RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16749
(821 letters)
>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 = 75.7 bits (185), Expect = 5e-14
Identities = 59/375 (15%), Positives = 104/375 (27%), Gaps = 125/375 (33%)
Query: 420 TRPATTTSKPATTTSTDIE-DEMNQPFTPEELEA----------------AIKS-----G 457
TR T + T+T I D + TP+E+++ + +
Sbjct: 272 TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLS 331
Query: 458 LITTPGRDNIHYPMIENLP--DCNKYLNIMKMICNKHWGMNPTIGLNYYKATIRATLDFG 515
+I RD + +N +C+K I++ N + P +
Sbjct: 332 IIAESIRDGLA--TWDNWKHVNCDKLTTIIESSLNV---LEPAEYRKMFD-------RL- 378
Query: 516 SVFYSESCSSKLKTL-----DKVQNQALRLAMGYLNSTPIDNILVECRENPMSKRTPQLV 570
SVF S L D +++ + + + LVE + + P +
Sbjct: 379 SVF-PPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYS-----LVEKQPKESTISIPSIY 432
Query: 571 DRFVLKVISSQTALAAKLNTLTVTH--MTSKYCKTKPTPPIVNSYCNISHQYGRELITYE 628
+K + ++ AL + V H + + PP ++ Y
Sbjct: 433 LELKVK-LENEYALHRSI----VDHYNIPKTFDSDDLIPPYLDQY--------------- 472
Query: 629 KPIIYNYDYDIG---KVSLQSETFNEYRKHPDSLQDAALSSEIQEKCPNAICIYTD---A 682
Y++ IG K E +R ++ D
Sbjct: 473 ---FYSH---IGHHLKNIEHPERMTLFRM-----------------------VFLDFRFL 503
Query: 683 SKKNEKVGAAWFCP-----------TYKSKACFKLHPATSTYTAEVIGIWEALKYSASLK 731
+K AW YK C P Y V I + L K
Sbjct: 504 EQKIRHDSTAWNASGSILNTLQQLKFYKPYIC-DNDP---KYERLVNAILDFLP-----K 554
Query: 732 NNEILILTDSKSACQ 746
E LI + +
Sbjct: 555 IEENLICSKYTDLLR 569
Score = 64.1 bits (155), Expect = 1e-10
Identities = 66/449 (14%), Positives = 127/449 (28%), Gaps = 128/449 (28%)
Query: 436 DIEDEMNQPFTPEELEAAIKSGLITTPGRDNIHYPMIENLPDCNKYLNIMKMICNKHWGM 495
D++D + EE++ I S + + L +K +++ +
Sbjct: 37 DVQDMPKSILSKEEIDHIIMS-----KDAVSGTLRLFWTL--LSKQEEMVQKF------V 83
Query: 496 NPTIGLNYYKATIRATLDFGSVFYSESCSSKLKTLDKVQNQALRLAMGYLNSTPIDNILV 555
+ +NY F S +KT + + R+ + + DN +
Sbjct: 84 EEVLRINY---------KF--------LMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVF 126
Query: 556 E----CRENPMSK-RTPQLVDRFVLKVI------SSQTALAAK-LNTLTVTH-------- 595
R P K R L R V+ S +T +A + V
Sbjct: 127 AKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFW 186
Query: 596 MTSKYCKTKPTPPIVNSYCNISHQYGRELITYEKPIIYNYDYDIGKVSLQSETFNEYRKH 655
+ K C + T ++ + +Q + N I + + + + +
Sbjct: 187 LNLKNCNSPET--VLEMLQKLLYQIDPNWTSRSDH-SSNIKLRIHSIQAELRRLLKSKPY 243
Query: 656 PDSL------QDAALSSEIQE----KCPNAICIYT-DAS--------------------- 683
+ L Q+A + C I + T
Sbjct: 244 ENCLLVLLNVQNA----KAWNAFNLSCK--ILLTTRFKQVTDFLSAATTTHISLDHHSMT 297
Query: 684 ---KKNEKVGAAWF-CPTYK--SKACFKLHP-ATSTYTAEV---IGIWEALKYSASLKNN 733
+ + + + C + +P S + + W+ K+ K
Sbjct: 298 LTPDEVKSLLLKYLDCRPQDLPREVL-TTNPRRLSIIAESIRDGLATWDNWKHVNCDKLT 356
Query: 734 EILILTDSKSACQKLSKNCLNTTPTHL-----ELEILSSYKHLQNTCKTVKLAWIKGHEG 788
I+ + S N L P L + + L W +
Sbjct: 357 TII----------ESSLNVLE--PAEYRKMFDRLSVFP--PSAHIPTILLSLIW---FDV 399
Query: 789 IKGNVE--VDRLAKYATV--HGEASTIVI 813
IK +V V++L KY+ V + STI I
Sbjct: 400 IKSDVMVVVNKLHKYSLVEKQPKESTISI 428
Score = 36.0 bits (82), Expect = 0.059
Identities = 29/176 (16%), Positives = 47/176 (26%), Gaps = 61/176 (34%)
Query: 15 NV-DKPVSNLFEIS------TEETS---------YNEKPQEHDDLTFETKESSFQEETHT 58
NV + N F +S T +H +T E ++
Sbjct: 252 NVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEV----KSLL 307
Query: 59 ETKVESSFQET-HVALETN----------LDDFTS--------QETKLDDFISAHTEKTP 99
++ Q+ L TN + D + KL I E +
Sbjct: 308 LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTII----ESSL 363
Query: 100 EVSEPKE--EVLDDLVSVPTSVPDVVPNQ-------DANEESPSPAVDLTQDIVEE 146
V EP E ++ D L P S +P D + +V +
Sbjct: 364 NVLEPAEYRKMFDRLSVFPPSAH--IPTILLSLIWFDVIKSDV-------MVVVNK 410
Score = 35.6 bits (81), Expect = 0.083
Identities = 27/196 (13%), Positives = 56/196 (28%), Gaps = 48/196 (24%)
Query: 616 ISHQYGRELITYEKPIIYNYDY----DIGKVSLQSETFNEYRKHPDSLQDAALSSEIQEK 671
+QY L +E + N+D D+ K L E + D++
Sbjct: 14 HQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLS 73
Query: 672 CPNAIC--IYTDASKKNEKVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIW-------- 721
+ + + N K + K++ + T Y + ++
Sbjct: 74 KQEEMVQKFVEEVLRINYK----FLMSPIKTE-QRQPSMMTRMYIEQRDRLYNDNQVFAK 128
Query: 722 -------------EALKYSASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSY 768
+AL L+ + +++ D K T + L++ SY
Sbjct: 129 YNVSRLQPYLKLRQALL---ELRPAKNVLI-DGVLGSGK----------TWVALDVCLSY 174
Query: 769 KHLQNTCKTVKLAWIK 784
K + W+
Sbjct: 175 KVQCKMDFKI--FWLN 188
Score = 32.5 bits (73), Expect = 0.66
Identities = 22/174 (12%), Positives = 47/174 (27%), Gaps = 55/174 (31%)
Query: 1 AKLASDNHVEN---------SVSNVDKPVS------NLF-EISTEETSYNEKPQEHDDLT 44
+ V+ ++ N + P + L +I TS ++
Sbjct: 168 LDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRI 227
Query: 45 FETKESS---FQEETHTETKVESSFQETHVALETNLDD---------F--------TSQE 84
+ + + + L L + F T++
Sbjct: 228 HSIQAELRRLLKSKPYEN------------CLLV-LLNVQNAKAWNAFNLSCKILLTTRF 274
Query: 85 TKLDDFISAHTEKTPEVSEP-----KEEVLDDLVSVPTSVPDVVPNQDANEESP 133
++ DF+SA T + +EV L+ P +P + +P
Sbjct: 275 KQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPRE-VLTTNP 327
>2kq2_A Ribonuclease H-related protein; PSI, NESG, protein structure, APO
enzyme, structural genomics, protein structure
initiative; NMR {Desulfitobacterium hafniense dcb-2}
PDB: 2kw4_A
Length = 147
Score = 60.8 bits (148), Expect = 4e-11
Identities = 26/138 (18%), Positives = 42/138 (30%), Gaps = 17/138 (12%)
Query: 674 NAICIYTDASKKNEKVGAAW-FCPTYKSKACFKLHPATSTYT------AEVIGIWEALKY 726
+YTD S N + A+ F K E+ A+K
Sbjct: 5 TEYDVYTDGSYVNGQYAWAYAFVKDGKVHYEDADVGKNPAAATMRNVAGEIAAALYAVKK 64
Query: 727 SASLKNNEILILTDSKSACQKLSKNC--LNTTPTHLELEILSSYKHLQNTCKTVKLAWIK 784
++ +I IL D + T ++++ Y+ +K
Sbjct: 65 ASQ-LGVKIRILHDYAGIA-FWATGEWKAKNEFTQAYAKLMNQYRG------IYSFEKVK 116
Query: 785 GHEGIKGNVEVDRLAKYA 802
H G + N VD AK A
Sbjct: 117 AHSGNEFNDYVDMKAKSA 134
>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 = 65.5 bits (159), Expect = 6e-11
Identities = 100/663 (15%), Positives = 192/663 (28%), Gaps = 249/663 (37%)
Query: 7 NH--VENSVSNVDKPVSNLFEIS-------------TEETSYNEKPQEHDDLT-----FE 46
+H +E+ + V P ++ F S TE + +++P +L +
Sbjct: 12 SHGSLEHVLL-V--PTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYV 68
Query: 47 TKESSFQEETHTE-------TKVESSF---QETHVALETNLDDFTSQETKLDDFISA--- 93
+ + + T+ E+ + + H L + + K + I
Sbjct: 69 SSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYIT 128
Query: 94 --HTEKTPEVSEPK------------------------EEVLDDLVSV----PTSVPDVV 123
K P + ++ ++L + V D++
Sbjct: 129 ARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLI 188
Query: 124 PN-----QDANEESPSPAVDLTQ--DIVE-EKEAVVTPTDETNSETAEKETPLSEVPVI- 174
+ + TQ +I+E + TP D+ + P+S P+I
Sbjct: 189 KFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTP-DKDYLLSI----PIS-CPLIG 242
Query: 175 -PQEAQTVESAEESTAS-SDLAAKVAGALVVGAAAAGAAVAVKKATAAKKTDKPGPAAKP 232
Q A V +A+ + +L + + GA AVA+
Sbjct: 243 VIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLV-TAVAI------------------ 283
Query: 233 ASKPLAKTTTTKT-TTAAKPAISPV-------KKTATTTAKPAPKPATKPAPKPTTAAPK 284
A+T + ++ + + AI+ + + P T P + +
Sbjct: 284 -----AETDSWESFFVSVRKAITVLFFIGVRCYEAY---------PNTSLPPSILEDSLE 329
Query: 285 STTTAPKP-----APVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPA 339
+ P P ++ V + KT + P +
Sbjct: 330 NNEGVPSPMLSISNLTQEQVQDYVNKTNSH-----------------------LPAGKQV 366
Query: 340 TAAPAPKPLTNG-----VTKRPVS--ATTTASRTSSSSVTSASAAKPAAP------RVPL 386
+ L NG V+ P S R K AP R+P
Sbjct: 367 EIS-----LVNGAKNLVVSGPPQSLYGLNLTLR------------KAKAPSGLDQSRIPF 409
Query: 387 SQRTSAAKPATKPATAKPSTTSK--PTTA---S---KPATATRPATTTSKPATTTSTDIE 438
S+R K +++ P + S PA+ + D+
Sbjct: 410 SER-------------KLKFSNRFLPVASPFHSHLLVPASD------------LINKDLV 444
Query: 439 DEMNQPFTPEELEAAIKSGLITTPGRD--NIHYPMIENLPDCNKYLNIMKMICNKHWGMN 496
N F ++++ + T G D + + E + DC I+++ W
Sbjct: 445 KN-NVSFNAKDIQIPVYD---TFDGSDLRVLSGSISERIVDC-----IIRLPV--KWE-- 491
Query: 497 PTIGLNYYKAT-IRAT--LDFGSVFYSESCSSKLKTLDK--VQNQALRLAM-GYLNSTPI 550
T +AT LDFG +S L L +R+ + G L+ P
Sbjct: 492 --------TTTQFKATHILDFGP-----GGASGLGVLTHRNKDGTGVRVIVAGTLDINPD 538
Query: 551 DNI 553
D+
Sbjct: 539 DDY 541
Score = 42.3 bits (99), Expect = 8e-04
Identities = 53/350 (15%), Positives = 99/350 (28%), Gaps = 117/350 (33%)
Query: 530 LDKVQNQALRLAMGYLNSTPIDNILVECRENPMSK--RTPQLVDRFVLKVISSQTALAAK 587
+D + L L+ G L +LV P + QL ++F + AA
Sbjct: 1 MDAYSTRPLTLSHGSLEHV----LLV-----PTASFFIASQLQEQFNKILPEPTEGFAAD 51
Query: 588 LNTLTVTHMTSK---YCKTKPTPPIVNSYCNI--------SHQY--GREL---------- 624
T + K Y + P V + + + Y G ++
Sbjct: 52 DEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQE 111
Query: 625 ----ITYEKPIIYNYDYDIGKVSLQSETFNEYRKHPDSLQDAALSSEIQEKCPNAICIYT 680
+ K +I NY ++ + +K +L A Q +
Sbjct: 112 NDTTLVKTKELIKNY-ITARIMAKRPFD----KKSNSALFRAVGEGNAQ--------LVA 158
Query: 681 DASKKNEKV----GAAWFCPTYKSKACFK----LHPATSTYTAEVIGIWEALKYSASLKN 732
+ G + F+ L+ TY V L ++
Sbjct: 159 --------IFGGQGN--------TDDYFEELRDLY---QTYHVLV----GDLIKFSA--- 192
Query: 733 NEILI-LTDSKSACQKL-SKNC-----LNTTPTHLELEILSSY------------KHLQN 773
E L L + +K+ ++ L + + L S H
Sbjct: 193 -ETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVV 251
Query: 774 TCKTVKLAWIKGHEGIKGNVEVDRLAKYATVHGEA--STIVISPTNTEEN 821
T K + + +KG AT H + + + I+ T++ E+
Sbjct: 252 TAKLLGFTPGELRSYLKG----------ATGHSQGLVTAVAIAETDSWES 291
Score = 41.6 bits (97), Expect = 0.001
Identities = 74/508 (14%), Positives = 115/508 (22%), Gaps = 198/508 (38%)
Query: 174 IPQEAQTVESAEESTASSDLAAKVAG--ALVVGAAAAGAAVAVKKA-------------- 217
+P+ + + +E T ++L K G + +V + G V
Sbjct: 41 LPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGND 100
Query: 218 --TAAKKTDKPGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPAPKPATKPA 275
A K + +K L K A+ +P K
Sbjct: 101 IHALAAKLLQENDTTLVKTKELI-----KNYITAR----------IMAKRPFDKK---SN 142
Query: 276 PKPTTAAPKSTT-----------------------TAPKPAPVRKPVASTITKTATSTVS 312
A + V I +A +
Sbjct: 143 SALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVL-----VGDLIKFSAETLSE 197
Query: 313 AAPKPSAPKPAAPK---------KPVAAPAPKPRPATA-APAPKPLTNG--------VTK 354
+ + P P + P PL G VT
Sbjct: 198 LIRTTLDAEKVFTQGLNILEWLENPSNTP---DKDYLLSIPISCPL-IGVIQLAHYVVTA 253
Query: 355 RPVSATTTASRTSSSSVTSASAAKPAAPRVPLSQRTSAAKPATKPATAKPSTTSKPTTAS 414
+ + T R+ T S A A A S S +
Sbjct: 254 KLLGFTPGELRSYLKGATGHSQGLVTA----------VA-----IAETD-SWESFFVSVR 297
Query: 415 KPATA----------TRPATTTSKPATTTSTDIEDEMNQPFTPEELEAAIKSGLITTPGR 464
K T P T+ P LE ++++ P
Sbjct: 298 KAITVLFFIGVRCYEAYPNTS-------------------LPPSILEDSLENN-EGVPS- 336
Query: 465 DNIHYPM--IENLPDCNKYLNIMKMI--CNKHWGMNPTIGL---NYYKATIRATLDFGSV 517
PM I NL + + N H + + N K + + G
Sbjct: 337 -----PMLSISNLTQE----QVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVS----G-- 381
Query: 518 FYSESCSSKLKTLDKVQNQALR--LAMGYLNSTPIDNILVECRENPMSKRTPQLVDRFVL 575
+S L L N LR A L+ + I P S+R + +RF
Sbjct: 382 -PPQS----LYGL----NLTLRKAKAPSGLDQSRI----------PFSERKLKFSNRF-- 420
Query: 576 KVISSQTALAAKLNTLTVT---HMTSKY 600
L V H S
Sbjct: 421 ---------------LPVASPFH--SHL 431
>3p1g_A Xenotropic murine leukemia virus-related virus (X H domain; XMRV,
RNAse H, reverse transcriptase, transcription; 1.50A
{Xenotropic mulv-related virus} PDB: 3v1q_A 3v1o_A
3v1r_A* 2hb5_A
Length = 165
Score = 60.2 bits (146), Expect = 9e-11
Identities = 31/133 (23%), Positives = 50/133 (37%), Gaps = 13/133 (9%)
Query: 678 IYTD-ASKKNEKVG--AAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYSASLKNNE 734
YTD +S E A + L TS AE+I + +ALK + + +
Sbjct: 26 WYTDGSSFLQEGQRRAGAAVTTETEVIWARALPAGTSAQRAELIALTQALKMA---EGKK 82
Query: 735 ILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGH-----EGI 789
+ + TDS+ A + + IL+ K L K + + GH
Sbjct: 83 LNVYTDSRYAFATAHVHSEGREIKNKNE-ILALLKALFLP-KRLSIIHCPGHQKGNSAEA 140
Query: 790 KGNVEVDRLAKYA 802
+GN D+ A+ A
Sbjct: 141 RGNRMADQAAREA 153
>3v1v_A 2-MIB synthase, 2-methylisoborneol synthase; class I terpenoid
cyclase fold, DDXXXXD motif, NDXXSXXXE MOT
methylisoborneol biosynthesis; HET: GST; 1.80A
{Streptomyces coelicolor} PDB: 3v1x_A*
Length = 433
Score = 53.6 bits (128), Expect = 2e-07
Identities = 22/104 (21%), Positives = 36/104 (34%)
Query: 283 PKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAA 342
S+ P+ + + P AS + + + P + P PA P P A P T
Sbjct: 9 HHSSGLVPRGSHMVIPSASVTSAASDFLAALHPPVTVPDPAPPPPPAPAAGNPPDTVTGD 68
Query: 343 PAPKPLTNGVTKRPVSATTTASRTSSSSVTSASAAKPAAPRVPL 386
+ + G T ++ A R A A+ P A +
Sbjct: 69 SVLQRILRGPTGPGTTSLAPAVRYGRQPGPEAPASAPPAAGRAV 112
Score = 49.4 bits (117), Expect = 3e-06
Identities = 18/145 (12%), Positives = 31/145 (21%), Gaps = 15/145 (10%)
Query: 223 TDKPGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPAPKPATKPAPKPTTAA 282
+ + +++ P P P A
Sbjct: 6 HHHHHSSGLVPRGSHMVIPS--------ASVTSAASDFLAALHPPVTVPDPAPPPPPAPA 57
Query: 283 PKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAA 342
+ V + + T T+ + P+ P A AP PA
Sbjct: 58 AGNPPDTVTGDSVLQRILRGPTGPGTT----SLAPAVRYGRQPGPEAPASAP---PAAGR 110
Query: 343 PAPKPLTNGVTKRPVSATTTASRTS 367
P + V + SR
Sbjct: 111 AVPGLYHHPVPEPDPVRVEEVSRRI 135
Score = 44.7 bits (105), Expect = 8e-05
Identities = 16/116 (13%), Positives = 24/116 (20%), Gaps = 19/116 (16%)
Query: 232 PASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPAPKPATKPAPKPTTAAPKSTTTAPK 291
+ + + P+ S T+ A P P A P A
Sbjct: 5 HHHHHHSSGLVPRGSHMVIPSASV-----TSAASDFLAALHPPVTVPDPAPPPPPAPAAG 59
Query: 292 PAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKP 347
P + + P P + AP R P
Sbjct: 60 NPPDTVTGD------------SVLQRILRGPTGP--GTTSLAPAVRYGRQPGPEAP 101
Score = 37.4 bits (86), Expect = 0.018
Identities = 16/124 (12%), Positives = 28/124 (22%), Gaps = 13/124 (10%)
Query: 330 AAPAPKPRPATAAPAPKPLTNGVTKRPVSATTTASRTSSSSVTSASAAKPA---APRVPL 386
++ + P + +AS TS++S A+ P P P
Sbjct: 3 SSHHHHHHSSGLVP----------RGSHMVIPSASVTSAASDFLAALHPPVTVPDPAPPP 52
Query: 387 SQRTSAAKPATKPATAKPSTTSKPTTASKPATATRPATTTSKPATTTSTDIEDEMNQPFT 446
+A P T+ PA + +
Sbjct: 53 PPAPAAGNPPDTVTGDSVLQRILRGPTGPGTTSLAPAVRYGRQPGPEAPASAPPAAGRAV 112
Query: 447 PEEL 450
P
Sbjct: 113 PGLY 116
Score = 37.0 bits (85), Expect = 0.025
Identities = 16/124 (12%), Positives = 27/124 (21%), Gaps = 18/124 (14%)
Query: 309 STVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKPLTNGVTKRPVSATTTASRTSS 368
S+ S P + + + A+ A PV+
Sbjct: 3 SSHHHHHHSSGLVPRGSHMVIPSASVTS-AASDFLAA-------LHPPVT-------VPD 47
Query: 369 SSVTSASAAKPAAPRVPLSQRTSAAKPATKPATAKPSTTSKPTTASKPATATRPATTTSK 428
+ A P P + + P T+ A + P S
Sbjct: 48 PAPPPPPAPAAGNP--PDTVTGDSVLQRILRGPTGPG-TTSLAPAVRYGRQPGPEAPASA 104
Query: 429 PATT 432
P
Sbjct: 105 PPAA 108
>2xag_A Lysine-specific histone demethylase 1; amine oxidase, chromatin
regulator, histone inhibitor binding, methylation,
nucleosome core, oxidoreductase; HET: FAD TCF; 3.10A
{Homo sapiens} PDB: 2xaf_A* 2xah_A* 2xaj_A* 2xaq_A*
2xas_A* 2com_A
Length = 852
Score = 50.7 bits (120), Expect = 2e-06
Identities = 38/230 (16%), Positives = 59/230 (25%), Gaps = 18/230 (7%)
Query: 283 PKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKP---SAPKPAAPKKPVAAPAPKPRPA 339
+ A A + + A +P S P P K P
Sbjct: 7 AAAAAAAAAAAATGTEAGPGTAGGSENGSEVAAQPAGLSGPAEVGPGAVGERTPRKKEPP 66
Query: 340 TAAPAPKPLTNGVTKRPVSATTTASRTSSSSVTSASAAKPAAPRVPLSQRTSAAKPATKP 399
A+P + P + T +++ T + P R +R
Sbjct: 67 RASPPGGLAEPPGSAGPQAGPTVVPGSATPMETGIAET-PEGRRTSRRKRAKVEYREMDE 125
Query: 400 ATAKPSTTSKPTTASKPATATRPATTTSKPATTTSTDIEDEMNQPFTPEELEAAIKSGLI 459
+ A S + + A A + P + E+E AA +S L
Sbjct: 126 SLANLSEDEYYSEEERNAKAEKEKKL-PPPPPQAPPEEENESEPEEPSGVEGAAFQSRL- 183
Query: 460 TTPGRDNIHYPMIENLPDCNK--------YLNIMKMICNKHWGMNPTIGL 501
D + PD +L I W NP I L
Sbjct: 184 ---PHDRMTSQEAACFPDIISGPQQTQKVFLFIRNRTLQL-WLDNPKIQL 229
>3qio_A GAG-POL polyprotein; RNAse H, inhibitor, nuclease, transferase,
hydrolase- complex; HET: QID; 1.40A {Hiv-1 M} PDB:
3qin_A* 3hyf_A* 1o1w_A 3lp3_A* 1hrh_A 3k2p_A* 1rdh_A
Length = 150
Score = 47.2 bits (113), Expect = 2e-06
Identities = 39/160 (24%), Positives = 61/160 (38%), Gaps = 47/160 (29%)
Query: 669 QEKCPNAICIYTD-ASKKNEKVG--AAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALK 725
+E A Y D A+ + K+G T + + T+ E+ I+ AL+
Sbjct: 6 KEPIVGAETFYVDGAANRETKLGKAGYV---TNRGRQKVVTLTDTTNQKTELQAIYLALQ 62
Query: 726 YSASLKNNEILILTDS-------------------KSACQKLSKNCLNTTPTHLEL--EI 764
S E+ I+TDS K+A +K KN ++L +I
Sbjct: 63 DSGL----EVNIVTDSQYALGIITQWIHNWKKRGWKTADKKPVKN--------VDLVNQI 110
Query: 765 LSSY--KHLQNTCKTVKLAWIKGHEGIKGNVEVDRLAKYA 802
+ K V LAW+ H+GI GN +VD+L
Sbjct: 111 IEQLIKKE------KVYLAWVPAHKGIGGNEQVDKLVSAG 144
>2wvr_C DNA replication factor CDT1; DNA replication license, DNA
replication inhibitor, phosphoprotein, UBL conjugation,
DNA-binding, polymorphism; HET: DNA; 3.30A {Homo
sapiens} PDB: 2klo_A*
Length = 546
Score = 48.6 bits (114), Expect = 6e-06
Identities = 25/193 (12%), Positives = 41/193 (21%), Gaps = 6/193 (3%)
Query: 237 LAKTTTTKTTTAAKPAISPVKKTATTTAKPAPKPATKPAPKPTTAAPKSTTTAPKPAPVR 296
+ + T +P + P+P AP T+ + K A
Sbjct: 1 MEQRRVTDFFARRRPGPPRIAPPKLACRTPSPARPALRAPASATSGSR------KRARPP 54
Query: 297 KPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKPLTNGVTKRP 356
+ P+ P+ P P P P
Sbjct: 55 AAPGRDQARPPARRRLRLSVDEVSSPSTPEAPDIPACPSPGQKIKKSTPAAGQPPHLTSA 114
Query: 357 VSATTTASRTSSSSVTSASAAKPAAPRVPLSQRTSAAKPATKPATAKPSTTSKPTTASKP 416
T + S A+ A + + P + +P P
Sbjct: 115 QDQDTISELASCLQRARELGARVRALKASAQDAGESCTPEAEGRPEEPCGEKAPAYQRFH 174
Query: 417 ATATRPATTTSKP 429
A A P
Sbjct: 175 ALAQPGLPGLVLP 187
Score = 39.3 bits (90), Expect = 0.005
Identities = 26/184 (14%), Positives = 51/184 (27%), Gaps = 10/184 (5%)
Query: 290 PKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKPLT 349
+P P R +T P P+ P AP + + RP A +
Sbjct: 13 RRPGPPRIAPPKLACRT--------PSPARPALRAPASATSGSRKRARPPAAPGRDQARP 64
Query: 350 NGVTKRPVSATTTASRTSSSSVTSASAAKPAAPRVPLSQRTSAAKPATKPATA--KPSTT 407
+ +S +S ++ + + P + T
Sbjct: 65 PARRRLRLSVDEVSSPSTPEAPDIPACPSPGQKIKKSTPAAGQPPHLTSAQDQDTISELA 124
Query: 408 SKPTTASKPATATRPATTTSKPATTTSTDIEDEMNQPFTPEELEAAIKSGLITTPGRDNI 467
S A + R +++ A + T + + E+ A + + PG +
Sbjct: 125 SCLQRARELGARVRALKASAQDAGESCTPEAEGRPEEPCGEKAPAYQRFHALAQPGLPGL 184
Query: 468 HYPM 471
P
Sbjct: 185 VLPY 188
Score = 37.0 bits (84), Expect = 0.024
Identities = 29/180 (16%), Positives = 47/180 (26%), Gaps = 3/180 (1%)
Query: 301 STITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPK-PRPATAAPAPKPLTNGVTKRPVSA 359
+T P+ + PK A A PA + P AT+ + R +
Sbjct: 4 RRVTDFFARRRPGPPRIAPPKLACRTPSPARPALRAPASATSGSRKRARPPAAPGRDQAR 63
Query: 360 TTTASRTSSSSVTSASAAKPAAPRVPLSQRTSAAKPATKPATAKPSTTSKPTTASKPATA 419
R S +S + P AP +P + PA +P + +
Sbjct: 64 PPARRRLRLSVDEVSSPSTPEAPDIPACPSPGQKIKKSTPAAGQPPHLTSAQDQDTISEL 123
Query: 420 TRPATTTSKPAT--TTSTDIEDEMNQPFTPEELEAAIKSGLITTPGRDNIHYPMIENLPD 477
+ + + TPE + P H LP
Sbjct: 124 ASCLQRARELGARVRALKASAQDAGESCTPEAEGRPEEPCGEKAPAYQRFHALAQPGLPG 183
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo
sapiens} PDB: 2qk9_A 2qkk_A*
Length = 154
Score = 45.6 bits (109), Expect = 9e-06
Identities = 27/155 (17%), Positives = 55/155 (35%), Gaps = 38/155 (24%)
Query: 674 NAICIYTD-ASKKNEKVGA-----AWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+ + +YTD N + ++ P + +L + AE+ +A++ +
Sbjct: 6 DFVVVYTDGCCSSNGRRRPRAGIGVYWGPGHPLNVGIRLPGRQTNQRAEIHAACKAIEQA 65
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNT-----------TPTH---------LELEILSS 767
+ N++++ T+S + N + T + LE L+
Sbjct: 66 KTQNINKLVLYTNSM-----FTINGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQ 120
Query: 768 YKHLQNTCKTVKLAWIKGHEGIKGNVEVDRLAKYA 802
++ + GH G GN E DRLA+
Sbjct: 121 -GM------DIQWMHVPGHSGFIGNEEADRLAREG 148
>3dva_I Dihydrolipoyllysine-residue acetyltransferase component of pyruvate
dehydrogenase...; oxidoreductase, multienzyme complex;
HET: TPW; 2.35A {Bacillus stearothermophilus} PDB:
3dv0_I* 3duf_I* 1b5s_A 1lab_A 1lac_A 1w3d_A
Length = 428
Score = 47.2 bits (113), Expect = 1e-05
Identities = 33/203 (16%), Positives = 51/203 (25%), Gaps = 41/203 (20%)
Query: 189 ASSDLAAKVAGALVVGAAAAGAAVAVKKATAAKKTDKPGPAAKPASKPLAKTTTTKTTTA 248
A ++ + V G ++ G V +
Sbjct: 44 AVVEIPSPVKGKVLEILVPEGTVATVGQTLITLDAPGYENMTFKG--------------Q 89
Query: 249 AKPAISPVKKTATTTAKPAPKPATKPAPKPTTAAPKSTTTAPKPAPVRK----------P 298
+ +KT T + + AP A + P+ VRK
Sbjct: 90 EQEEAKKEEKTETVSKEEKVDAVAPNAPAAEAEAGPNRRVIAMPS-VRKYAREKGVDIRL 148
Query: 299 VAST-----ITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKPLTNGVT 353
V T + K + A A A + AAPA A PA T
Sbjct: 149 VQGTGKNGRVLK---EDIDAFLAGGAKPAPAAAEEKAAPAA------AKPATTEGEFPET 199
Query: 354 KRPVSAT--TTASRTSSSSVTSA 374
+ +S A S T+
Sbjct: 200 REKMSGIRRAIAKAMVHSKHTAP 222
>3gdb_A Endo-D, putative uncharacterized protein SPR0440;
alpha-beta-barrels, cell WALL, peptidoglycan-anchor,
secreted, hydrolase; HET: PGE; 1.87A {Streptococcus
pneumoniae} PDB: 2xqx_A
Length = 937
Score = 47.3 bits (111), Expect = 2e-05
Identities = 17/187 (9%), Positives = 31/187 (16%), Gaps = 3/187 (1%)
Query: 230 AKPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPAPKPATKPAPKPTTAAPKSTTTA 289
+ + P T+ + A + K A T +
Sbjct: 21 GEETAVPENSGANTELVSGESE---HSTNEADKQNEGEHARENKLEKAEGVATASETASP 77
Query: 290 PKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKPLT 349
A + ++ P A K KP KP
Sbjct: 78 ASNEAATTETAEAASAAKPEEKASEVVAETPSAEAKPKSDKETEAKPEATNQGDESKPAA 137
Query: 350 NGVTKRPVSATTTASRTSSSSVTSASAAKPAAPRVPLSQRTSAAKPATKPATAKPSTTSK 409
T + + + + S +
Sbjct: 138 EANKTEKEVQPDVPKNTEKTLKPKEIKFNSWEELLKWEPGAREDDAINRGSVVLASRRTG 197
Query: 410 PTTASKP 416
K
Sbjct: 198 HLVNEKA 204
Score = 47.3 bits (111), Expect = 2e-05
Identities = 24/195 (12%), Positives = 46/195 (23%), Gaps = 18/195 (9%)
Query: 253 ISPVKKTATTTAKPAPKPATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVS 312
+ + TA P A + +
Sbjct: 14 LENLYFQGEETAVPENSGANTELVSGESEHSTNEADKQNEGE---------HARENKLEK 64
Query: 313 AAPKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKPLTNGVTKRPVSATTTASRTSSSSVT 372
A +A + A+P AA A+AA + + V + P + S + +
Sbjct: 65 AEGVATASETASPASNEAATTETAEAASAAKPEEKASEVVAETPSAEAKPKSDKETEAKP 124
Query: 373 SASAAKPAAPRVPLSQRTSAAKPATKPATAKPSTTSKPTTASKPATATRPATTTSKPATT 432
A+ + A A K K T + + +
Sbjct: 125 EATNQGDE---------SKPAAEANKTEKEVQPDVPKNTEKTLKPKEIKFNSWEELLKWE 175
Query: 433 TSTDIEDEMNQPFTP 447
+D +N+
Sbjct: 176 PGAREDDAINRGSVV 190
Score = 45.0 bits (105), Expect = 1e-04
Identities = 28/189 (14%), Positives = 47/189 (24%), Gaps = 2/189 (1%)
Query: 160 ETAEKETPLSEVPVIPQEAQTVESAEESTASSDLAAKVAGALVVGAAAAGAAVAVKKATA 219
L + +E E++ +T ++ + G K
Sbjct: 6 HHHGHHHQLENLYFQGEETAVPENSGANTELVSGESEHSTN-EADKQNEGEHARENKLEK 64
Query: 220 AKKTDKPGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTA-TTTAKPAPKPATKPAPKP 278
A+ A PAS A T T + +AAKP + A T +A+ PK + KP
Sbjct: 65 AEGVATASETASPASNEAATTETAEAASAAKPEEKASEVVAETPSAEAKPKSDKETEAKP 124
Query: 279 TTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRP 338
+ A + T + K
Sbjct: 125 EATNQGDESKPAAEANKTEKEVQPDVPKNTEKTLKPKEIKFNSWEELLKWEPGAREDDAI 184
Query: 339 ATAAPAPKP 347
+
Sbjct: 185 NRGSVVLAS 193
>2grx_C Protein TONB; beta barrel, outer membrane, heterocomplex,
inter-protein beta sheet, protein-protein, metal
transport; HET: GCN KDO GMH FTT DAO MYR FCI; 3.30A
{Escherichia coli} SCOP: d.212.1.2 PDB: 1xx3_A
Length = 229
Score = 45.1 bits (106), Expect = 4e-05
Identities = 21/145 (14%), Positives = 39/145 (26%)
Query: 241 TTTKTTTAAKPAISPVKKTATTTAKPAPKPATKPAPKPTTAAPKSTTTAPKPAPVRKPVA 300
++ P S + +P + P P P V
Sbjct: 5 HHHHHSSGLVPRGSHMSVHQVIELPAPAQPISVTMVTPADLEPPQAVQPPPEPVVEPEPE 64
Query: 301 STITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKPLTNGVTKRPVSAT 360
+ PKP KPV +P+ +P + P T
Sbjct: 65 PEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVQEQPKRDVKPVESRPASPFENTAPARLT 124
Query: 361 TTASRTSSSSVTSASAAKPAAPRVP 385
++ + ++S ++ A+ P A
Sbjct: 125 SSTATAATSKPVTSVASGPRALSRN 149
Score = 44.3 bits (104), Expect = 6e-05
Identities = 21/123 (17%), Positives = 31/123 (25%)
Query: 228 PAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPAPKPATKPAPKPTTAAPKSTT 287
++P++ T T A+ P + P P
Sbjct: 26 IELPAPAQPISVTMVTPADLEPPQAVQPPPEPVVEPEPEPEPIPEPPKEAPVVIEKPKPK 85
Query: 288 TAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKP 347
PKP PV+K A PA A A + A P+
Sbjct: 86 PKPKPKPVKKVQEQPKRDVKPVESRPASPFENTAPARLTSSTATAATSKPVTSVASGPRA 145
Query: 348 LTN 350
L+
Sbjct: 146 LSR 148
Score = 43.9 bits (103), Expect = 8e-05
Identities = 30/144 (20%), Positives = 41/144 (28%), Gaps = 1/144 (0%)
Query: 204 GAAAAGAAVAVKKATAAKKTDKPGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTT 263
G G+ ++V + +P L + P +
Sbjct: 12 GLVPRGSHMSVHQVIELPAPAQPISVTMVTPADLEPPQAVQPPPEPVVEPEPEPEPIPEP 71
Query: 264 AKPAPKPATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPA 323
K AP KP PKP +P KPV S +T A S A
Sbjct: 72 PKEAPVVIEKPKPKPKPKPKPVKKVQEQPKRDVKPVESRPASPFENTAPARLTSSTATAA 131
Query: 324 APKKPVAAPAPKPRPATAAPAPKP 347
KPV + A PR + P
Sbjct: 132 TS-KPVTSVASGPRALSRNQPQYP 154
Score = 41.6 bits (97), Expect = 4e-04
Identities = 21/135 (15%), Positives = 40/135 (29%)
Query: 266 PAPKPATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAP 325
+ + A + T PA + P A P+P P
Sbjct: 16 RGSHMSVHQVIELPAPAQPISVTMVTPADLEPPQAVQPPPEPVVEPEPEPEPIPEPPKEA 75
Query: 326 KKPVAAPAPKPRPATAAPAPKPLTNGVTKRPVSATTTASRTSSSSVTSASAAKPAAPRVP 385
+ P PKP+P +PV + + +++ S+ AA P
Sbjct: 76 PVVIEKPKPKPKPKPKPVKKVQEQPKRDVKPVESRPASPFENTAPARLTSSTATAATSKP 135
Query: 386 LSQRTSAAKPATKPA 400
++ S + ++
Sbjct: 136 VTSVASGPRALSRNQ 150
Score = 41.6 bits (97), Expect = 5e-04
Identities = 18/118 (15%), Positives = 28/118 (23%)
Query: 225 KPGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPAPKPATKPAPKPTTAAPK 284
+ P + P KP PKP KP K +
Sbjct: 43 ADLEPPQAVQPPPEPVVEPEPEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVQEQPKR 102
Query: 285 STTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAA 342
+ T+++ +A KP + P+ P A A
Sbjct: 103 DVKPVESRPASPFENTAPARLTSSTATAATSKPVTSVASGPRALSRNQPQYPARAQAL 160
Score = 36.2 bits (83), Expect = 0.023
Identities = 21/141 (14%), Positives = 30/141 (21%)
Query: 283 PKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAA 342
V + + S P P A P P+P P
Sbjct: 10 SSGLVPRGSHMSVHQVIELPAPAQPISVTMVTPADLEPPQAVQPPPEPVVEPEPEPEPIP 69
Query: 343 PAPKPLTNGVTKRPVSATTTASRTSSSSVTSASAAKPAAPRVPLSQRTSAAKPATKPATA 402
PK + K KP R +A T
Sbjct: 70 EPPKEAPVVIEKPKPKPKPKPKPVKKVQEQPKRDVKPVESRPASPFENTAPARLTSSTAT 129
Query: 403 KPSTTSKPTTASKPATATRPA 423
++ + AS P +R
Sbjct: 130 AATSKPVTSVASGPRALSRNQ 150
Score = 36.2 bits (83), Expect = 0.025
Identities = 15/128 (11%), Positives = 28/128 (21%)
Query: 275 APKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAP 334
+ + P+ + + V P+P P+ P
Sbjct: 15 PRGSHMSVHQVIELPAPAQPISVTMVTPADLEPPQAVQPPPEPVVEPEPEPEPIPEPPKE 74
Query: 335 KPRPATAAPAPKPLTNGVTKRPVSATTTASRTSSSSVTSASAAKPAAPRVPLSQRTSAAK 394
P K+ + S S A + + +K
Sbjct: 75 APVVIEKPKPKPKPKPKPVKKVQEQPKRDVKPVESRPASPFENTAPARLTSSTATAATSK 134
Query: 395 PATKPATA 402
P T A+
Sbjct: 135 PVTSVASG 142
Score = 36.2 bits (83), Expect = 0.030
Identities = 20/149 (13%), Positives = 32/149 (21%), Gaps = 11/149 (7%)
Query: 256 VKKTATTTAKPAPKPATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAP 315
V + + + + P T + P+ V
Sbjct: 14 VPRGSHMSVHQVIELPAPAQPISVTMVTPADLEPPQAVQPPPEP-----------VVEPE 62
Query: 316 KPSAPKPAAPKKPVAAPAPKPRPATAAPAPKPLTNGVTKRPVSATTTASRTSSSSVTSAS 375
P P PK+ P P KR V + + + A
Sbjct: 63 PEPEPIPEPPKEAPVVIEKPKPKPKPKPKPVKKVQEQPKRDVKPVESRPASPFENTAPAR 122
Query: 376 AAKPAAPRVPLSQRTSAAKPATKPATAKP 404
A TS A + +P
Sbjct: 123 LTSSTATAATSKPVTSVASGPRALSRNQP 151
Score = 35.1 bits (80), Expect = 0.059
Identities = 30/152 (19%), Positives = 46/152 (30%), Gaps = 2/152 (1%)
Query: 306 TATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKPLTNGVTKRPVSATTTASR 365
S +S P PA P P A P V P
Sbjct: 15 PRGSHMSVHQVIELPAPAQPISVTMVTPADLEPPQAVQPPPEPV--VEPEPEPEPIPEPP 72
Query: 366 TSSSSVTSASAAKPAAPRVPLSQRTSAAKPATKPATAKPSTTSKPTTASKPATATRPATT 425
+ V KP P+ + K KP ++P++ + T ++ ++T A T
Sbjct: 73 KEAPVVIEKPKPKPKPKPKPVKKVQEQPKRDVKPVESRPASPFENTAPARLTSSTATAAT 132
Query: 426 TSKPATTTSTDIEDEMNQPFTPEELEAAIKSG 457
+ + S NQP P +A G
Sbjct: 133 SKPVTSVASGPRALSRNQPQYPARAQALRIEG 164
>1mu2_A HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polymerase, drug
design, transferase; 2.35A {Human immunodeficiency virus
2} SCOP: c.55.3.1 e.8.1.2 PDB: 1mu2_B
Length = 555
Score = 44.3 bits (105), Expect = 1e-04
Identities = 36/132 (27%), Positives = 56/132 (42%), Gaps = 11/132 (8%)
Query: 668 IQEKCPNAICIYTD-ASKKNEKVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKY 726
+ + P A YTD + + K G A + T + K K T+ AE+ AL
Sbjct: 429 VGDPIPGAETFYTDGSCNRQSKEGKAGYV-TDRGKDKVKKLEQTTNQQAELEAFAMALTD 487
Query: 727 SASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGH 786
S N I+ DS+ + + PT E +I++ + + +AW+ H
Sbjct: 488 SGPKVN----IIVDSQYVM-----GIVASQPTESESKIVNQIIEEMIKKEAIYVAWVPAH 538
Query: 787 EGIKGNVEVDRL 798
+GI GN EVD L
Sbjct: 539 KGIGGNQEVDHL 550
>2zd1_A Reverse transcriptase/ribonuclease H; P51/P66, hetero dimer, NNRTI,
nonnucleoside inhibitor, AIDS, HIV, rilpivirine,
diarylpyrimidine, DAPY, DNA recombination; HET: T27;
1.80A {Human immunodeficiency virus 1} PDB: 3is9_A*
3irx_A* 2ze2_A* 3bgr_A* 3qlh_A* 3klf_A* 3qo9_A* 1dlo_A
1bqm_A 2be2_A* 1s6q_A* 1s6p_A* 1s9g_A* 1suq_A* 2b5j_A*
2b6a_A* 2ban_A* 1s9e_A* 1hni_A* 1hnv_A* ...
Length = 557
Score = 42.8 bits (101), Expect = 4e-04
Identities = 37/131 (28%), Positives = 58/131 (44%), Gaps = 11/131 (8%)
Query: 669 QEKCPNAICIYTD-ASKKNEKVGAAWFCPTYKSKACFKLHPATSTYTAEVIGIWEALKYS 727
+E A Y D A+ + K+G A + T K + T+ E+ I+ AL+ S
Sbjct: 433 KEPIVGAETFYVDGAANRETKLGKAGYV-TNKGRQKVVPLTNTTNQKTELQAIYLALQDS 491
Query: 728 ASLKNNEILILTDSKSACQKLSKNCLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKGHE 787
N I+TDS+ A + P E E+++ + V LAW+ H+
Sbjct: 492 GLEVN----IVTDSQYAL-----GIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHK 542
Query: 788 GIKGNVEVDRL 798
GI GN +VD+L
Sbjct: 543 GIGGNEQVDKL 553
>1deq_A Fibrinogen (alpha chain); coiled-coil, blood clotting; 3.50A {Bos
taurus} SCOP: i.9.1.1
Length = 390
Score = 41.4 bits (96), Expect = 8e-04
Identities = 21/159 (13%), Positives = 39/159 (24%)
Query: 225 KPGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPAPKPATKPAPKPTTAAPK 284
K P + + + P + P ++
Sbjct: 222 KSQLQEAPLEWKALLEMQQTKMVLETFGGDGHARGDSVSQGTGLAPGSPRKPGTSSIGNV 281
Query: 285 STTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPA 344
+ + + +A + P+P + P +P A P P
Sbjct: 282 NPGSYGPGSSGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNPGRPEPG 341
Query: 345 PKPLTNGVTKRPVSATTTASRTSSSSVTSASAAKPAAPR 383
N P SA T + +S SS ++ R
Sbjct: 342 SAGTWNPGRPEPGSAGTWNTGSSGSSSFRPDSSGHGNIR 380
Score = 38.3 bits (88), Expect = 0.008
Identities = 23/198 (11%), Positives = 45/198 (22%), Gaps = 10/198 (5%)
Query: 221 KKTDKPGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPAPKPATKPAPKPTT 280
K+ ++ S+ + K +T P K K
Sbjct: 186 KQLEQVIAINLLPSRDIQYLPILKMSTITGPVPREFKSQLQEAPLEWKALLEMQQTKMVL 245
Query: 281 AAPKSTTTAPKPAPVRKPVASTI------TKTATSTVSAAPKPSAPKPAAPKKPVAAPAP 334
A + + + T + + + P + P +P A
Sbjct: 246 ETFGGDGHARGDSVSQGTGLAPGSPRKPGTSSIGNVNPGSYGPGSSGTWNPGRPEPGSAG 305
Query: 335 KPRPATAAPAPKPLTNGVTKRPVSATTTASRTSSSSVTSASAAKPAAPRVPLSQRTSAAK 394
P P N P SA T P + T
Sbjct: 306 TWNPGRPEPGSAGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNT---- 361
Query: 395 PATKPATAKPSTTSKPTT 412
++ ++ +P ++
Sbjct: 362 GSSGSSSFRPDSSGHGNI 379
Score = 37.1 bits (85), Expect = 0.022
Identities = 21/202 (10%), Positives = 39/202 (19%), Gaps = 7/202 (3%)
Query: 207 AAGAAVAVKKATAAKKTDKPGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKP 266
+ + K P + K T
Sbjct: 191 VIAINLLPSRDIQYLPILKMSTITGPVPREFKSQLQEAPLEWKALLEMQQTKMVLETFGG 250
Query: 267 APKPATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPK 326
+ T AP S + S ++ + P+P + P
Sbjct: 251 DGHARGDSVSQGTGLAPGSPRKPGTSSIGNVNPGSYGPGSSGTWNPGRPEPGSAGTWNPG 310
Query: 327 KPVAAPAPKPRPATAAPAPKPLTNGVTKRPVSATTTASRTSSSSVTSASAAKPAAPRVPL 386
+P A P P G + +
Sbjct: 311 RPEPGSAGTWNPGRPEP-------GSAGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNTGS 363
Query: 387 SQRTSAAKPATKPATAKPSTTS 408
S +S ++ +PS+
Sbjct: 364 SGSSSFRPDSSGHGNIRPSSPD 385
Score = 35.6 bits (81), Expect = 0.067
Identities = 17/143 (11%), Positives = 38/143 (26%), Gaps = 1/143 (0%)
Query: 204 GAAAAGAAVAVKKATAAKKTDKPGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTT 263
A ++ + G +++ T + KP S + +
Sbjct: 226 QEAPLEWKALLEMQQTKMVLETFGGDGHARGDSVSQGTGLAPGSPRKPGTSSIGNVNPGS 285
Query: 264 AKPAPKPATKP-APKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKP 322
P P P+P +A + + +A + P+P +
Sbjct: 286 YGPGSSGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNPGRPEPGSAGT 345
Query: 323 AAPKKPVAAPAPKPRPATAAPAP 345
P +P A ++ +
Sbjct: 346 WNPGRPEPGSAGTWNTGSSGSSS 368
Score = 34.5 bits (78), Expect = 0.13
Identities = 22/198 (11%), Positives = 42/198 (21%), Gaps = 6/198 (3%)
Query: 153 PTDETNSETAEKETPLSEVPVIPQEAQTVESAEESTASSDLAAKVAGALVVGAAAAGAAV 212
P+ + K + ++ ++Q E+ E A ++ G
Sbjct: 198 PSRDIQYLPILKMSTITGPVPREFKSQLQEAPLEWKALLEMQQTKMVLETFGGDGHARGD 257
Query: 213 AVKKATAAKKTDKPGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPAPKPAT 272
+V + T P + ++ P T P+P +
Sbjct: 258 SVSQGTGLAPGSPRKPGTSSIGNVNPGSYGPGSSGTWNPGRPEPGSAGTWNPGR-PEPGS 316
Query: 273 KPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAP 332
P P + P A T + P
Sbjct: 317 AGTWNPGRPEP-GSAGTWNPGRPEPGSAGT----WNPGRPEPGSAGTWNTGSSGSSSFRP 371
Query: 333 APKPRPATAAPAPKPLTN 350
+P T
Sbjct: 372 DSSGHGNIRPSSPDWGTF 389
Score = 30.2 bits (67), Expect = 2.7
Identities = 10/144 (6%), Positives = 35/144 (24%), Gaps = 1/144 (0%)
Query: 304 TKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKPLTNGVTKRPVSATTTA 363
+ + + P + P P+ + AP + +
Sbjct: 188 LEQVIAINLLPSRDIQYLPILKMSTITGPVPREFKSQLQEAPLEWKALLEMQQTKMVLET 247
Query: 364 SRTSSSSVTSASAAKPAAPRVPLSQRTSAAKPATKPATAKPSTTSKPTTASKPATATRPA 423
+ + + + +++ P + P ++ +P +
Sbjct: 248 FGGDGHARGDSVSQGTGLAPGSPRKPGTSSIGNVNPGSYGPGSSG-TWNPGRPEPGSAGT 306
Query: 424 TTTSKPATTTSTDIEDEMNQPFTP 447
+P ++ +P +
Sbjct: 307 WNPGRPEPGSAGTWNPGRPEPGSA 330
>3nwa_A GB, GB-1, GB1, envelope glycoprotein B; coiled-coil, membrane
fusion, viral P glycoprotein B, HSV-1, membrane; HET:
NAG; 2.26A {Human herpesvirus 1} PDB: 3nwf_A* 3nw8_A*
3nwd_A*
Length = 703
Score = 39.6 bits (92), Expect = 0.004
Identities = 19/94 (20%), Positives = 27/94 (28%), Gaps = 3/94 (3%)
Query: 316 KPSAPKPAAPKKPVAAPAPKPRPAT-AAPAPKPLTNGVTKRPVSATTTASRTSSSSVTSA 374
P++P P A A PAT A PA G K + + +A
Sbjct: 4 APTSPGT--PGVAAATQAANGGPATPAPPALGAAPTGDPKPKKNKKPKNPTPPRPAGDNA 61
Query: 375 SAAKPAAPRVPLSQRTSAAKPATKPATAKPSTTS 408
+ A A + A P T +
Sbjct: 62 TVAAGHATLREHLRDIKAENTDANFYVCPPPTGA 95
Score = 37.6 bits (87), Expect = 0.020
Identities = 14/83 (16%), Positives = 18/83 (21%), Gaps = 4/83 (4%)
Query: 269 KPATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKP 328
PA +P A + PA P A + K PK P +P
Sbjct: 1 DPAAPTSPGTPGVAAATQAANGGPATPAPPALG----AAPTGDPKPKKNKKPKNPTPPRP 56
Query: 329 VAAPAPKPRPATAAPAPKPLTNG 351
A
Sbjct: 57 AGDNATVAAGHATLREHLRDIKA 79
Score = 37.2 bits (86), Expect = 0.025
Identities = 17/96 (17%), Positives = 23/96 (23%), Gaps = 4/96 (4%)
Query: 249 AKPAISPVKKTATTTAKPAPKPATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTAT 308
A P A T PAT P + T PKP +KP T + A
Sbjct: 3 AAPTSPGTPGVAAATQAANGGPATPAPPALGA----APTGDPKPKKNKKPKNPTPPRPAG 58
Query: 309 STVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPA 344
+ A + +
Sbjct: 59 DNATVAAGHATLREHLRDIKAENTDANFYVCPPPTG 94
Score = 35.7 bits (82), Expect = 0.068
Identities = 22/96 (22%), Positives = 31/96 (32%), Gaps = 6/96 (6%)
Query: 225 KPGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPAPKPATKPA-PKPTTAAP 283
P P + T A PA+ A T P PK KP P P A
Sbjct: 4 APTSPGTPGVAAATQAANGGPATPAPPALG-----AAPTGDPKPKKNKKPKNPTPPRPAG 58
Query: 284 KSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSA 319
+ T A A +R+ + + + P P+
Sbjct: 59 DNATVAAGHATLREHLRDIKAENTDANFYVCPPPTG 94
Score = 34.5 bits (79), Expect = 0.14
Identities = 16/88 (18%), Positives = 24/88 (27%), Gaps = 4/88 (4%)
Query: 358 SATTTASRTSSSSVTSASAAKPAAPRVPLSQRTSAAKPATKPATAKPSTTSKPTTASKPA 417
+A T+ ++ T A+ PA P P A P P K PT
Sbjct: 3 AAPTSPGTPGVAAATQAANGGPATPAPP----ALGAAPTGDPKPKKNKKPKNPTPPRPAG 58
Query: 418 TATRPATTTSKPATTTSTDIEDEMNQPF 445
A + + + F
Sbjct: 59 DNATVAAGHATLREHLRDIKAENTDANF 86
Score = 29.2 bits (65), Expect = 6.6
Identities = 18/90 (20%), Positives = 25/90 (27%), Gaps = 9/90 (10%)
Query: 297 KPVASTITKTATSTVSAAPKPSAP-KPAAPKKPVAAPAPKPRPATAAPAPKPLTNGVTKR 355
P + A +T +A P+ P PA P P PK P P R
Sbjct: 4 APTSPGTPGVAAATQAANGGPATPAPPALGAAPTGDPKPKKNKKPKNPTP--------PR 55
Query: 356 PVSATTTASRTSSSSVTSASAAKPAAPRVP 385
P T + ++ K
Sbjct: 56 PAGDNATVAAGHATLREHLRDIKAENTDAN 85
>2yew_A Capsid protein, coat protein; alphavirus, molecular dynamics; 5.00A
{Barmah forest virus}
Length = 253
Score = 38.8 bits (90), Expect = 0.004
Identities = 13/82 (15%), Positives = 21/82 (25%), Gaps = 6/82 (7%)
Query: 266 PAPKPATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAP 325
P P + P+P AP P+ + + + K +
Sbjct: 14 WRPAPVQRYIPQPQPPAP------PRRRRGPSQLQQLVAALGALALQPKQKQKRAQKKPK 67
Query: 326 KKPVAAPAPKPRPATAAPAPKP 347
K P P +P K
Sbjct: 68 KTPPPKPKKTQKPKKPTQKKKS 89
Score = 36.9 bits (85), Expect = 0.015
Identities = 16/86 (18%), Positives = 22/86 (25%)
Query: 262 TTAKPAPKPATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPK 321
T +PA P P P+ +++ VA+ PK
Sbjct: 8 TFYGRRWRPAPVQRYIPQPQPPAPPRRRRGPSQLQQLVAALGALALQPKQKQKRAQKKPK 67
Query: 322 PAAPKKPVAAPAPKPRPATAAPAPKP 347
P KP PK P
Sbjct: 68 KTPPPKPKKTQKPKKPTQKKKSKPGK 93
Score = 33.8 bits (77), Expect = 0.18
Identities = 10/84 (11%), Positives = 19/84 (22%)
Query: 315 PKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKPLTNGVTKRPVSATTTASRTSSSSVTSA 374
+ P P P P PR + L + + R +
Sbjct: 11 GRRWRPAPVQRYIPQPQPPAPPRRRRGPSQLQQLVAALGALALQPKQKQKRAQKKPKKTP 70
Query: 375 SAAKPAAPRVPLSQRTSAAKPATK 398
+ + +KP +
Sbjct: 71 PPKPKKTQKPKKPTQKKKSKPGKR 94
Score = 30.0 bits (67), Expect = 2.8
Identities = 14/75 (18%), Positives = 21/75 (28%)
Query: 225 KPGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPAPKPATKPAPKPTTAAPK 284
+P P A P + A+ P +K KP P KP P
Sbjct: 25 QPQPPAPPRRRRGPSQLQQLVAALGALALQPKQKQKRAQKKPKKTPPPKPKKTQKPKKPT 84
Query: 285 STTTAPKPAPVRKPV 299
+ +R +
Sbjct: 85 QKKKSKPGKRMRNCM 99
Score = 29.6 bits (66), Expect = 3.5
Identities = 8/76 (10%), Positives = 21/76 (27%), Gaps = 2/76 (2%)
Query: 225 KPGPAAKPASKPLAKTTTTKTTTAAKPA--ISPVKKTATTTAKPAPKPATKPAPKPTTAA 282
+P P + +P + ++ ++ + A + + KP P
Sbjct: 15 RPAPVQRYIPQPQPPAPPRRRRGPSQLQQLVAALGALALQPKQKQKRAQKKPKKTPPPKP 74
Query: 283 PKSTTTAPKPAPVRKP 298
K+ +
Sbjct: 75 KKTQKPKKPTQKKKSK 90
>2i0q_B Telomere-binding protein beta subunit; single strand DNA-protein
complex, structural protein/DNA complex; 1.91A
{Sterkiella nova} SCOP: b.40.4.3
Length = 385
Score = 39.2 bits (90), Expect = 0.005
Identities = 33/179 (18%), Positives = 52/179 (29%), Gaps = 7/179 (3%)
Query: 250 KPAISPVKKTATTTAKPAPKPATKPAPKPTTAAP-KSTTTAPKPAPVRKPVASTITKTAT 308
K + K A + K A A T A K A + ++
Sbjct: 206 KEGNTATLKIADIFVQEKGKDALNKAADHTDGAKVKGGAKGKGKAAAKAAKGKKLSAKKG 265
Query: 309 STVSAAPKPSAPKPA--APKKPVAAPAPKPRPATAAPAPKPLTNGVTKRPV----SATTT 362
+ +A + S K P K P+ A AA G P S +
Sbjct: 266 DSSAADVRKSVDKIVKYTPSKGSRKDTPQKSQAPAAGKSSAKKGGKKAVPSAPSPSGKKS 325
Query: 363 ASRTSSSSVTSASAAKPAAPRVPLSQRTSAAKPATKPATAKPSTTSKPTTASKPATATR 421
A T ++ + + +S K K + K S TS + + TA +
Sbjct: 326 ALTTDKMTMAQFVKYLDWHEKKKGGKVSSGGKVLGKRSAGKASATSGKASKASKKTAAK 384
>1zy8_K Pyruvate dehydrogenase protein X component, mitochondrial; human,
dihydrolipoamide dehydrogenase, dihydrolipoyl
dehydrogenase; HET: FAD; 2.59A {Homo sapiens}
Length = 229
Score = 38.2 bits (89), Expect = 0.005
Identities = 18/148 (12%), Positives = 34/148 (22%), Gaps = 17/148 (11%)
Query: 291 KPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKPLT- 349
K + + + + PK P P K P+P+P+ +
Sbjct: 67 KNIRLGSLIGLIVEEGEDWKHVEIPKDVGPPPPVSKPSEPRPSPEPQISIPVKKEHIPGT 126
Query: 350 ---------------NGVTKRPVSATTTASRTSSSSVTSASAAKPAAPRVPLSQRTSAAK 394
+ + +AT + K +
Sbjct: 127 LRFRLSPAARNILEKHSLDASQGTATGPRGIFTKEDALKLVQLKQTGKITESRPTPAPTA 186
Query: 395 PATKPATAK-PSTTSKPTTASKPATATR 421
T P+ + S S P P +
Sbjct: 187 TPTAPSPLQATSGPSYPRPVIPPVSTPG 214
Score = 30.5 bits (69), Expect = 1.5
Identities = 19/137 (13%), Positives = 29/137 (21%), Gaps = 31/137 (22%)
Query: 264 AKPAPKPATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAP-------- 315
+ P K + P P P T +P
Sbjct: 82 GEDWKHVEIPKDVGPPPPVSKPSEPRPSPEPQISIPVKKEHIPGTLRFRLSPAARNILEK 141
Query: 316 --------KPS--------------APKPAAPKKPVAAPAPKPRPATAAPAPKPLTNG-V 352
+ K + P P P AP+P T+G
Sbjct: 142 HSLDASQGTATGPRGIFTKEDALKLVQLKQTGKITESRPTPAPTATPTAPSPLQATSGPS 201
Query: 353 TKRPVSATTTASRTSSS 369
RPV + ++
Sbjct: 202 YPRPVIPPVSTPGQPNA 218
>1mv3_A MYC box dependent interacting protein 1; tumor suppressor,
endocytosis/exocytosis complex; NMR {Homo sapiens} SCOP:
b.34.2.1
Length = 213
Score = 37.8 bits (86), Expect = 0.007
Identities = 20/140 (14%), Positives = 31/140 (22%)
Query: 259 TATTTAKPAPKPATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPS 318
AT + +P P PKS + K PV P T +K +
Sbjct: 5 AATPEIRVNHEPEPAGGATPGATLPKSPSQLRKGPPVPPPPKHTPSKEVKQEQILSLFED 64
Query: 319 APKPAAPKKPVAAPAPKPRPATAAPAPKPLTNGVTKRPVSATTTASRTSSSSVTSASAAK 378
P + PA A A +++ A+
Sbjct: 65 TFVPEISVTTPSQPAEASEVAGGTQPAAGAQEPGETAASEAASSSLPAVVVETFPATVNG 124
Query: 379 PAAPRVPLSQRTSAAKPATK 398
+ K
Sbjct: 125 TVEGGSGAGRLDLPPGFMFK 144
Score = 32.7 bits (73), Expect = 0.30
Identities = 17/142 (11%), Positives = 32/142 (22%), Gaps = 1/142 (0%)
Query: 274 PAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPA 333
PA P A P S V PK + P ++ + +
Sbjct: 4 PAATPEIRVNHEPEPAGGATPGATLPKSPSQLRKGPPVPPPPKHT-PSKEVKQEQILSLF 62
Query: 334 PKPRPATAAPAPKPLTNGVTKRPVSATTTASRTSSSSVTSASAAKPAAPRVPLSQRTSAA 393
+ ++ A ++ AA + P V + +
Sbjct: 63 EDTFVPEISVTTPSQPAEASEVAGGTQPAAGAQEPGETAASEAASSSLPAVVVETFPATV 122
Query: 394 KPATKPATAKPSTTSKPTTASK 415
+ + P K
Sbjct: 123 NGTVEGGSGAGRLDLPPGFMFK 144
Score = 29.7 bits (65), Expect = 3.6
Identities = 20/121 (16%), Positives = 26/121 (21%), Gaps = 1/121 (0%)
Query: 228 PAAKPASKPLAKTTTTKTTT-AAKPAISPVKKTATTTAKPAPKPATKPAPKPTTAAPKST 286
PAA P + + T A SP + P PK K
Sbjct: 4 PAATPEIRVNHEPEPAGGATPGATLPKSPSQLRKGPPVPPPPKHTPSKEVKQEQILSLFE 63
Query: 287 TTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPAPK 346
T V P A P A + ++ P T
Sbjct: 64 DTFVPEISVTTPSQPAEASEVAGGTQPAAGAQEPGETAASEAASSSLPAVVVETFPATVN 123
Query: 347 P 347
Sbjct: 124 G 124
Score = 28.5 bits (62), Expect = 6.6
Identities = 18/126 (14%), Positives = 28/126 (22%)
Query: 322 PAAPKKPVAAPAPKPRPATAAPAPKPLTNGVTKRPVSATTTASRTSSSSVTSASAAKPAA 381
PAA + P+P A P + ++ T S V
Sbjct: 4 PAATPEIRVNHEPEPAGGATPGATLPKSPSQLRKGPPVPPPPKHTPSKEVKQEQILSLFE 63
Query: 382 PRVPLSQRTSAAKPATKPATAKPSTTSKPTTASKPATATRPATTTSKPATTTSTDIEDEM 441
+ + + T TA A ++S PA T
Sbjct: 64 DTFVPEISVTTPSQPAEASEVAGGTQPAAGAQEPGETAASEAASSSLPAVVVETFPATVN 123
Query: 442 NQPFTP 447
Sbjct: 124 GTVEGG 129
>3hst_B Protein RV2228C/MT2287; ribonuclease H1, RV2228C N-terminal domain,
fusion protein, maltose binding protein, HYDR; HET: MLR
TAR; 2.25A {Mycobacterium tuberculosis}
Length = 141
Score = 36.1 bits (84), Expect = 0.012
Identities = 20/93 (21%), Positives = 34/93 (36%), Gaps = 14/93 (15%)
Query: 714 TAEVIGIWEALKYSASLKNNEILILTDSKSACQKLSKN--CLNTT--PTHLELEILSSYK 769
AE G+ L + L E +L DSK +++S + +++ + L+S
Sbjct: 48 VAEYRGLIAGLDDAVKLGATEAAVLMDSKLVVEQMSGRWKVKHPDLLKLYVQAQALASQF 107
Query: 770 HLQNTCKTVKLAWIKGHEGIKGNVEVDRLAKYA 802
+ W+ N DRLA A
Sbjct: 108 R------RINYEWVPRAR----NTYADRLANDA 130
>1jl1_A Ribonuclease HI; RNAse HI, protein stability, thermostability,
hydrogen exchange, cooperativity, hydrolase; 1.30A
{Escherichia coli} SCOP: c.55.3.1 PDB: 1f21_A 1jxb_A
1g15_A 1rch_A 1rdd_A 1rnh_A* 2rn2_A 1rda_A 1law_A 1rdb_A
1lav_A 3aa4_A 1rbu_A 1gob_A 1rdc_A 1kvc_A 3aa3_A 3aa2_A
3aa5_X 1rbv_A ...
Length = 155
Score = 35.9 bits (84), Expect = 0.015
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 777 TVKLAWIKGHEGIKGNVEVDRLAKYA 802
+K W+KGH G N D LA+ A
Sbjct: 115 QIKWEWVKGHAGHPENERADELARAA 140
>2zkr_c 60S ribosomal protein L4; protein-RNA complex, 60S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 421
Score = 37.5 bits (86), Expect = 0.016
Identities = 25/152 (16%), Positives = 45/152 (29%)
Query: 279 TTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRP 338
A+ KS P + ++ + AP+ + K P+ +
Sbjct: 269 KAASLKSNYNLPMHKMLNTDLSRILKMPRDPRALRAPRKKIHRRVLKKNPLKNLRIMLKL 328
Query: 339 ATAAPAPKPLTNGVTKRPVSATTTASRTSSSSVTSASAAKPAAPRVPLSQRTSAAKPATK 398
A + T + + + + + PR ++T K K
Sbjct: 329 NPYAKTMRRNTILRQAKNHKLRMDKAAAALEAKSEEKGVPGKKPRRKKGKKTVGVKKPKK 388
Query: 399 PATAKPSTTSKPTTASKPATATRPATTTSKPA 430
P K + +K A K +P T KPA
Sbjct: 389 PVVGKKAAATKKPAADKKPAEKKPTTEEKKPA 420
Score = 34.5 bits (78), Expect = 0.13
Identities = 18/117 (15%), Positives = 28/117 (23%), Gaps = 1/117 (0%)
Query: 226 PGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPAPKPATKPAPKPTTAAPKS 285
P + P +++ K A A +
Sbjct: 305 PRKKIHRRVLKKNPLKNLRIMLKLNPYAKTMRRNTILRQAKNHKLRMDKAAAALEAKSEE 364
Query: 286 TTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVA-APAPKPRPATA 341
K +K + K V + KPAA KKP P + + A
Sbjct: 365 KGVPGKKPRRKKGKKTVGVKKPKKPVVGKKAAATKKPAADKKPAEKKPTTEEKKPAA 421
Score = 32.2 bits (72), Expect = 0.81
Identities = 25/105 (23%), Positives = 30/105 (28%), Gaps = 10/105 (9%)
Query: 189 ASSDLAAKVAGALVVGAAAAGAAVAVKKATAAKKTDKPGPAAKPASKPLAKTTTTKTTTA 248
+ AK + A + + KA AA + K T
Sbjct: 326 LKLNPYAKTMRRNTILRQAKNHKLRMDKAAAALEAKSEEKGVPGKKPRRKKGKKTVG--V 383
Query: 249 AKPAISPVKKTATTTAKPAPKPATKPAPKPTTAAPKSTTTAPKPA 293
KP V K A T KPA A K TT KPA
Sbjct: 384 KKPKKPVVGKKAAATKKPAADK--------KPAEKKPTTEEKKPA 420
>2g5d_A GNA33; hydrolase, beta barrel; 1.95A {Neisseria gonorrhoeae fa
1090} SCOP: b.52.1.4 PDB: 2g6g_A
Length = 422
Score = 37.2 bits (85), Expect = 0.019
Identities = 7/39 (17%), Positives = 13/39 (33%)
Query: 306 TATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPA 344
+ + ++ P+P P +P P P A
Sbjct: 2 SQSRSIQTFPQPDTSVINGPDRPAGIPDPAGTTVAGGGA 40
>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition,
kinase-INH complex, rubredoxin fold, TPR domain,
transferase; HET: AXX; 2.40A {Mycobacterium
tuberculosis}
Length = 681
Score = 37.5 bits (87), Expect = 0.019
Identities = 19/153 (12%), Positives = 30/153 (19%), Gaps = 24/153 (15%)
Query: 252 AISPVKKTATTTAKPAPKPATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTV 311
+ V T +P P+ T
Sbjct: 326 VLREVVAQDTGVPRPGLSTIFSPSRSTFGVDLLVAHTDVYLDGQ---------------- 369
Query: 312 SAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKPLTNGVTKRPVSATTTASRTSSSSV 371
A K A + P A L V +PV + ++
Sbjct: 370 -----VHAEKLTAN--EIVTALSVPLVDPTDVAASVLQATVLSQPVQTLDSLRAARHGAL 422
Query: 372 TSASAAKPAAPRVPLSQRTSAAKPATKPATAKP 404
+ + +PL A A A
Sbjct: 423 DADGVDFSESVELPLM-EVRALLDLGDVAKATR 454
Score = 37.1 bits (86), Expect = 0.024
Identities = 14/136 (10%), Positives = 29/136 (21%), Gaps = 6/136 (4%)
Query: 214 VKKATAAKKTDKPGPAA------KPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPA 267
+++A + A + + T SP + T A
Sbjct: 301 LRRAIDPDPRQRFTTAEEMSAQLTGVLREVVAQDTGVPRPGLSTIFSPSRSTFGVDLLVA 360
Query: 268 PKPATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKK 327
+ P+ P + + +S + AA
Sbjct: 361 HTDVYLDGQVHAEKLTANEIVTALSVPLVDPTDVAASVLQATVLSQPVQTLDSLRAARHG 420
Query: 328 PVAAPAPKPRPATAAP 343
+ A + P
Sbjct: 421 ALDADGVDFSESVELP 436
Score = 34.4 bits (79), Expect = 0.17
Identities = 26/135 (19%), Positives = 41/135 (30%), Gaps = 14/135 (10%)
Query: 314 APKPSAPKPAAPKKPVA---------APAPKPRPATAAPAPKPLTNGVTKRPVSATTTAS 364
K + P P+ R TA LT GV + V+ T
Sbjct: 280 YVDGLPEDDPVLKTYDSYGRLLRRAIDPDPRQRFTTAEEMSAQLT-GVLREVVAQDTGVP 338
Query: 365 RTSSSSVTSASAAKP-AAPRVPLSQRTSAAKPATKPATAKPSTTSKPTT---ASKPATAT 420
R S++ S S + V + + + TA T+ + A +
Sbjct: 339 RPGLSTIFSPSRSTFGVDLLVAHTDVYLDGQVHAEKLTANEIVTALSVPLVDPTDVAASV 398
Query: 421 RPATTTSKPATTTST 435
AT S+P T +
Sbjct: 399 LQATVLSQPVQTLDS 413
Score = 32.1 bits (73), Expect = 0.92
Identities = 12/109 (11%), Positives = 25/109 (22%), Gaps = 6/109 (5%)
Query: 323 AAPKKPVAAPAPKPRPATAA---PAPKPLTNGVTKRPVSATTTASRTSSSSVTSASAAKP 379
++ VA PRP + P+ + + +
Sbjct: 325 GVLREVVAQDTGVPRPGLSTIFSPSRSTFGVDLLVAHTDVYLDGQVHAEKLTANEIVTAL 384
Query: 380 AAPRVPLS---QRTSAAKPATKPATAKPSTTSKPTTASKPATATRPATT 425
+ P V + A ++P S + A +
Sbjct: 385 SVPLVDPTDVAASVLQATVLSQPVQTLDSLRAARHGALDADGVDFSESV 433
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease,
hydrolase, magnesium, metal-binding; 1.60A
{Chlorobaculum tepidum}
Length = 146
Score = 35.5 bits (83), Expect = 0.023
Identities = 9/26 (34%), Positives = 11/26 (42%)
Query: 777 TVKLAWIKGHEGIKGNVEVDRLAKYA 802
V +KGH N D LA+ A
Sbjct: 116 RVTFHKVKGHSDNPYNSRADELARLA 141
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A
{Shewanella oneidensis} PDB: 2zqb_A
Length = 158
Score = 35.2 bits (82), Expect = 0.026
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 777 TVKLAWIKGHEGIKGNVEVDRLAKYA 802
+ W+KGH G N D+LA+ A
Sbjct: 117 QIDWRWVKGHAGHAENERCDQLARAA 142
>2cp6_A Restin; microtubule binding, cytoskeleton associated protein,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
b.34.10.1
Length = 172
Score = 35.4 bits (81), Expect = 0.031
Identities = 15/68 (22%), Positives = 28/68 (41%)
Query: 352 VTKRPVSATTTASRTSSSSVTSASAAKPAAPRVPLSQRTSAAKPATKPATAKPSTTSKPT 411
VTK +TT A +++ + + R P + S+ +++PS T T
Sbjct: 105 VTKIGFPSTTPAKAKANAVRRVMATTSASLKRSPSASSLSSMSSVASSVSSRPSRTGLLT 164
Query: 412 TASKPATA 419
S P++
Sbjct: 165 ETSGPSSG 172
Score = 30.1 bits (67), Expect = 1.7
Identities = 21/80 (26%), Positives = 28/80 (35%), Gaps = 1/80 (1%)
Query: 324 APKKPVAAPAPKPRPATAAPAPKPLTNGVTKRPVSATTTASRTSSSSVTSASAAKPAAPR 383
PK + AP K R V ATT+AS S S +S S+ A
Sbjct: 93 QPKYGLFAPVHKVTKIGFPSTTPAKAKANAVRRVMATTSASLKRSPSASSLSSMSSVASS 152
Query: 384 VPLSQ-RTSAAKPATKPATA 402
V RT + P++
Sbjct: 153 VSSRPSRTGLLTETSGPSSG 172
Score = 29.7 bits (66), Expect = 2.8
Identities = 8/62 (12%), Positives = 25/62 (40%)
Query: 363 ASRTSSSSVTSASAAKPAAPRVPLSQRTSAAKPATKPATAKPSTTSKPTTASKPATATRP 422
T+ + + + + A +R+ +A + ++ S +S+P+ + P
Sbjct: 110 FPSTTPAKAKANAVRRVMATTSASLKRSPSASSLSSMSSVASSVSSRPSRTGLLTETSGP 169
Query: 423 AT 424
++
Sbjct: 170 SS 171
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus
thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A
Length = 166
Score = 34.9 bits (81), Expect = 0.044
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 777 TVKLAWIKGHEGIKGNVEVDRLAKYA 802
V+ ++KGH G N VDR A+
Sbjct: 120 RVRFHFVKGHTGHPENERVDREARRQ 145
>2uv9_A Fatty acid synthase alpha subunits; fungal, dehydratase, enoyl
reductase, ketoacyl synthase, ketoacyl reductase; 3.1A
{Thermomyces lanuginosus} PDB: 2uvb_A*
Length = 1878
Score = 36.1 bits (83), Expect = 0.058
Identities = 16/57 (28%), Positives = 20/57 (35%)
Query: 304 TKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKPLTNGVTKRPVSAT 360
+ P ++ AAP AAPA APA V PV+AT
Sbjct: 92 VEPIEDEPEPTPAAASSADAAPAAAPAAPAAPAAAPAPAPASAGPAAPVQDAPVTAT 148
Score = 31.8 bits (72), Expect = 1.0
Identities = 19/48 (39%), Positives = 22/48 (45%), Gaps = 1/48 (2%)
Query: 298 PVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPAP 345
P+ T + SA P+A PAAP P AAPAP P A A
Sbjct: 94 PIEDEPEPTPAAASSADAAPAAA-PAAPAAPAAAPAPAPASAGPAAPV 140
Score = 31.4 bits (71), Expect = 1.6
Identities = 22/83 (26%), Positives = 30/83 (36%), Gaps = 6/83 (7%)
Query: 173 VIPQEAQTVESAEESTASSDLAAKVAGALVVGAAAAGAAVAVKKATAAKKTDKPGPAAKP 232
I + + +E E T ++ +A A AAA AA A A A GPAA
Sbjct: 87 EIYYDVEPIEDEPEPTPAAASSADAA------PAAAPAAPAAPAAAPAPAPASAGPAAPV 140
Query: 233 ASKPLAKTTTTKTTTAAKPAISP 255
P+ T + A K
Sbjct: 141 QDAPVTATDVIRALVAQKLKKEL 163
Score = 30.7 bits (69), Expect = 2.6
Identities = 15/76 (19%), Positives = 24/76 (31%), Gaps = 2/76 (2%)
Query: 315 PKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKPLTNGVTKRPVSATTTASRTSSSSVTS- 373
+ A A A AAPA P + P + A T++ + +
Sbjct: 95 IEDEPEPTPAAASSADAAPAAAPAAPAAPAAAPAPAPASAGPAAPVQDAPVTATDVIRAL 154
Query: 374 -ASAAKPAAPRVPLSQ 388
A K +P S+
Sbjct: 155 VAQKLKKELTEIPPSK 170
>2uv8_A Fatty acid synthase subunit alpha (FAS2); fatty acid biosynthesis,
malonyl/palmitoyl transferase, phosphopantetheine,
transferase; HET: GVL FMN; 3.10A {Saccharomyces
cerevisiae} PDB: 2vkz_A* 3hmj_A*
Length = 1887
Score = 35.7 bits (82), Expect = 0.079
Identities = 16/74 (21%), Positives = 24/74 (32%), Gaps = 1/74 (1%)
Query: 286 TTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKP-AAPKKPVAAPAPKPRPATAAPA 344
T + A +P + + AP +AP P AA AA P A+
Sbjct: 91 TPDPSELAAKEEPAKEEAPAPTPAASAPAPAAAAPAPVAAAAPAAAAAEIADEPVKASLL 150
Query: 345 PKPLTNGVTKRPVS 358
L K+ +
Sbjct: 151 LHVLVAHKLKKSLD 164
Score = 33.4 bits (76), Expect = 0.39
Identities = 12/55 (21%), Positives = 15/55 (27%)
Query: 306 TATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKPLTNGVTKRPVSAT 360
+ P P APA AA AP + PV A+
Sbjct: 94 PSELAAKEEPAKEEAPAPTPAASAPAPAAAAPAPVAAAAPAAAAAEIADEPVKAS 148
Score = 29.2 bits (65), Expect = 7.8
Identities = 9/40 (22%), Positives = 11/40 (27%)
Query: 255 PVKKTATTTAKPAPKPATKPAPKPTTAAPKSTTTAPKPAP 294
P + A PA PA A + AP
Sbjct: 94 PSELAAKEEPAKEEAPAPTPAASAPAPAAAAPAPVAAAAP 133
>1eys_C Photosynthetic reaction center; membrane protein complex, electron
transport; HET: BGL BCL BPH MQ8 HEM CRT LDA PEF; 2.20A
{Thermochromatium tepidum} SCOP: a.138.1.2
Length = 382
Score = 35.2 bits (80), Expect = 0.079
Identities = 21/83 (25%), Positives = 25/83 (30%), Gaps = 12/83 (14%)
Query: 254 SPVKKTATTTAKPAPKPATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSA 313
K T A P PA++ AP T A PA P A A
Sbjct: 307 GLYKTAVTQEALPGSAPASEAAPAAATEAAPEAPAQEVPAAEAVPAA------------A 354
Query: 314 APKPSAPKPAAPKKPVAAPAPKP 336
P + + PV AP P
Sbjct: 355 EPGAAEAAGSVEPAPVEEVAPAP 377
Score = 33.7 bits (76), Expect = 0.24
Identities = 18/81 (22%), Positives = 25/81 (30%), Gaps = 2/81 (2%)
Query: 270 PATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPV 329
K P A + P AP + + T+ A + + PAA +
Sbjct: 300 QMAKDYPGLYKTAV-TQEALPGSAPASEAAPAAATEAAPEAPAQEVPAAEAVPAAAEPGA 358
Query: 330 AAPAPKPRPA-TAAPAPKPLT 349
A A PA AP P
Sbjct: 359 AEAAGSVEPAPVEEVAPAPAA 379
Score = 33.3 bits (75), Expect = 0.32
Identities = 19/94 (20%), Positives = 25/94 (26%), Gaps = 4/94 (4%)
Query: 233 ASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPAPKPATKPAPKPTTAAPKSTTTAPKP 292
+KPL K + + PA P A + P
Sbjct: 292 VNKPLYGAQMAKDYPGLYKTAVTQEALPGSAPASEAAPAAATEAAPEAPAQEVPAAEAVP 351
Query: 293 APVRKPVASTITKTATSTVSAAPKPSAPKPAAPK 326
A A A S A + AP PAA +
Sbjct: 352 AAAEPGAAE----AAGSVEPAPVEEVAPAPAAQR 381
Score = 32.9 bits (74), Expect = 0.39
Identities = 15/69 (21%), Positives = 20/69 (28%)
Query: 222 KTDKPGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPAPKPATKPAPKPTTA 281
A P S P ++ T AA A + A A A + A A
Sbjct: 309 YKTAVTQEALPGSAPASEAAPAAATEAAPEAPAQEVPAAEAVPAAAEPGAAEAAGSVEPA 368
Query: 282 APKSTTTAP 290
+ AP
Sbjct: 369 PVEEVAPAP 377
Score = 32.2 bits (72), Expect = 0.66
Identities = 14/75 (18%), Positives = 22/75 (29%), Gaps = 1/75 (1%)
Query: 232 PASKPLAKTTTTKTTTAAKPAISP-VKKTATTTAKPAPKPATKPAPKPTTAAPKSTTTAP 290
P A T +A +P A A PA + P +
Sbjct: 306 PGLYKTAVTQEALPGSAPASEAAPAAATEAAPEAPAQEVPAAEAVPAAAEPGAAEAAGSV 365
Query: 291 KPAPVRKPVASTITK 305
+PAPV + + +
Sbjct: 366 EPAPVEEVAPAPAAQ 380
Score = 31.4 bits (70), Expect = 1.1
Identities = 10/73 (13%), Positives = 16/73 (21%)
Query: 224 DKPGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPAPKPATKPAPKPTTAAP 283
K + + +P ++ A PA +
Sbjct: 309 YKTAVTQEALPGSAPASEAAPAAATEAAPEAPAQEVPAAEAVPAAAEPGAAEAAGSVEPA 368
Query: 284 KSTTTAPKPAPVR 296
AP PA R
Sbjct: 369 PVEEVAPAPAAQR 381
Score = 30.6 bits (68), Expect = 2.2
Identities = 17/69 (24%), Positives = 23/69 (33%)
Query: 208 AGAAVAVKKATAAKKTDKPGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPA 267
AV + + + PAA + P A A A P A + +PA
Sbjct: 309 YKTAVTQEALPGSAPASEAAPAAATEAAPEAPAQEVPAAEAVPAAAEPGAAEAAGSVEPA 368
Query: 268 PKPATKPAP 276
P PAP
Sbjct: 369 PVEEVAPAP 377
>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 = 34.4 bits (78), Expect = 0.10
Identities = 15/87 (17%), Positives = 24/87 (27%)
Query: 270 PATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPV 329
+P P PT P P R +AS I + T+ + + +P
Sbjct: 9 LGRRPFPAPTAMWRPRRRRQAAPMPARNGLASQIQQLTTAVSALVIGQATRPQNPRPRPP 68
Query: 330 AAPAPKPRPATAAPAPKPLTNGVTKRP 356
+ P K+P
Sbjct: 69 PRQKKQAPKQPPKPKKPKPQEKKKKQP 95
Score = 32.5 bits (73), Expect = 0.50
Identities = 11/82 (13%), Positives = 20/82 (24%)
Query: 265 KPAPKPATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAA 324
+P P P P+ A + +++ + P P
Sbjct: 12 RPFPAPTAMWRPRRRRQAAPMPARNGLASQIQQLTTAVSALVIGQATRPQNPRPRPPPRQ 71
Query: 325 PKKPVAAPAPKPRPATAAPAPK 346
K+ P +P K
Sbjct: 72 KKQAPKQPPKPKKPKPQEKKKK 93
Score = 30.9 bits (69), Expect = 1.3
Identities = 21/108 (19%), Positives = 28/108 (25%), Gaps = 6/108 (5%)
Query: 219 AAKKTDKPGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPAPKPATKPAPKP 278
A + A P + + T A A+ A P +P P+
Sbjct: 18 TAMWRPRRRRQAAPMPARNGLASQIQQLTTAVSAL------VIGQATRPQNPRPRPPPRQ 71
Query: 279 TTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPK 326
APK KP P K A K A + K
Sbjct: 72 KKQAPKQPPKPKKPKPQEKKKKQPAKTKPGKRQRMALKLEADRLFDVK 119
Score = 29.4 bits (65), Expect = 3.9
Identities = 21/84 (25%), Positives = 32/84 (38%), Gaps = 2/84 (2%)
Query: 266 PAPKPATKPAPKPTTA-APKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSA-PKPA 323
PAP +P + A P A + + V++ + AT + P+P K
Sbjct: 15 PAPTAMWRPRRRRQAAPMPARNGLASQIQQLTTAVSALVIGQATRPQNPRPRPPPRQKKQ 74
Query: 324 APKKPVAAPAPKPRPATAAPAPKP 347
APK+P PKP+ K
Sbjct: 75 APKQPPKPKKPKPQEKKKKQPAKT 98
Score = 29.0 bits (64), Expect = 5.3
Identities = 25/135 (18%), Positives = 40/135 (29%), Gaps = 24/135 (17%)
Query: 320 PKPAAPKKPVAAPAPKPRPATAAPAPKPLTNGVTKRPVSATTTASRTSSSSVTSASAAKP 379
P P A +P P PA A + T+ S++ A +P
Sbjct: 15 PAPTAMWRPRRRRQAAPMPARNGLASQI--------------QQLTTAVSALVIGQATRP 60
Query: 380 AAPRVPLSQRTSAAKPATKPATAKPSTTSKPTTASKPATATRPATTTSKPATTTSTDIED 439
PR R P P KP KP + +KP ++
Sbjct: 61 QNPRPRPPPRQKKQAPKQPPKPKKP----------KPQEKKKKQPAKTKPGKRQRMALKL 110
Query: 440 EMNQPFTPEELEAAI 454
E ++ F + + +
Sbjct: 111 EADRLFDVKNEDGDV 125
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded
RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus
tokodaii} PDB: 3aly_A
Length = 149
Score = 32.7 bits (75), Expect = 0.20
Identities = 23/137 (16%), Positives = 43/137 (31%), Gaps = 21/137 (15%)
Query: 678 IYTD-ASKKN--EKVGAAWFCPTYKSKACFKLHPATSTY-------TAEVIGIWEALKYS 727
Y D + + F ++ A + AE G+ ++
Sbjct: 4 GYFDGLCEPKNPGGIATFGFVIYLDNRKIEGYGLAEKPFSINSTNNVAEYSGLICLMETM 63
Query: 728 ASLKNNEILILTDSKSACQKLSKN--CLNTTPTHLELEILSSYKHLQNTCKTVKLAWIKG 785
L + +I DS+ ++++ L + + K L L W+
Sbjct: 64 LRLGISSPIIKGDSQLVIKQMNGEYKVKAKRIIPLYEKAIELKKKLN-----ATLIWVPR 118
Query: 786 HEGIKGNVEVDRLAKYA 802
E N E DRL++ A
Sbjct: 119 EE----NKEADRLSRVA 131
>3mc9_A ALR2269 protein; polypeptide transport associated, potra, outer
bacterial MEM protein membrane transport, beta barrel
biogenesis, membran; 2.20A {Nostoc SP} PDB: 3mc8_A
Length = 316
Score = 33.6 bits (76), Expect = 0.26
Identities = 17/92 (18%), Positives = 29/92 (31%), Gaps = 1/92 (1%)
Query: 374 ASAAKPAAPRVPLSQRTSAAKPATKPATAKPSTTSKPTTASKPATATRPATTTSKPATTT 433
+ A A V ++ + P T +P+ P T P T
Sbjct: 3 ETRATTAKQLVQAPEQPAPQPEVAPPTTEQPAPAPAPGTTPGTENFNTPNATPETTEPRV 62
Query: 434 S-TDIEDEMNQPFTPEELEAAIKSGLITTPGR 464
+++ ELE + + + T PGR
Sbjct: 63 LVSEVLVRPQSGQLTPELETQVYNVIRTQPGR 94
>2z73_A Rhodopsin; visual pigment, GQ-type, G-protein coupled receptor,
chromophore, glycoprotein, lipoprotein, membrane,
palmitate phosphorylation; HET: BOG RET PLM TWT PC1;
2.50A {Todarodes pacificus} PDB: 3aym_A* 3ayn_A* 2ziy_A*
Length = 448
Score = 33.7 bits (77), Expect = 0.28
Identities = 18/105 (17%), Positives = 26/105 (24%), Gaps = 8/105 (7%)
Query: 244 KTTTAAKPAISPVKKTATTTAKPAPKPATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTI 303
K T K A + + ++ A P+ A + A P P
Sbjct: 342 KETEDDKDAETEIPAGESSDAAPSADAAQMKEMMAMMQKMQQQQAAYPPQGYAPPPQGYP 401
Query: 304 TKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKPL 348
+ P P P P+ P AP P
Sbjct: 402 PQG--------YPPQGYPPQGYPPQGYPPPPQGAPPQGAPPAAPP 438
Score = 33.4 bits (76), Expect = 0.32
Identities = 17/105 (16%), Positives = 25/105 (23%), Gaps = 1/105 (0%)
Query: 225 KPGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPAPKPATKPAPKPTTAAPK 284
+ K ++ A P+ + + P A P
Sbjct: 338 QFDDKETEDDKDAETEIPAGESSDAAPSADAAQMKEMMAMMQKMQQQQAAYPPQGYAPPP 397
Query: 285 STTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPV 329
P P + AP AP PAAP + V
Sbjct: 398 QGYPPQGYPPQGYPPQGYPPQGYPPPPQGAPPQGAP-PAAPPQGV 441
>3pgw_B SM B; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM, splici
SNRNPS, splicing factors; HET: DNA; 4.40A {Homo sapiens}
PDB: 3cw1_A
Length = 231
Score = 32.7 bits (74), Expect = 0.36
Identities = 15/116 (12%), Positives = 24/116 (20%), Gaps = 3/116 (2%)
Query: 232 PASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPAPKPATKPAPKPTTAAPKSTTTAPK 291
P T + A + + A + P P A P P
Sbjct: 82 VEGPPPKDTGIARVPLAGAAGGPGIGRAA---GRGIPAGVPMPQAPAGLAGPVRGVGGPS 138
Query: 292 PAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKP 347
+ T+ A + ++ P P P P
Sbjct: 139 QQVMTPQGRGTVAAAAAAATASIAGAPTQYPPGRGGPPPPMGRGAPPPGMMGPPPG 194
Score = 30.4 bits (68), Expect = 2.0
Identities = 20/107 (18%), Positives = 29/107 (27%), Gaps = 3/107 (2%)
Query: 245 TTTAAKPAISPVKKTATTTAKPAPKPATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTIT 304
+ T P A A P A P PA + PV +
Sbjct: 79 SMTVEGPPPKDTGIARVPLAGAAGGPGIGRAAGR--GIPAGVPMPQAPAGLAGPV-RGVG 135
Query: 305 KTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKPLTNG 351
+ ++ + + AA A AP P P P+ G
Sbjct: 136 GPSQQVMTPQGRGTVAAAAAAATASIAGAPTQYPPGRGGPPPPMGRG 182
>3lvh_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 9.00A {Bos
taurus}
Length = 205
Score = 32.2 bits (72), Expect = 0.50
Identities = 14/114 (12%), Positives = 34/114 (29%), Gaps = 10/114 (8%)
Query: 78 DDFTSQE----TKLDDFISAHTEKTPEVSEPKEEVLDDLVSVPTSVPDVVPNQDANEESP 133
F +Q+ +++ + + + + Q+AN +
Sbjct: 25 AAFLAQQESEIAGIENDEGFGAPAGSQGGLAQPGPASGASEDMGATVNGDVFQEANGPAD 84
Query: 134 SPAVDLTQDIV-EEKEAVVTPTDETNSETAEKETPLSEVPVIPQEAQTVESAEE 186
A D + +E E++ +E E + E + E A++
Sbjct: 85 GYAAIAQADRLTQEPESIRKWREEQRKRLQELDAASKV-----MEQEWREKAKK 133
>3lso_A Putative membrane anchored protein; MCSG, PSI-2, structural genomic
protein structure initiative; HET: MLZ; 2.75A
{Corynebacterium diphtheriae} PDB: 3lso_B*
Length = 489
Score = 32.9 bits (73), Expect = 0.53
Identities = 40/312 (12%), Positives = 74/312 (23%), Gaps = 2/312 (0%)
Query: 150 VVTPTDETNSETAEKETPLSEVPVIPQEAQTVESAEESTASSDLAAKVAGALVVGAAAAG 209
P + + ++ V ++A+ + +S + L
Sbjct: 53 FEMPESVKAGTGFDALIKIKDISVSNDNLSGYKNAKLTKSSIRINVGKNVKLDGNQPGLS 112
Query: 210 AAVAVKKATAAKKTDKPGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPAPK 269
+ V K G + + ++ P+ T + T P K T TA
Sbjct: 113 LSNGVLSINDHLKASLEGNSLRISAAPI--TVRLQALTEGTLTFIPEKTILTNTASVDGY 170
Query: 270 PATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPV 329
A + P S K + P+ K +
Sbjct: 171 TANTTCTTNADKPFATVKVDPADGLTITAPESASIKQDVQITATVPEKLNEKMDGKVQFF 230
Query: 330 AAPAPKPRPATAAPAPKPLTNGVTKRPVSATTTASRTSSSSVTSASAAKPAAPRVPLSQR 389
P T+ + S T TA + A + P V
Sbjct: 231 VNHIAAGDPVPVTEDNXASTSIIFDTSGSKTITARFIDAEGYNPAPDGETIIPVVTELDT 290
Query: 390 TSAAKPATKPATAKPSTTSKPTTASKPATATRPATTTSKPATTTSTDIEDEMNQPFTPEE 449
+ S TS A + + P E +N P +
Sbjct: 291 KKPEDTDSYTGLINGSATSLLKPAKVMPGEKVSVSASLLPNKAPIRVYEIGINAPEDVKY 350
Query: 450 LEAAIKSGLITT 461
++ K+ +
Sbjct: 351 IDGTGKTNYSSK 362
>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC
repeat; 2.70A {Saccharomyces cerevisiae}
Length = 963
Score = 31.7 bits (71), Expect = 1.1
Identities = 22/175 (12%), Positives = 40/175 (22%), Gaps = 6/175 (3%)
Query: 279 TTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRP 338
A + + P+ TA + +A K A K K P K
Sbjct: 785 NCYAKEDAFSYPRMYEEASGKEVEKVATAVLSTTARAKARAKKTKKEKGPNEEEKKKEHE 844
Query: 339 ATAAPAPKPLTNGVTKRPVSATTTASRTSSSSVTSASAAK--PAAPRV---PLSQRTSAA 393
+ ++ SS + + P R R
Sbjct: 845 EKEKERETNKKGIKETKENDEEFYKNKYSSKPYKVDNMTRILPQQSRYISFIKDDRFVPV 904
Query: 394 KPATKPATAKPSTTSKPTTASKPATATRPATTTSKPATTTSTDIEDEMNQPFTPE 448
+ +P R + P T ++D ++ P +
Sbjct: 905 RKFKGNNGVVVLRDREPKEPVALIETVRQMKDVNAPLPTPFK-VDDNVDFPSALQ 958
Score = 31.3 bits (70), Expect = 1.8
Identities = 19/78 (24%), Positives = 27/78 (34%)
Query: 375 SAAKPAAPRVPLSQRTSAAKPATKPATAKPSTTSKPTTASKPATATRPATTTSKPATTTS 434
AK A P ++ K K ATA STT++ +K + K
Sbjct: 786 CYAKEDAFSYPRMYEEASGKEVEKVATAVLSTTARAKARAKKTKKEKGPNEEEKKKEHEE 845
Query: 435 TDIEDEMNQPFTPEELEA 452
+ E E N+ E E
Sbjct: 846 KEKERETNKKGIKETKEN 863
>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription,
multi-protein complex, DNA- binding, magnesium; 3.65A
{Schizosaccharomyces pombe}
Length = 1752
Score = 32.0 bits (72), Expect = 1.2
Identities = 47/198 (23%), Positives = 84/198 (42%), Gaps = 26/198 (13%)
Query: 246 TTAAKPAISPVKKTATTTAKPA-PKPATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTIT 304
T+ A+SP + + P+ P +T PA P++ P + T+P +P T
Sbjct: 1540 TSPFSSAMSPGYGLTSPSYSPSSPGYSTSPAYMPSS--PSYSPTSPSYSP---------T 1588
Query: 305 KTATSTVSAAPKPSAPKPAA------PKKPVAAPA-PKPRPATAAPAPKPLTNGVTKRPV 357
+ S S + P++P +A P P +P P P + + +P + T
Sbjct: 1589 SPSYSPTSPSYSPTSPSYSATSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSY 1648
Query: 358 SATTTA-SRTSSSSVTSASAAKPAAPRV----PLSQRTSAAKPATKPATAKPSTTSKPTT 412
S T+ + S TS S ++ + P +P P TS + T P+ + S + PT+
Sbjct: 1649 SPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTS 1708
Query: 413 ASKPATATRPATTTSKPA 430
S T+ P+ + + P+
Sbjct: 1709 PSYSPTS--PSYSPTSPS 1724
>2p7n_A Pathogenicity island 1 effector protein; CVR69, structural
genomics, PSI-2, protein structure initiative; 2.80A
{Chromobacterium violaceum}
Length = 407
Score = 31.3 bits (69), Expect = 1.3
Identities = 29/152 (19%), Positives = 42/152 (27%), Gaps = 3/152 (1%)
Query: 303 ITKTATSTVSAAPKPSAPKPAAPKKPV-AAPAPKPRPATAAPAPKPLTNGVTKRPVSATT 361
+T+ AA P + P A AAP PA AA K G R V A+
Sbjct: 12 LTRPQALETQAAA-PQSDAPDASAGQTRAAPQGSAAPALAAARAKADELGQAAREVRASV 70
Query: 362 TASRTSSSSVTSASAAKPAAPRVPLSQRTSAAKPATKPATAKPSTTSKPTTASKPATATR 421
+ + + +A + P Q A A T S +
Sbjct: 71 ERQTAYETRLAAQRSAAAFSGGEP-PQARREAPGAELDEARNAQTVSARLFEGNLKGVAQ 129
Query: 422 PATTTSKPATTTSTDIEDEMNQPFTPEELEAA 453
S D++ P+ A
Sbjct: 130 SGHAMSAEQKQALQSGLDDVFADAPPQARSAG 161
>2oqx_A Tryptophanase; lyase, pyridoxal phosphate, tryptophan catabolism;
HET: CME EPE; 1.90A {Escherichia coli} SCOP: c.67.1.2
PDB: 2c44_A 2v1p_A* 2v0y_A*
Length = 467
Score = 31.5 bits (71), Expect = 1.4
Identities = 14/67 (20%), Positives = 21/67 (31%), Gaps = 16/67 (23%)
Query: 435 TDIEDEMNQPFTPEELEAAIKSGLITTPGRDNIHYPMIENLPDCNK---------YLNIM 485
T + + F E LE I+ G +N+ Y + N L M
Sbjct: 157 TGVRYDFKGNFDLEGLERGIEE-----VGPNNVPYIVATIT--SNSAGGQPVSLANLKAM 209
Query: 486 KMICNKH 492
I K+
Sbjct: 210 YSIAKKY 216
>3pro_C Alpha-lytic protease; Pro region, foldase, protein folding, serine
protease; HET: 2AB; 1.80A {Lysobacter enzymogenes} SCOP:
d.52.1.1 d.52.1.1 PDB: 2pro_A* 4pro_C
Length = 166
Score = 30.4 bits (68), Expect = 1.4
Identities = 8/91 (8%), Positives = 25/91 (27%)
Query: 177 EAQTVESAEESTASSDLAAKVAGALVVGAAAAGAAVAVKKATAAKKTDKPGPAAKPASKP 236
+ + + + + + A+ AG+ + + + A K + G +
Sbjct: 28 QTEKLARTQAAAIEREFGAQFAGSWIERNEDGSFKLVAATSGARKSSTLGGVEVRNVRYS 87
Query: 237 LAKTTTTKTTTAAKPAISPVKKTATTTAKPA 267
L + + A + +
Sbjct: 88 LKQLQSAMEQLDAGANARVKGVSKPLDGVQS 118
>1ja9_A 4HNR, 1,3,6,8-tetrahydroxynaphthalene reductase;
protein-NADPH-active site inhibitor complex,
oxidoreductase, chain dehydrogenase; HET: NDP PYQ; 1.50A
{Magnaporthe grisea} SCOP: c.2.1.2
Length = 274
Score = 31.0 bits (71), Expect = 1.5
Identities = 18/61 (29%), Positives = 25/61 (40%), Gaps = 17/61 (27%)
Query: 178 AQTVESAEESTASSDLAAKVAGALVVGA------------AAAGAAVAV---KKATAAKK 222
+ + S+ S AS LA KVA L GA GA+V V + AA++
Sbjct: 4 SADITSSGPSDASKPLAGKVA--LTTGAGRGIGRGIAIELGRRGASVVVNYGSSSKAAEE 61
Query: 223 T 223
Sbjct: 62 V 62
>2xep_A ORF12; hydrolase; 1.50A {Streptomyces clavuligerus} PDB: 2xf3_A*
2xfs_A* 2xft_A 2xgn_A 2xh9_A*
Length = 458
Score = 31.4 bits (70), Expect = 1.5
Identities = 18/140 (12%), Positives = 33/140 (23%), Gaps = 10/140 (7%)
Query: 314 APKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKPLTNGVTKRPVSATTTASRTS------ 367
S P PA A + + A+R
Sbjct: 3 KKADSVPTPAEAALAAQTALAADDSPMGDAARWAMGLLTSSGLPRPEDVAARFIPTFAAA 62
Query: 368 ---SSSVTSASAAKPAAPRVPLSQRTSAAKPATKPATAKPSTTSKPTTASKPATATRPAT 424
+ +V + P R + PA + + ++
Sbjct: 63 GNFAETVREWRSKGPFTVRAYHPVAHKGWVVLSAPAGVRYILSLTLDSSGL-IRILTLKP 121
Query: 425 TTSKPATTTSTDIEDEMNQP 444
T P T D+E+ ++ P
Sbjct: 122 ETVIPDMVTWNDVEETLHTP 141
Score = 31.0 bits (69), Expect = 2.0
Identities = 12/100 (12%), Positives = 27/100 (27%), Gaps = 5/100 (5%)
Query: 336 PRPATAAPAPKPLTNGVTKRPVSATTTASRTSSSSVTSASAAKPAAPRVPLSQRTSAAKP 395
+ A + P P + + + ++ +++ P + +A
Sbjct: 2 MKKADSVPTPAEAALAAQTALAADDSPMGDAARWAMGLLTSSGLPRP-----EDVAARFI 56
Query: 396 ATKPATAKPSTTSKPTTASKPATATRPATTTSKPATTTST 435
T A + T + + P T K S
Sbjct: 57 PTFAAAGNFAETVREWRSKGPFTVRAYHPVAHKGWVVLSA 96
>3nqu_A Histone H3-like centromeric protein A; alpha helix, histone fold,
centromere, DNA binding protein; 2.50A {Homo sapiens}
PDB: 3an2_A
Length = 140
Score = 29.9 bits (66), Expect = 1.7
Identities = 10/52 (19%), Positives = 20/52 (38%), Gaps = 4/52 (7%)
Query: 314 APKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKPLTNGVTKRPVSATTTASR 365
P+ + KP AP++ +P P P P+ P+ + + +
Sbjct: 2 GPRRRSRKPEAPRRRSPSPTPTPGPSRRGPS----LGASSHQHSRRRQGWLK 49
>3is3_A 17BETA-hydroxysteroid dehydrogenase; short chain dehydrogenase/REDU
SDR, fungi, oxidoreductase; HET: GOL; 1.48A
{Cochliobolus lunatus} PDB: 3qwf_A* 3qwh_A* 3qwi_A*
3itd_A
Length = 270
Score = 30.6 bits (70), Expect = 2.0
Identities = 17/58 (29%), Positives = 21/58 (36%), Gaps = 17/58 (29%)
Query: 181 VESAEESTASSDLAAKVAGALVVGA------------AAAGAAVAV---KKATAAKKT 223
VE+A E+ L KVA LV G+ GA V V A+K
Sbjct: 4 VENASETYIPGRLDGKVA--LVTGSGRGIGAAVAVHLGRLGAKVVVNYANSTKDAEKV 59
>1w7p_D VPS36P, YLR417W; ESCRT-II complex, endosomal protein sorting,
protein transpo; 3.60A {Saccharomyces cerevisiae} SCOP:
a.4.5.54 a.4.5.54
Length = 566
Score = 30.8 bits (68), Expect = 2.1
Identities = 17/220 (7%), Positives = 47/220 (21%), Gaps = 4/220 (1%)
Query: 216 KATAAKKTDKPGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPAPKPATKPA 275
+ K +++ + + + + T P P
Sbjct: 89 RLILFFKDPSSKDELGKSAETASADVVSTWVCPICMVSNETQGEFTKDTLPTPICINCGV 148
Query: 276 PKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPK 335
P S + P A+ + ++ + P +
Sbjct: 149 PADYELTKSSINC----SNAIDPNANPQNQFGVNSENICPACTFANHPQIGNCEICGHRL 204
Query: 336 PRPATAAPAPKPLTNGVTKRPVSATTTASRTSSSSVTSASAAKPAAPRVPLSQRTSAAKP 395
P + L ++ + + + SS ++ S++ Q +
Sbjct: 205 PNASKVRSKLNRLNFHDSRVHIELEKNSLARNKSSHSALSSSSSTGSSTEFVQLSFRKSD 264
Query: 396 ATKPATAKPSTTSKPTTASKPATATRPATTTSKPATTTST 435
+ A T + + +
Sbjct: 265 GVLFSQATERALENILTEKNKHIFNQNVVSVNGVDMRKGA 304
>3qlb_A FETA, enantio-pyochelin receptor; membrane protein, transport,
ferri-enantiopyochelin, outer M metal transport; HET:
CIT EFE; 3.26A {Pseudomonas fluorescens}
Length = 748
Score = 30.4 bits (69), Expect = 2.9
Identities = 18/104 (17%), Positives = 32/104 (30%), Gaps = 11/104 (10%)
Query: 209 GAAVAVKKATAAKK---TDKPGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAK 265
G+ VA + + +P P + + + T A A++
Sbjct: 2 GSRVAHRNTSGCPVNCVVSRPALGRNPLACLIHGLALGLSLTQAGAALA-------ADGD 54
Query: 266 PAPKPATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATS 309
A +A + T P+ V K + + TKT S
Sbjct: 55 TDQDHALTLDTSVISATQPDSATGPQAGYVAK-RSLSGTKTDAS 97
>3pgb_A Putative uncharacterized protein; oxidoreductase, copper amine
oxidase, CAO, topaquinone, TPQ; HET: TPQ NAG BMA MAN;
2.45A {Emericella nidulans}
Length = 797
Score = 30.3 bits (67), Expect = 3.1
Identities = 13/71 (18%), Positives = 22/71 (30%), Gaps = 11/71 (15%)
Query: 271 ATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPK---K 327
ATK P + RK ++ + ++ +P + A+P
Sbjct: 5 ATKLDPSRDLVRQ--------KSRGRKNQMRSLVGRSNQHITHQSRPYTNEYASPCQITP 56
Query: 328 PVAAPAPKPRP 338
P APK
Sbjct: 57 PQEIKAPKENV 67
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 30.2 bits (68), Expect = 3.2
Identities = 18/78 (23%), Positives = 23/78 (29%), Gaps = 13/78 (16%)
Query: 356 PVSATTTASRTSSSSVTSAS------AAKPA------APRVPLSQRTSAAKPATKPATAK 403
P+ A TS SV A+ + S K AT +
Sbjct: 1098 PIKTPVGACATSVESVDIGVETILSGKARICIVGGYDDFQEEGSFEFGNMK-ATSNTLEE 1156
Query: 404 PSTTSKPTTASKPATATR 421
P S+PAT TR
Sbjct: 1157 FEHGRTPAEMSRPATTTR 1174
>1o6o_D Nucleoporin NSP1; nuclear transport, nuclear trafficking, transport
factor, repeat, protein transport; 2.80A {Saccharomyces
cerevisiae}
Length = 119
Score = 28.4 bits (62), Expect = 4.2
Identities = 21/112 (18%), Positives = 31/112 (27%), Gaps = 1/112 (0%)
Query: 217 ATAAKKTDKPGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPAPKPATKPAP 276
++ K ++KPA AK K +KPA S K K A
Sbjct: 3 SSTKSNEKKDSGSSKPAFSFGAKPDEKKNDEVSKPAFSFGAKANEKKESDESKSAFSFGS 62
Query: 277 KPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKP 328
KPT + KP + T+ + + K
Sbjct: 63 KPTGKEEGDGAK-AAISFGAKPEEQKSSDTSKPAFTFGAQKDNEKKTEESST 113
>1p6q_A CHEY2; chemotaxis, signal transduction, response regulator,
structural proteomics in europe, spine, structural
genomics; NMR {Sinorhizobium meliloti} SCOP: c.23.1.1
PDB: 1p6u_A
Length = 129
Score = 28.2 bits (64), Expect = 5.0
Identities = 7/15 (46%), Positives = 12/15 (80%)
Query: 444 PFTPEELEAAIKSGL 458
PFT E+++AAI++
Sbjct: 111 PFTIEKMKAAIEAVF 125
>1zvo_C Myeloma immunoglobulin D delta; immunoglobulin fold, antibody,
immune system; NMR {Homo sapiens}
Length = 512
Score = 29.6 bits (66), Expect = 5.3
Identities = 12/110 (10%), Positives = 24/110 (21%), Gaps = 4/110 (3%)
Query: 263 TAKPAPKPATKPAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKP 322
P+ A TA P++ + K +T + K +
Sbjct: 225 EIFRWPESPKAQASSVPTAQPQAEGSLAKATTAPATTRNT-GRGGEEKKKEKEKEEQEER 283
Query: 323 AAPKKPVAAPAPKPRPATAAPAPKPLTNGVTKRPVSATTTASRTSSSSVT 372
+ PA + L + + T +
Sbjct: 284 ETKTPECPSHTQPLGVYLLTPAVQDLW---LRDKATFTCFVVGSDLKDAH 330
>3icc_A Putative 3-oxoacyl-(acyl carrier protein) reducta; structural
genomics, putative 3-oxoacyl-(acyl carrier protei
reductase, oxidoreductase; HET: NAP MES; 1.87A {Bacillus
anthracis str}
Length = 255
Score = 29.0 bits (66), Expect = 5.5
Identities = 17/50 (34%), Positives = 22/50 (44%), Gaps = 17/50 (34%)
Query: 189 ASSDLAAKVAGALVVGA------------AAAGAAVAV---KKATAAKKT 223
A+S L KVA LV GA A GA VA+ + A++T
Sbjct: 1 ANSMLKGKVA--LVTGASRGIGRAIAKRLANDGALVAIHYGNRKEEAEET 48
>3iyo_A Capsid protein; amino acid sequence, cryoelectron microscopy,
dimerization, image processing, computer-assist
molecular sequence DATA; 10.50A {Hepatitis e virus}
Length = 660
Score = 29.6 bits (65), Expect = 5.5
Identities = 29/141 (20%), Positives = 41/141 (29%), Gaps = 6/141 (4%)
Query: 274 PAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPA 333
PAP P + + + S A P P AP AA
Sbjct: 18 PAPPPGQPSGRRRGRRSGGS-----GGGFWGDRVDSQPFAIPYIHPTNPFAPDVT-AAAG 71
Query: 334 PKPRPATAAPAPKPLTNGVTKRPVSATTTASRTSSSSVTSASAAKPAAPRVPLSQRTSAA 393
PR A +RP A+ T+ ++ +A A P VP A
Sbjct: 72 AGPRVRQPARPLGSAWRDQAQRPAVASRRRPTTAGAAPLTAVAPAHDTPPVPDVDSRGAI 131
Query: 394 KPATKPATAKPSTTSKPTTAS 414
+ P T+S T +
Sbjct: 132 LRRQYNLSTSPLTSSVATGTN 152
>3v2g_A 3-oxoacyl-[acyl-carrier-protein] reductase; structural genomics,
PSI-biology, protein structure initiati nysgrc; 2.30A
{Sinorhizobium meliloti}
Length = 271
Score = 29.1 bits (66), Expect = 5.6
Identities = 17/63 (26%), Positives = 22/63 (34%), Gaps = 18/63 (28%)
Query: 177 EAQTVESAEESTASS-DLAAKVAGALVVGA------------AAAGAAVAV---KKATAA 220
+ T +S +S LA K A V G A GAAVA+ A A
Sbjct: 12 DLGTENLYFQSMMTSISLAGKTA--FVTGGSRGIGAAIAKRLALEGAAVALTYVNAAERA 69
Query: 221 KKT 223
+
Sbjct: 70 QAV 72
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.4 bits (62), Expect = 5.7
Identities = 12/30 (40%), Positives = 14/30 (46%), Gaps = 6/30 (20%)
Query: 213 AVKKATAAKKTDKPGPAAKPASKPLA-KTT 241
A+KK A+ K A PA LA K T
Sbjct: 21 ALKKLQASLKLYADDSA--PA---LAIKAT 45
>3u5c_H RP30, RP40, 40S ribosomal protein S7-A; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3u5g_H
Length = 190
Score = 28.9 bits (64), Expect = 6.4
Identities = 8/129 (6%), Positives = 22/129 (17%), Gaps = 4/129 (3%)
Query: 214 VKKATAAKKTDKPGPAAKPASKPLAKTTTTKTTTAAKPAISPVKKTATTTAKPAPKPATK 273
+ ++ + + P + + + K P S T
Sbjct: 26 ELENSSPELKAELRPLQFKSIREIDVAGGKKALAIFVPVPSLAGFHKVQTKLTRELEKKF 85
Query: 274 PAPKPTTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPA 333
A + P + + + + K +
Sbjct: 86 QDRHVIFLAERRILPKPSRTSRQVQKRP----RSRTLTAVHDKILEDLVFPTEIVGKRVR 141
Query: 334 PKPRPATAA 342
Sbjct: 142 YLVGGNKIQ 150
>2wzl_A Phosphoprotein; viral protein, rabies, virion, chaperone,
nucleoprotein, RNA replication; 2.10A {Mokola virus}
Length = 303
Score = 29.1 bits (65), Expect = 6.5
Identities = 7/59 (11%), Positives = 15/59 (25%), Gaps = 1/59 (1%)
Query: 292 PAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKPLTN 350
+ S +T + ++ S + P P P + T+
Sbjct: 134 MTSGERDTKSIQIQTEPTASVSSGNESRHDSESMHDPNDKKDHTPDHDV-VPDIESSTD 191
>3iz6_A 40S ribosomal protein SA (S2P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum}
Length = 305
Score = 29.0 bits (64), Expect = 7.0
Identities = 17/82 (20%), Positives = 21/82 (25%)
Query: 281 AAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPAT 340
A A P A T + +A P + A APA
Sbjct: 221 EAALVAPDYGAVAEYAAPAADTWGGEWGTDAAAQPAAIPAQAGADWTAAPAPAAGGWDTA 280
Query: 341 AAPAPKPLTNGVTKRPVSATTT 362
AAPAP + T
Sbjct: 281 AAPAPGWEQGSAPVPAAAPTPN 302
>2krg_A Na(+)/H(+) exchange regulatory cofactor NHE-RF1; acetylation, cell
projection, disease mutation, membrane, phosphoprotein,
polymorphism; NMR {Homo sapiens}
Length = 216
Score = 28.6 bits (63), Expect = 7.5
Identities = 12/101 (11%), Positives = 29/101 (28%), Gaps = 1/101 (0%)
Query: 295 VRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRPATAAPAPKPLTNGVTK 354
V + K P P + + + A +P+P
Sbjct: 89 VDRETDEFFKKCRVIPSQEHLNGPLPVPFTNGEIQKENSREALAEAALESPRPALVRSAS 148
Query: 355 RPVSATTTASRTSSSSVTSASAAKPAA-PRVPLSQRTSAAK 394
S + + ++A ++ ++ P + + + AK
Sbjct: 149 SDTSEELNSQDSPPKQDSTAPSSTSSSDPILDFNISLAMAK 189
>1m2v_B SEC24, protein transport protein SEC24, SEC24P, SEC24 protein,
abnormal nuclear; zinc-finger, beta barrel, VWA domain,
gelsolin domain,; 2.75A {Saccharomyces cerevisiae} SCOP:
a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1
Length = 926
Score = 29.0 bits (64), Expect = 7.7
Identities = 22/178 (12%), Positives = 41/178 (23%), Gaps = 1/178 (0%)
Query: 322 PAAPKKPVAAPAPKPRPATAAPAPKPLTNGVTKRPVSATTTASRTSSSSVTSASAAKPAA 381
P A + P +PA P P G++ + + S + A
Sbjct: 10 PQAQLQYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPA-QEQ 68
Query: 382 PRVPLSQRTSAAKPATKPATAKPSTTSKPTTASKPATATRPATTTSKPATTTSTDIEDEM 441
+ Q T++ + T A M
Sbjct: 69 LHQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAAM 128
Query: 442 NQPFTPEELEAAIKSGLITTPGRDNIHYPMIENLPDCNKYLNIMKMICNKHWGMNPTI 499
Q P I P ++ P + + L ++ + T+
Sbjct: 129 GQNMRPMNQLYPIDLLTELPPPITDLTLPPPPLVIPPERMLVPSELSNASPDYIRSTL 186
>1g0o_A Trihydroxynaphthalene reductase; protein-NADPH-active site
inhibitor complex, dinucleotide binding fold,
oxidoreductase; HET: NDP PYQ; 1.70A {Magnaporthe grisea}
SCOP: c.2.1.2 PDB: 1doh_A* 1g0n_A* 1ybv_A*
Length = 283
Score = 28.4 bits (64), Expect = 9.1
Identities = 13/56 (23%), Positives = 17/56 (30%), Gaps = 17/56 (30%)
Query: 183 SAEESTASSDLAAKVAGALVVGA------------AAAGAAVAV---KKATAAKKT 223
S+ L KVA LV GA G V V +A++
Sbjct: 17 PGPLGPQSASLEGKVA--LVTGAGRGIGREMAMELGRRGCKVIVNYANSTESAEEV 70
>2wsc_E PSAE, PSI-E A, photosystem I reaction center subunit IV A,
chloroplastic; photosynthesis, electron transfer,
membrane proteins, large complexes; HET: CL1 PQN BCR LMU
LMG SUC UNL; 3.30A {Arabidopsis thaliana} PDB: 2wse_E*
2wsf_E* 2o01_E* 3lw5_E*
Length = 143
Score = 27.7 bits (60), Expect = 9.4
Identities = 17/65 (26%), Positives = 25/65 (38%)
Query: 279 TTAAPKSTTTAPKPAPVRKPVASTITKTATSTVSAAPKPSAPKPAAPKKPVAAPAPKPRP 338
T+ A S++ + + S + A + A S PAA P A A KP+P
Sbjct: 17 TSVAGASSSRSSVSFLPMRNAGSRLVVRAAEDPAPASSSSKDSPAAAAAPDGATATKPKP 76
Query: 339 ATAAP 343
P
Sbjct: 77 PPIGP 81
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
0.306 0.121 0.337
Gapped
Lambda K H
0.267 0.0767 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 11,036,652
Number of extensions: 641632
Number of successful extensions: 2301
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2089
Number of HSP's successfully gapped: 230
Length of query: 821
Length of database: 6,701,793
Length adjustment: 101
Effective length of query: 720
Effective length of database: 3,881,772
Effective search space: 2794875840
Effective search space used: 2794875840
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 61 (27.2 bits)