbjct: 81 EVVPEGYEMKRVGDYYVFEKRESKKSKGGEA 111
Score = 28.1 bits (63), Expect = 3.3
Identities = 6/29 (20%), Positives = 12/29 (41%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAG 39
+ + K+ +K++ KK K A
Sbjct: 84 PEGYEMKRVGDYYVFEKRESKKSKGGEAA 112
Score = 27.7 bits (62), Expect = 3.6
Identities = 5/30 (16%), Positives = 13/30 (43%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
K+ + + K+ +K++ + S G
Sbjct: 80 KEVVPEGYEMKRVGDYYVFEKRESKKSKGG 109
>1v3y_A Peptide deformylase; protein synthesis, riken structural
genomics/proteomics initiative, RSGI, structural
genomics, hydrolase; 1.81A {Thermus thermophilus} SCOP:
d.167.1.1
Length = 192
Score = 30.2 bits (69), Expect = 1.0
Identities = 6/38 (15%), Positives = 17/38 (44%), Gaps = 1/38 (2%)
Query: 3 FRDVISGCKKKKKKKKKKKKKKK-KKKKKKKKKRPSAG 39
F + + K++ + + + + +K+ + K S G
Sbjct: 155 FFERLPKPKREAFLEANRAELVRFQKEARALLKELSQG 192
>1v9d_A Diaphanous protein homolog 1; helix bundle, protein binding; 2.60A
{Mus musculus} SCOP: a.207.1.1
Length = 340
Score = 30.9 bits (70), Expect = 1.0
Identities = 6/25 (24%), Positives = 18/25 (72%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
++ ++K ++ K K+K +K++ +K+
Sbjct: 316 RETEEKMRRAKLAKEKAEKERLEKQ 340
Score = 30.5 bits (69), Expect = 1.2
Identities = 5/25 (20%), Positives = 18/25 (72%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
+++ ++K ++ K K+K +K++ ++
Sbjct: 315 RRETEEKMRRAKLAKEKAEKERLEK 339
Score = 30.5 bits (69), Expect = 1.6
Identities = 7/31 (22%), Positives = 19/31 (61%)
Query: 10 CKKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
K+ +K+++ ++K ++ K K+K ++ K
Sbjct: 309 VKENQKRRETEEKMRRAKLAKEKAEKERLEK 339
Score = 28.9 bits (65), Expect = 3.9
Identities = 8/33 (24%), Positives = 20/33 (60%)
Query: 3 FRDVISGCKKKKKKKKKKKKKKKKKKKKKKKKR 35
FR++ K+ +K+++ ++K ++ K K+K
Sbjct: 301 FRNMFLQAVKENQKRRETEEKMRRAKLAKEKAE 333
>2ew5_A Peptide deformylase; inhibitor, hydrolase; HET: Y12; 2.20A
{Helicobacter pylori} PDB: 2ew6_A* 2ew7_A
Length = 181
Score = 30.2 bits (69), Expect = 1.0
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 3 FRDVISGCKKKKKKKKKKKKKKKKKKKKKKKKR 35
F D +S K+KK +K+ K+ +KK+K K +
Sbjct: 147 FVDKLSILKRKKFEKELKELQKKQKHKLEHHHH 179
>1a31_A Protein (topoisomerase I); topoisomerase I/DNA, DNA,
isomerase/DNA complex; HET: DNA 5IU PTR; 2.10A {Homo
sapiens} SCOP: d.163.1.2 e.15.1.1 PDB: 1k4t_A* 1k4s_A*
1sc7_A* 1t8i_A* 1tl8_A* 1seu_A* 1a35_A* 1a36_A* 1r49_A*
1rrj_A* 1nh3_A* 1lpq_A* 1rr8_C* 1ej9_A*
Length = 591
Score = 30.9 bits (69), Expect = 1.3
Identities = 13/30 (43%), Positives = 15/30 (50%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
K K K K KK + KKKK KK+ K
Sbjct: 1 KPKNKDKDKKVPEPDNKKKKPKKEEEQKWK 30
Score = 28.2 bits (62), Expect = 7.6
Identities = 8/33 (24%), Positives = 18/33 (54%)
Query: 3 FRDVISGCKKKKKKKKKKKKKKKKKKKKKKKKR 35
F + K + + +K+ K++K K K++ +K
Sbjct: 128 FTQMSQYFKAQTEARKQMSKEEKLKIKEENEKL 160
>2xzm_K RPS14E; ribosome, translation; 3.93A {Tetrahymena thermophila}
PDB: 2xzn_K 3j0o_K 3j0l_K 2zkq_k 3iz6_K 3jyv_K*
Length = 151
Score = 29.8 bits (67), Expect = 1.4
Identities = 4/27 (14%), Positives = 6/27 (22%)
Query: 13 KKKKKKKKKKKKKKKKKKKKKKRPSAG 39
KK +K+ G
Sbjct: 3 PKKTAPVQKEVISYGPPNVGANENVFG 29
Score = 29.8 bits (67), Expect = 1.4
Identities = 3/27 (11%), Positives = 6/27 (22%)
Query: 12 KKKKKKKKKKKKKKKKKKKKKKKRPSA 38
KK +K+ +
Sbjct: 3 PKKTAPVQKEVISYGPPNVGANENVFG 29
Score = 29.4 bits (66), Expect = 1.9
Identities = 3/23 (13%), Positives = 6/23 (26%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKK 33
KK +K+ +
Sbjct: 3 PKKTAPVQKEVISYGPPNVGANE 25
Score = 28.3 bits (63), Expect = 3.5
Identities = 3/28 (10%), Positives = 6/28 (21%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSA 38
KK +K+ +
Sbjct: 4 KKTAPVQKEVISYGPPNVGANENVFGVC 31
Score = 27.1 bits (60), Expect = 8.9
Identities = 6/28 (21%), Positives = 11/28 (39%)
Query: 18 KKKKKKKKKKKKKKKKKRPSAGKSLVGV 45
KK +K+ A +++ GV
Sbjct: 3 PKKTAPVQKEVISYGPPNVGANENVFGV 30
>1zed_A Alkaline phosphatase; phosphoserine, substrate analog, hydro; HET:
NAG PNP; 1.57A {Homo sapiens} SCOP: c.76.1.1 PDB:
1zeb_A* 1zef_A* 2glq_A* 3mk0_A* 3mk1_A* 3mk2_A* 1ew2_A*
Length = 484
Score = 30.2 bits (68), Expect = 1.7
Identities = 13/64 (20%), Positives = 23/64 (35%), Gaps = 12/64 (18%)
Query: 90 AKDKPMGCGILVTTY-------SMISHTQKRSWEADQTMQWLQNQEWGI-----MLLDDG 137
AK G++ TT +HT R+W +D + QE ++ +
Sbjct: 136 AKKAGKSVGVVTTTRVQHASPAGTYAHTVNRNWYSDADVPASARQEGCQDIATQLISNMD 195
Query: 138 VPVA 141
+ V
Sbjct: 196 IDVI 199
>1ul1_X Flap endonuclease-1; protein complex, DNA-binding protein, flap
DNA, flap endonuclease, sliding clamp, DNA clamp; 2.90A
{Homo sapiens} SCOP: a.60.7.1 c.120.1.2
Length = 379
Score = 30.3 bits (68), Expect = 1.8
Identities = 8/25 (32%), Positives = 12/25 (48%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
K+ + K KKK K K K+ +
Sbjct: 355 KEPEPKGSTKKKAKTGAAGKFKRGK 379
Score = 29.9 bits (67), Expect = 2.5
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 7 ISGCKKKKKKKKKKKKKKKKKKKKKKKKR 35
+S K+K+ + K KKK K K KR
Sbjct: 349 LSSAKRKEPEPKGSTKKKAKTGAAGKFKR 377
Score = 29.5 bits (66), Expect = 3.4
Identities = 8/25 (32%), Positives = 12/25 (48%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
+K+ + K KKK K K K+
Sbjct: 354 RKEPEPKGSTKKKAKTGAAGKFKRG 378
Score = 29.1 bits (65), Expect = 4.6
Identities = 11/39 (28%), Positives = 15/39 (38%)
Query: 2 GFRDVISGCKKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
F V K+K+ + K KKK K + GK
Sbjct: 341 DFFKVTGSLSSAKRKEPEPKGSTKKKAKTGAAGKFKRGK 379
Score = 28.3 bits (63), Expect = 6.2
Identities = 8/32 (25%), Positives = 12/32 (37%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKSL 42
K K+K+ + K KKK + A
Sbjct: 344 KVTGSLSSAKRKEPEPKGSTKKKAKTGAAGKF 375
>1d7q_A Translation initiation factor 1A; OB-fold, beta-barrel, RNA-binding
protein, gene regulation; NMR {Homo sapiens} SCOP:
b.40.4.5
Length = 143
Score = 29.2 bits (65), Expect = 2.1
Identities = 16/93 (17%), Positives = 34/93 (36%), Gaps = 7/93 (7%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKSLVGVTACCTVRKRALVLCNSGVSV---EQ 67
K K K +++ K + + +K++ G+ V R +C GV +
Sbjct: 3 NKGKGGKNRRRGKNENESEKRELVFKEDGQEYAQVIKMLG-NGRLEAMCFDGVKRLCHIR 61
Query: 68 WKHQFKLWSTADDSMICRFTSEAKDKPMGCGIL 100
K + K+W D ++ +K ++
Sbjct: 62 GKLRKKVWINTSDIILVGLRDYQDNK---ADVI 91
>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase,
conformational change, cysteine-modified, G-protein
hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B*
2ht6_A*
Length = 192
Score = 29.6 bits (67), Expect = 2.1
Identities = 5/29 (17%), Positives = 17/29 (58%)
Query: 3 FRDVISGCKKKKKKKKKKKKKKKKKKKKK 31
F ++ + ++ K+K +++ +K+K+
Sbjct: 163 FEGIVRQVRLRRDSKEKNERRLAYQKRKE 191
>2xzm_X RPS30E; ribosome, translation; 3.93A {Tetrahymena thermophila}
PDB: 2xzn_X 3j0o_X 3j0l_X 3j0p_X 3j0q_X
Length = 80
Score = 27.8 bits (61), Expect = 2.1
Identities = 12/47 (25%), Positives = 20/47 (42%)
Query: 8 SGCKKKKKKKKKKKKKKKKKKKKKKKKRPSAGKSLVGVTACCTVRKR 54
+G +K+ K +KK K +K K + KR + +KR
Sbjct: 11 AGKVRKQTPKVEKKDKPRKTPKGRSYKRILYNRRYAPHILATDPKKR 57
>3tmm_A Transcription factor A, mitochondrial; HMG, high mobility group,
transcription, LSP1, mitochon transcription-DNA complex;
HET: DNA; 2.50A {Homo sapiens}
Length = 238
Score = 29.8 bits (66), Expect = 2.2
Identities = 9/136 (6%), Positives = 30/136 (22%), Gaps = 6/136 (4%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKSLVGVTACCTVRKRALVLCNSGVSV-EQWK 69
++ + K+P + + N E +
Sbjct: 20 HMASMTGGQQMGRGSSSVLASCPKKPVSSYLRF-----SKEQLPIFKAQNPDAKTTELIR 74
Query: 70 HQFKLWSTADDSMICRFTSEAKDKPMGCGILVTTYSMISHTQKRSWEADQTMQWLQNQEW 129
+ W DS + + + ++ + + + M ++
Sbjct: 75 RIAQRWRELPDSKKKIYQDAYRAEWQVYKEEISRFKEQLTPSQIMSLEKEIMDKHLKRKA 134
Query: 130 GIMLLDDGVPVAAKKN 145
+ + K+
Sbjct: 135 MTKKKELTLLGKPKRP 150
>2zkr_n 60S ribosomal protein L5; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 297
Score = 29.6 bits (66), Expect = 2.3
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
KK KK+ KKK+ + K +KK R
Sbjct: 255 KKPKKEVKKKRWNRPKMSLAQKKDR 279
Score = 28.9 bits (64), Expect = 4.3
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKK 34
+KK KK+ KKK+ + K +KK
Sbjct: 254 EKKPKKEVKKKRWNRPKMSLAQKK 277
Score = 28.5 bits (63), Expect = 6.1
Identities = 8/24 (33%), Positives = 14/24 (58%)
Query: 12 KKKKKKKKKKKKKKKKKKKKKKKR 35
+KK KK+ KKK+ + K ++
Sbjct: 253 YEKKPKKEVKKKRWNRPKMSLAQK 276
Score = 27.7 bits (61), Expect = 9.6
Identities = 8/31 (25%), Positives = 17/31 (54%)
Query: 3 FRDVISGCKKKKKKKKKKKKKKKKKKKKKKK 33
++ + ++ +KK KK+ KKK+ + K
Sbjct: 240 YKKAHAAIRENPVYEKKPKKEVKKKRWNRPK 270
>2zkr_u 60S ribosomal protein L24; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 157
Score = 28.9 bits (64), Expect = 2.4
Identities = 7/31 (22%), Positives = 14/31 (45%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
++ + K+ KK K+ KK + K+
Sbjct: 106 EQAIRAAKEAKKAKQASKKTAMAAAKAPTKA 136
Score = 28.1 bits (62), Expect = 4.4
Identities = 8/31 (25%), Positives = 12/31 (38%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
+ K+ KK K+ KK K P+
Sbjct: 108 AIRAAKEAKKAKQASKKTAMAAAKAPTKAAP 138
Score = 27.7 bits (61), Expect = 6.3
Identities = 9/30 (30%), Positives = 13/30 (43%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
+ K+ KK K+ KK K +A K
Sbjct: 110 RAAKEAKKAKQASKKTAMAAAKAPTKAAPK 139
Score = 27.3 bits (60), Expect = 9.7
Identities = 7/28 (25%), Positives = 13/28 (46%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSA 38
+++ + K+ KK K+ KK A
Sbjct: 105 REQAIRAAKEAKKAKQASKKTAMAAAKA 132
>4a17_A RPL8; eukaryotic ribosome, ribosome, eukaryotic initiation factor
60S, translation, large ribosomal subunit; 3.52A
{Tetrahymena thermophila} PDB: 4a1a_A 4a1c_A 4a1e_A
Length = 264
Score = 29.5 bits (67), Expect = 2.4
Identities = 6/29 (20%), Positives = 13/29 (44%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAG 39
K + ++ + +K+K K +AG
Sbjct: 235 KVGLRAARRTGLVRGGQKEKMAMKAAAAG 263
Score = 29.1 bits (66), Expect = 3.3
Identities = 4/29 (13%), Positives = 13/29 (44%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAG 39
+K + ++ + +K+K + +A
Sbjct: 234 QKVGLRAARRTGLVRGGQKEKMAMKAAAA 262
>3iz5_Z 60S ribosomal protein L24 (L24E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_Z
Length = 162
Score = 28.9 bits (64), Expect = 2.5
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
++ K++ KK K +KK KK + K
Sbjct: 112 LREIKERIKKTKDEKKAKKAEVAKSQKTQS 141
Score = 27.3 bits (60), Expect = 7.9
Identities = 9/31 (29%), Positives = 18/31 (58%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
+ ++ K++ KK K +KK KK + + K+
Sbjct: 109 EAALREIKERIKKTKDEKKAKKAEVAKSQKT 139
Score = 27.3 bits (60), Expect = 9.3
Identities = 10/30 (33%), Positives = 18/30 (60%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
++ K++ KK K +KK KK + K + + K
Sbjct: 113 REIKERIKKTKDEKKAKKAEVAKSQKTQSK 142
>3izc_Z 60S ribosomal protein RPL24 (L24E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins; NMR {Saccharomyces cerevisiae} PDB: 3izs_Z
3o58_V 3o5h_V 3u5e_W 3u5i_W 1s1i_S 2x7n_D
Length = 155
Score = 28.9 bits (64), Expect = 2.6
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 12 KKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
K K+KKK +K +K +K K S+ S
Sbjct: 110 KANKEKKKAEKAARKAEKAKSAGTQSSKFS 139
Score = 27.8 bits (61), Expect = 6.0
Identities = 10/30 (33%), Positives = 15/30 (50%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
K K+KKK +K +K +K K + S
Sbjct: 110 KANKEKKKAEKAARKAEKAKSAGTQSSKFS 139
Score = 27.4 bits (60), Expect = 8.3
Identities = 8/29 (27%), Positives = 18/29 (62%)
Query: 13 KKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
+++K K K+KKK +K +K ++ + +
Sbjct: 105 REEKLKANKEKKKAEKAARKAEKAKSAGT 133
Score = 27.0 bits (59), Expect = 9.6
Identities = 10/32 (31%), Positives = 16/32 (50%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKSL 42
+K K K+KKK +K +K +K K +
Sbjct: 107 EKLKANKEKKKAEKAARKAEKAKSAGTQSSKF 138
Score = 27.0 bits (59), Expect = 9.9
Identities = 12/34 (35%), Positives = 19/34 (55%)
Query: 12 KKKKKKKKKKKKKKKKKKKKKKKRPSAGKSLVGV 45
+++K K K+KKK +K +K +K SAG
Sbjct: 105 REEKLKANKEKKKAEKAARKAEKAKSAGTQSSKF 138
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 29.1 bits (66), Expect = 2.8
Identities = 12/58 (20%), Positives = 27/58 (46%), Gaps = 5/58 (8%)
Query: 320 QYLIAYHERRGDKTIVFSD---NVFALKHYAVKMNKPY--IYGPTSQSERIQILQNFK 372
YL+ ++ ++F++ +V A+ Y + I+G Q ER + ++ F+
Sbjct: 44 VYLLECLQKTPPPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFR 101
>1rl4_A Formylmethionine deformylase; crystal engineering, drug design,
malaria, PDF, peptide DEFO plasmodium, hydrolase; HET:
BRR BL5; 2.18A {Plasmodium falciparum} SCOP: d.167.1.1
PDB: 1rqc_A 1jym_A
Length = 188
Score = 29.0 bits (66), Expect = 2.8
Identities = 6/35 (17%), Positives = 12/35 (34%), Gaps = 2/35 (5%)
Query: 3 FRDVISGCKKK--KKKKKKKKKKKKKKKKKKKKKR 35
F D ++ KK + K + + K +
Sbjct: 152 FIDKMTQVDKKKVRPKLNELIRDYKATHSLEHHHH 186
>3u5e_P L20A, YL17, 60S ribosomal protein L17-A; translation, ribosome,
ribosomal R ribosomal protein, STM1, eukaryotic
ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 2wwa_I
2ww9_I 2wwb_I 3o5h_Q 3o58_Q 3u5i_P 1s1i_N 3izc_V 3izs_V
3jyw_N
Length = 184
Score = 29.1 bits (65), Expect = 3.0
Identities = 6/27 (22%), Positives = 14/27 (51%)
Query: 12 KKKKKKKKKKKKKKKKKKKKKKKRPSA 38
K +KK + +++ + +KR +A
Sbjct: 158 AKAAEKKVVRLTSRQRGRIAAQKRIAA 184
Score = 27.6 bits (61), Expect = 8.6
Identities = 3/28 (10%), Positives = 11/28 (39%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSA 38
++ K +KK + +++ +
Sbjct: 154 EEAVAKAAEKKVVRLTSRQRGRIAAQKR 181
>2vqe_R 30S ribosomal protein S18; tRNA-binding, rRNA-binding,
metal-binding, zinc-finger, translation; HET: TM2 PAR;
2.5A {Thermus thermophilus} SCOP: a.4.8.1 PDB: 1fka_R
1fjg_R 1gix_U* 1hnw_R* 1hnx_R* 1hnz_R* 1hr0_R 1ibk_R*
1ibl_R* 1ibm_R 1j5e_R 1jgo_U* 1jgp_U* 1jgq_U* 1ml5_U*
1n32_R* 1n33_R* 1n34_R 1n36_R 1xmo_R* ...
Length = 88
Score = 27.3 bits (61), Expect = 3.4
Identities = 7/27 (25%), Positives = 15/27 (55%)
Query: 14 KKKKKKKKKKKKKKKKKKKKKRPSAGK 40
K K KK+ +++ +K K + + G+
Sbjct: 2 STKNAKPKKEAQRRPSRKAKVKATLGE 28
>3u5e_D 60S ribosomal protein L5; translation, ribosome, ribosomal R
ribosomal protein, STM1, eukaryotic ribosome; 3.00A
{Saccharomyces cerevisiae} PDB: 3u5i_D 3izc_Q 3izs_Q
3o58_E 3o5h_E 3jyw_E 1s1i_E
Length = 297
Score = 29.3 bits (65), Expect = 3.4
Identities = 7/24 (29%), Positives = 13/24 (54%)
Query: 10 CKKKKKKKKKKKKKKKKKKKKKKK 33
K +KK K++ + KK ++ K
Sbjct: 253 FKPTEKKFTKEQYAAESKKYRQTK 276
Score = 29.3 bits (65), Expect = 3.4
Identities = 7/24 (29%), Positives = 13/24 (54%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKK 34
K +KK K++ + KK ++ K
Sbjct: 253 FKPTEKKFTKEQYAAESKKYRQTK 276
>2cs1_A PMS1 protein homolog 1; DNA mismatch repair protein PMS1,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 92
Score = 27.4 bits (61), Expect = 3.4
Identities = 5/28 (17%), Positives = 14/28 (50%)
Query: 12 KKKKKKKKKKKKKKKKKKKKKKKRPSAG 39
++ + K+ +++ + K PS+G
Sbjct: 65 LERYNSQMKRAIEQESQMSLKDSGPSSG 92
>3h5n_A MCCB protein; ubiquitin-activating enzyme, microcin, protein
structure, MCCC7, peptide antibiotics, N-P bond
formation, transferase; HET: ATP; 1.90A {Escherichia
coli} PDB: 3h5r_A 3h9g_A 3h9j_A* 3h9q_A 3h5a_A
Length = 353
Score = 29.3 bits (66), Expect = 3.6
Identities = 9/25 (36%), Positives = 14/25 (56%), Gaps = 4/25 (16%)
Query: 337 SDNVFALKH----YAVKMNKPYIYG 357
+D+ F L + Y V+ N+PYI
Sbjct: 216 ADHPFNLINWVNKYCVRANQPYINA 240
>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 = 29.5 bits (65), Expect = 3.6
Identities = 21/115 (18%), Positives = 41/115 (35%), Gaps = 14/115 (12%)
Query: 360 SQSERIQILQNFKLNPKVNTIFVSKVADTSFDLPEANVLIQISSHGGSRRQEAQRLGRIL 419
+ + +L FK + + + VAD D+ + N+++ G + Q GR
Sbjct: 678 TLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMI-QVRGRG- 735
Query: 420 RAKKGAIAEEYNAFFYTLVSQDTMEMSYSRKRQRFLINQGYSYKVITKLAGMEEE 474
RA LV+ T + + + + K + K+ +EE
Sbjct: 736 RAAGSK---------CILVTSKTEVVENEKCNRY---KEEMMNKAVEKIQKWDEE 778
>1x4i_A Inhibitor of growth protein 3; structural genomics, PHD domain,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 70
Score = 26.8 bits (59), Expect = 3.7
Identities = 5/18 (27%), Positives = 9/18 (50%)
Query: 22 KKKKKKKKKKKKKRPSAG 39
K++ + K PS+G
Sbjct: 53 TAAMKRRGSRHKSGPSSG 70
>2xzm_4 40S ribosomal protein S3A; ribosome, translation; 3.93A
{Tetrahymena thermophila} PDB: 2xzn_4
Length = 265
Score = 29.0 bits (64), Expect = 3.7
Identities = 6/24 (25%), Positives = 9/24 (37%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKK 34
K KK KK+ +K+
Sbjct: 7 PGLKAGGGKKGAKKRTIDPLSRKE 30
Score = 29.0 bits (64), Expect = 3.7
Identities = 6/24 (25%), Positives = 8/24 (33%)
Query: 12 KKKKKKKKKKKKKKKKKKKKKKKR 35
K KK KK+ +K
Sbjct: 7 PGLKAGGGKKGAKKRTIDPLSRKE 30
Score = 28.6 bits (63), Expect = 4.6
Identities = 9/32 (28%), Positives = 11/32 (34%)
Query: 16 KKKKKKKKKKKKKKKKKKKRPSAGKSLVGVTA 47
K K KK KK+ P + K A
Sbjct: 5 KNPGLKAGGGKKGAKKRTIDPLSRKEWYDFRA 36
>3bbn_U Ribosomal protein S21; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 190
Score = 28.7 bits (63), Expect = 4.1
Identities = 4/26 (15%), Positives = 15/26 (57%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRP 36
+ +K+K ++ K+ ++++ + R
Sbjct: 135 NTQDVRKRKTREAAKRNRRRRPQARF 160
Score = 28.3 bits (62), Expect = 5.0
Identities = 10/37 (27%), Positives = 22/37 (59%), Gaps = 3/37 (8%)
Query: 6 VISGCKKKK---KKKKKKKKKKKKKKKKKKKKRPSAG 39
VI CK+++ + +K+K ++ K+ +++RP A
Sbjct: 123 VIQECKRRRFFENTQDVRKRKTREAAKRNRRRRPQAR 159
Score = 27.9 bits (61), Expect = 6.0
Identities = 3/31 (9%), Positives = 16/31 (51%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
+K+K ++ K+ ++++ + + + +
Sbjct: 140 RKRKTREAAKRNRRRRPQARFTPQNKQDVPA 170
Score = 27.9 bits (61), Expect = 7.7
Identities = 4/27 (14%), Positives = 15/27 (55%)
Query: 14 KKKKKKKKKKKKKKKKKKKKKRPSAGK 40
+K+K ++ K+ ++++ + + K
Sbjct: 139 VRKRKTREAAKRNRRRRPQARFTPQNK 165
Score = 27.5 bits (60), Expect = 8.9
Identities = 3/31 (9%), Positives = 15/31 (48%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
+K+K ++ K+ ++++ + + +
Sbjct: 139 VRKRKTREAAKRNRRRRPQARFTPQNKQDVP 169
>3iz5_G 60S ribosomal protein L6 (L6E); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel
ribosomal proteins, ribosome; 5.50A {Triticum aestivum}
PDB: 3izr_G
Length = 219
Score = 28.5 bits (63), Expect = 4.4
Identities = 6/27 (22%), Positives = 9/27 (33%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPS 37
K K K +K + K P+
Sbjct: 27 AIKAKHGGALPKAEKPAAIAEPKFYPA 53
Score = 28.1 bits (62), Expect = 6.3
Identities = 6/26 (23%), Positives = 8/26 (30%)
Query: 9 GCKKKKKKKKKKKKKKKKKKKKKKKK 34
G K K K +K + K
Sbjct: 24 GLWAIKAKHGGALPKAEKPAAIAEPK 49
Score = 27.7 bits (61), Expect = 7.7
Identities = 5/26 (19%), Positives = 10/26 (38%)
Query: 15 KKKKKKKKKKKKKKKKKKKKRPSAGK 40
++ K K K ++P+A
Sbjct: 21 HRRGLWAIKAKHGGALPKAEKPAAIA 46
Score = 27.7 bits (61), Expect = 8.0
Identities = 5/26 (19%), Positives = 7/26 (26%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRP 36
+ K K K +K P
Sbjct: 23 RGLWAIKAKHGGALPKAEKPAAIAEP 48
>3pe5_A Uncharacterized protein; structural genomics, PSI-biology,
protein structure initiati northeast structural
genomics consortium, NESG; 2.38A {Clostridium leptum}
Length = 403
Score = 29.2 bits (65), Expect = 4.5
Identities = 3/25 (12%), Positives = 8/25 (32%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
+ + + K K+ +K
Sbjct: 11 QNRDISSRSNGKNPFKRSTGRKVSN 35
Score = 28.8 bits (64), Expect = 5.6
Identities = 3/24 (12%), Positives = 7/24 (29%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKK 34
+ + K K+ +K
Sbjct: 13 RDISSRSNGKNPFKRSTGRKVSNV 36
>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC
repeat; 2.70A {Saccharomyces cerevisiae}
Length = 963
Score = 29.0 bits (64), Expect = 4.5
Identities = 12/36 (33%), Positives = 20/36 (55%)
Query: 6 VISGCKKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
V+S + K + KK KK+K +++KKK+ K
Sbjct: 814 VLSTTARAKARAKKTKKEKGPNEEEKKKEHEEKEKE 849
>2cs2_A Poly [ADP-ribose] polymerase-1; DNA BIND, DNA repair, necrosis,
apoptosis, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 134
Score = 27.8 bits (61), Expect = 4.6
Identities = 7/27 (25%), Positives = 11/27 (40%)
Query: 12 KKKKKKKKKKKKKKKKKKKKKKKRPSA 38
K + K+K + + KKK S
Sbjct: 108 KSEGKRKGDEVDGVDEVAKKKSGPSSG 134
Score = 27.0 bits (59), Expect = 8.4
Identities = 9/29 (31%), Positives = 14/29 (48%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAG 39
K + K+K + + KKK PS+G
Sbjct: 106 GVKSEGKRKGDEVDGVDEVAKKKSGPSSG 134
>4a17_R RPL23A, 60S ribosomal protein L21; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_R 4a1c_R 4a1e_R
Length = 150
Score = 27.9 bits (62), Expect = 4.6
Identities = 7/27 (25%), Positives = 8/27 (29%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPS 37
+ K K K KK K K
Sbjct: 8 QAVNKAKNTAKVAKKGSSITKHKTYTG 34
>4a17_T RPL24, 60S ribosomal protein L21; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_T 4a1c_T 4a1e_T
Length = 158
Score = 28.2 bits (62), Expect = 4.7
Identities = 9/31 (29%), Positives = 18/31 (58%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
++ K+KK +KK+ +K + K +A K+
Sbjct: 112 RELKQKKANDIEKKRADRKLQGKDVKAAKKA 142
Score = 27.4 bits (60), Expect = 8.7
Identities = 8/31 (25%), Positives = 15/31 (48%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
K+KK +KK+ +K + K K ++
Sbjct: 114 LKQKKANDIEKKRADRKLQGKDVKAAKKAET 144
Score = 27.4 bits (60), Expect = 9.3
Identities = 8/31 (25%), Positives = 17/31 (54%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
+K ++ K+KK +KK+ +K + K+
Sbjct: 108 EKAVRELKQKKANDIEKKRADRKLQGKDVKA 138
>1ois_A DNA topoisomerase I; DNA-binding protein; HET: DNA; 1.90A
{Saccharomyces cerevisiae} SCOP: e.15.1.1
Length = 223
Score = 28.3 bits (63), Expect = 4.9
Identities = 7/33 (21%), Positives = 20/33 (60%)
Query: 3 FRDVISGCKKKKKKKKKKKKKKKKKKKKKKKKR 35
F + + +K++KK+ ++KK+ + +++K
Sbjct: 94 FTKMFDYFQLQKEQKKQLTSQEKKQIRLEREKF 126
>3u5c_B RP10A, 40S ribosomal protein S1-A; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3u5g_B
Length = 255
Score = 28.6 bits (63), Expect = 5.4
Identities = 8/24 (33%), Positives = 12/24 (50%)
Query: 12 KKKKKKKKKKKKKKKKKKKKKKKR 35
K K+ K KK +KK+ +K
Sbjct: 5 KNKRLSKGKKGQKKRVVDPFTRKE 28
Score = 28.6 bits (63), Expect = 5.8
Identities = 8/24 (33%), Positives = 13/24 (54%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKK 34
K K+ K KK +KK+ +K+
Sbjct: 5 KNKRLSKGKKGQKKRVVDPFTRKE 28
>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein,
ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP;
1.78A {Arabidopsis thaliana}
Length = 212
Score = 28.1 bits (63), Expect = 5.6
Identities = 4/28 (14%), Positives = 13/28 (46%)
Query: 3 FRDVISGCKKKKKKKKKKKKKKKKKKKK 30
F I + ++K+ +++K ++
Sbjct: 171 FDTAIKVVLQPPRRKEVPRRRKNHRRSG 198
>2k3y_A Chromatin modification-related protein EAF3; dimethylated histone
H3K36, EAF3-H3K36ME2 fusion, chromo barrel domain,
histone deacetylase; HET: M2L; NMR {Saccharomyces
cerevisiae}
Length = 136
Score = 27.8 bits (60), Expect = 5.6
Identities = 2/25 (8%), Positives = 5/25 (20%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
+ + K + R
Sbjct: 112 RLANEAGSTGSAPATGGVXKPHRYR 136
>2zkr_r 60S ribosomal protein L17; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 184
Score = 28.0 bits (62), Expect = 5.7
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKR 35
K +++ +KKK +KK KK+K R
Sbjct: 159 KPEEEVAQKKKISQKKLKKQKLMAR 183
>2w3p_A Benzoyl-COA-dihydrodiol lyase; BOXC, crotonase, ring cleaving,
burkholderia xenovorans LB400 crotonase; 1.50A
{Burkholderia xenovorans}
Length = 556
Score = 28.8 bits (64), Expect = 5.9
Identities = 13/43 (30%), Positives = 19/43 (44%)
Query: 380 IFVSKVADTSFDLPEANVLIQISSHGGSRRQEAQRLGRILRAK 422
I++ +S LPE +L + GG R +R R RA
Sbjct: 154 IYLVDDRSSSVSLPEVPLLGVLPGTGGLTRVTDKRKVRHDRAD 196
>1k7h_A Alkaline phosphatase; hydrolase, transferase, phosphomonoester,
extended beta SHEE triad, metal triad; HET: NAG; 1.92A
{Pandalus borealis} SCOP: c.76.1.1 PDB: 1shq_A* 1shn_A*
Length = 476
Score = 28.6 bits (64), Expect = 6.5
Identities = 7/40 (17%), Positives = 14/40 (35%), Gaps = 7/40 (17%)
Query: 90 AKDKPMGCGILVTTY-------SMISHTQKRSWEADQTMQ 122
++ G++ +T +H R WE D +
Sbjct: 132 FQEAGRSTGVVTSTRVTHATPAGTYAHVADRDWENDSDVV 171
>2b9s_A Topoisomerase I-like protein; vanadate complex, isomerase/DNA
complex; HET: DNA; 2.27A {Leishmania donovani}
Length = 432
Score = 28.5 bits (63), Expect = 6.6
Identities = 8/33 (24%), Positives = 17/33 (51%)
Query: 3 FRDVISGCKKKKKKKKKKKKKKKKKKKKKKKKR 35
F + +++KK + K++KK K+K+
Sbjct: 104 FEPIYQWHLVQREKKLSRTKEEKKAIKEKQDAE 136
>4dh9_Y YAEJ; ribosome, YAEJ, ribosome stalling, ribosome rescue, rescue F
alternative rescue factor, ARFB, release factor, rescue
of ribosomes; 3.20A {Escherichia coli} PDB: 2jy9_A
Length = 140
Score = 27.4 bits (61), Expect = 6.7
Identities = 6/32 (18%), Positives = 18/32 (56%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKSL 42
+KK ++ + + K+++ K + S+ K++
Sbjct: 100 TEKKARRPTRPTRASKERRLASKAQKSSVKAM 131
>2hz7_A Glutaminyl-tRNA synthetase; rossmann fold, GLNRS core, class I
aminoacyl-tRNA synthetase, ligase; 2.30A {Deinococcus
radiodurans}
Length = 851
Score = 28.7 bits (64), Expect = 6.9
Identities = 6/31 (19%), Positives = 12/31 (38%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
K+ ++K + KK+ K + S
Sbjct: 633 KQGGGTQQKAEGKKRPSTKGRGPDEVRGEGS 663
Score = 28.3 bits (63), Expect = 7.6
Identities = 6/30 (20%), Positives = 13/30 (43%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
K+ ++K + KK+ K + G+
Sbjct: 632 GKQGGGTQQKAEGKKRPSTKGRGPDEVRGE 661
>2zjr_L 50S ribosomal protein L18; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: c.55.4.1 PDB: 1sm1_M* 2zjp_L* 2zjq_L
1nkw_M 3cf5_L* 3dll_L* 3pio_L* 3pip_L* 1nwy_M* 1nwx_M*
1xbp_M* 1pnu_M 1pny_M 1vor_P 1vou_P 1vow_P 1voy_P
1vp0_P
Length = 114
Score = 27.2 bits (61), Expect = 7.0
Identities = 3/26 (11%), Positives = 9/26 (34%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRP 36
++K + ++K + R
Sbjct: 2 ATATTIRRKLRTRRKVRTTTAASGRL 27
>3jyw_M 60S ribosomal protein L16(A); eukaryotic ribosome, RACK1 protein,
flexible fitting; 8.90A {Thermomyces lanuginosus} PDB:
1s1i_M
Length = 178
Score = 27.8 bits (62), Expect = 7.0
Identities = 1/32 (3%), Positives = 3/32 (9%)
Query: 10 CKKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
+A +
Sbjct: 147 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 178
>3u5c_E RP5, S7, YS6, 40S ribosomal protein S4-A; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3izb_D 3u5g_E
Length = 261
Score = 25.7 bits (56), Expect = 7.3
Identities = 2/37 (5%), Positives = 5/37 (13%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKSLVGVTA 47
K + + L+
Sbjct: 13 AAPHHWLLDKLSGCYAPRPSAGPHKLRESLPLIVFLR 49
>3st8_A Bifunctional protein GLMU; acetyltransferase, pyrophosphorylase,
rossmann fold, LEFT-handed-beta-helix, cell shape; HET:
COA GP1 UD1; 1.98A {Mycobacterium tuberculosis} PDB:
3spt_A* 3foq_A 3dk5_A 3d8v_A 3d98_A* 3dj4_A 2qkx_A*
Length = 501
Score = 28.3 bits (64), Expect = 7.3
Identities = 3/29 (10%), Positives = 12/29 (41%)
Query: 13 KKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
++K+ + K+ + ++P+
Sbjct: 468 QRKRPGSPAAQASKRASEMACQQPTQPPD 496
>3iz5_Q 60S ribosomal protein L5 (L18P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_Q
Length = 304
Score = 28.1 bits (62), Expect = 7.4
Identities = 7/28 (25%), Positives = 12/28 (42%), Gaps = 2/28 (7%)
Query: 10 CKKKKKKKKKKKKKKKKKK--KKKKKKR 35
K KK+ K+ KK +++K
Sbjct: 253 MAKSTKKEPATHKRYNLKKLTYEQRKAS 280
>3pn3_A Peptide deformylase 1B, chloroplastic; PDF, N-terminal excision
pathway, N induced-FIT, hydrolase-hydrolase inhibitor
complex; HET: PN3; 1.30A {Arabidopsis thaliana} PDB:
3m6p_A* 3o3j_A* 3pn2_A 3m6o_A* 3pn4_A* 3pn5_A 3m6q_A
3pn6_A 3m6r_A 3cpm_A
Length = 193
Score = 27.9 bits (63), Expect = 7.4
Identities = 7/38 (18%), Positives = 18/38 (47%), Gaps = 3/38 (7%)
Query: 3 FRDVISGCKKKKKKKKKKKKKKKKKKKKKKKKRPSAGK 40
F D ++ + +++ + +KK ++K PS +
Sbjct: 143 FFDRMT---DQVLDSIREELEALEKKYEEKTGLPSPER 177
>2w3t_A Peptide deformylase; protein biosynthesis, iron, nickel, hydrolase,
metal-binding; 1.69A {Escherichia coli} PDB: 2w3u_A
Length = 188
Score = 27.5 bits (62), Expect = 7.6
Identities = 7/36 (19%), Positives = 16/36 (44%)
Query: 3 FRDVISGCKKKKKKKKKKKKKKKKKKKKKKKKRPSA 38
F D +S K+++ ++K +K + K +
Sbjct: 142 FMDYLSPLKQQRIRQKVEKLDRLKARAPNSSSVDKL 177
>2kqr_A Asparaginyl-tRNA synthetase, cytoplasmic; aminoacyl-tRNA
synthetase, ATP-binding, ligas nucleotide-binding,
protein biosynthesis; NMR {Brugia malayi}
Length = 113
Score = 26.9 bits (59), Expect = 8.3
Identities = 7/27 (25%), Positives = 14/27 (51%)
Query: 8 SGCKKKKKKKKKKKKKKKKKKKKKKKK 34
+ KK K+ +++ K +K K +K
Sbjct: 59 TALKKSWKRYEQEMLKNEKVAAKMLEK 85
Score = 26.5 bits (58), Expect = 9.9
Identities = 7/31 (22%), Positives = 13/31 (41%)
Query: 5 DVISGCKKKKKKKKKKKKKKKKKKKKKKKKR 35
+ S KK K+ +++ K +K K
Sbjct: 54 EAASKTALKKSWKRYEQEMLKNEKVAAKMLE 84
>3kfv_A Tight junction protein ZO-3; structural genomics consortium, SGC,
cell junction, cell membrane, membrane, SH3 domain;
2.80A {Homo sapiens}
Length = 308
Score = 27.9 bits (61), Expect = 8.3
Identities = 8/59 (13%), Positives = 22/59 (37%), Gaps = 7/59 (11%)
Query: 8 SGCKKKKKKKKKKKKKKKKKKKKKKKKRPSAGKSLVG-------VTACCTVRKRALVLC 59
+G + + + + ++ KK ++ + + + G V KR +V+
Sbjct: 93 AGSNARAEFWRLRGLRRGAKKTTQRSREDLSALTRQGRYPPYERVVLREASFKRPVVIL 151
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.4 bits (60), Expect = 9.1
Identities = 7/32 (21%), Positives = 18/32 (56%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSAGKSL 42
K +++++K+ ++ K +++ R A K L
Sbjct: 89 KWREEQRKRLQELDAASKVMEQEWREKAKKDL 120
>2zkr_j 60S ribosomal protein L13A; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 203
Score = 27.7 bits (61), Expect = 9.1
Identities = 10/32 (31%), Positives = 18/32 (56%)
Query: 10 CKKKKKKKKKKKKKKKKKKKKKKKKRPSAGKS 41
++K+K+K K +KKK+ + R A K+
Sbjct: 153 TATLEEKRKEKAKIHYRKKKQLMRLRKQAEKN 184
>3bbo_N Ribosomal protein L15; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 257
Score = 27.9 bits (62), Expect = 9.2
Identities = 6/28 (21%), Positives = 11/28 (39%)
Query: 11 KKKKKKKKKKKKKKKKKKKKKKKKRPSA 38
+KK K K + ++ KK+
Sbjct: 223 RKKWVKPSVAKNLARAEEYFAKKRGGET 250
>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis,
structural genomics, structural genomics consortium,
SGC, transport protein; HET: GDP; 1.90A {Homo sapiens}
SCOP: c.37.1.8
Length = 199
Score = 27.6 bits (62), Expect = 9.7
Identities = 7/49 (14%), Positives = 19/49 (38%), Gaps = 12/49 (24%)
Query: 3 FRDVISGCKKKKKKKKKKKKKKKKKKKKKKKKRPSAGKSLVGVTACCTV 51
F+++++ ++ K+ K+K+ + K CT+
Sbjct: 162 FQELLTLETRRNMSLNIDGKRSGKQKRTDRVKG------------KCTL 198
>3vmt_A Monofunctional glycosyltransferase; transmembrane, bacterial cell
WALL SYNT membrane; HET: LHI; 2.30A {Staphylococcus
aureus} PDB: 3vmr_A* 3vms_A 3vmq_A*
Length = 263
Score = 27.7 bits (62), Expect = 9.9
Identities = 9/35 (25%), Positives = 11/35 (31%)
Query: 1 MGFRDVISGCKKKKKKKKKKKKKKKKKKKKKKKKR 35
MG + + K KKKK KR
Sbjct: 1 MGSSHHHHHHSSGLVPRGSHMQPVGKPPKKKKSKR 35
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
0.319 0.133 0.398
Gapped
Lambda K H
0.267 0.0658 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,512,525
Number of extensions: 525451
Number of successful extensions: 5252
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4050
Number of HSP's successfully gapped: 472
Length of query: 552
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 454
Effective length of database: 3,965,535
Effective search space: 1800352890
Effective search space used: 1800352890
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: 60 (27.0 bits)