RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11920
(884 letters)
>4f3t_A Protein argonaute-2; hydrolase/gene regulation, RNAI, slicer,
hydrolase-RNA; 2.25A {Homo sapiens} PDB: 4ei1_A 4ei3_A*
1r4k_A 1si2_A 1si3_A
Length = 861
Score = 496 bits (1279), Expect = e-163
Identities = 171/851 (20%), Positives = 308/851 (36%), Gaps = 88/851 (10%)
Query: 90 GDAPSSPPTQQMKALSISKSKPPSEPVYFRGELGQPIKVMVNYIDLSVKEGSGMYEYEVK 149
G P+ P + KPP P + G G+ IK+ N+ ++ + + +Y YE+
Sbjct: 6 GAGPALAPPAPPPPIQGYAFKPPPRPDF--GTSGRTIKLQANFFEMDIPKID-IYHYELD 62
Query: 150 FNPPIDSRGIRNRLINSLNDLL------GQYKTFDGMNLF-----LPFKLSSDTVNTTCQ 198
P R + ++ + + FDG LP + T
Sbjct: 63 IKPEKCPRRVNREIVEHMVQHFKTQIFGDRKPVFDGRKNLYTAMPLPIGRDKVELEVT-L 121
Query: 199 TREGSDVQITIIFKRQRQF-----------------YENLMFYNILFRKIAFLLSMVQFK 241
EG D + K +E + +++ R + +
Sbjct: 122 PGEGKDRIFKVSIKWVSCVSLQALHDALSGRLPSVPFETIQALDVVMRHLPSM-RYTPVG 180
Query: 242 DCLYDPRSKLLIP-QYKLEVWPGFVTAIDEYEGGLKLQIDTSCRV-LRTSTCLDLIDELK 299
+ P EVW GF ++ + L ID S + ++ + E+
Sbjct: 181 RSFFTASEGCSNPLGGGREVWFGFHQSVRPSLWKMMLNIDVSATAFYKAQPVIEFVCEVL 240
Query: 300 EKFG---------GNFMERLSQALIGEIVLTRYN---NQTYRIDEIDFKQTPMSTFTKR- 346
+ + + ++ + G V + + YR+ + + TF +
Sbjct: 241 DFKSIEEQQKPLTDSQRVKFTKEIKGLKVEITHCGQMKRKYRVCNVTRRPASHQTFPLQQ 300
Query: 347 ----GEPKSYVDYYREAYNIEIRDKSQPMLITRVKRKTRRGTNVEESHYIAAIVPELAFL 402
+ Y+++ + + +R P L ++K + IV +
Sbjct: 301 ESGQTVECTVAQYFKDRHKLVLRYPHLPCLQVGQEQKHTYL-----PLEVCNIVAGQRCI 355
Query: 403 TGLSDAMRNDFQVMKSIASFTRVDPNQKLQAISKYINNVNNNKETSELLKGWGLTLNKSM 462
L D Q I T + + ISK + + + N + ++ +G+ + M
Sbjct: 356 KKL-----TDNQTSTMIR-ATARSAPDRQEEISKLMRSASFNTD--PYVREFGIMVKDEM 407
Query: 463 ETLNARILPVEKIYMGNNFVAPGSQEADWNRQVGTNPALTVVNFDQWVLIHI----RRDQ 518
+ R+L I G A + + T + W + + +
Sbjct: 408 TDVTGRVLQPPSILYGGRNKAIATP-VQGVWDMRNKQFHTGIEIKVWAIACFAPQRQCTE 466
Query: 519 RNADNFLNCLNRNSNAIGIRVKKPQVIALQE---EQTLSYLTALKSMRSDTQFVVIIFNA 575
+ +F L + S G+ ++ + LK+ + Q VV+I
Sbjct: 467 VHLKSFTEQLRKISRDAGMPIQGQPCFCKYAQGADSVEPMFRHLKNTYAGLQLVVVILP- 525
Query: 576 PRTDRYQAVKKYCCCERPIPSQVINSRTISREDKMKSIVMKIALQINCKLGGSLWSVQIP 635
+T Y VK+ + +Q + + + R + + L+IN KLGG +
Sbjct: 526 GKTPVYAEVKRVGDTVLGMATQCVQMKNVQR--TTPQTLSNLCLKINVKLGGVNNILLPQ 583
Query: 636 YDC------AMVIGIDVYHEGVGS-QGQNIVGLVASTNKDFTTYYSQAVIQRRGQEITDS 688
+ +G DV H G + +I +V S + Y + +Q+ QEI
Sbjct: 584 GRPPVFQQPVIFLGADVTHPPAGDGKKPSIAAVVGSMDAHPNRYCATVRVQQHRQEIIQD 643
Query: 689 IAQPFKQALDRFIQANSVPPKQIFIFRDGVSDGQLDSVSRVEIDQYQQIVDTIMTTLPSC 748
+A ++ L +F ++ P +I +RDGVS+GQ V E+ ++ +
Sbjct: 644 LAAMVRELLIQFYKSTRFKPTRIIFYRDGVSEGQFQQVLHHELLAIREACIKL-----EK 698
Query: 749 SYAPKITAIIVQKRINTKIFQLLSAGERPNLANAPSGSVLDHTVTRKTLSDFFLVSQHVR 808
Y P IT I+VQKR +T++F N P+G+ +D +T T DF+L S
Sbjct: 699 DYQPGITFIVVQKRHHTRLFCTDKNERVGKSGNIPAGTTVDTKITHPTEFDFYLCSHAGI 758
Query: 809 QGTVTPSHYIVLRNDNNVKVDHLQRLSYKLCHLYYNWPGTIRVPAVCQYAHRIAYLTGMH 868
QGT PSHY VL +DN D LQ L+Y+LCH Y ++ +PA YAH +A+ H
Sbjct: 759 QGTSRPSHYHVLWDDNRFSSDELQILTYQLCHTYVRCTRSVSIPAPAYYAHLVAFRARYH 818
Query: 869 LQRLPSDVLSD 879
L D
Sbjct: 819 LVDKEHDSAEG 829
>3ho1_A Argonaute; argonaute, protein-DNA-RNA complex, nucleic acid binding
Pro RNA complex; 2.60A {Thermus thermophilus} PDB:
3dlb_A* 3dlh_A* 3f73_A* 3hm9_A 3hvr_A 3hxm_A* 3hk2_A
3hjf_A
Length = 685
Score = 449 bits (1157), Expect = e-147
Identities = 105/772 (13%), Positives = 226/772 (29%), Gaps = 104/772 (13%)
Query: 125 PIKVMVNY--IDLSVKEGSGMYEYEVKFNPPIDSRGIRNRLINSLNDLLGQYKTFDGMNL 182
+V +N + E + EV +PP + L G G L
Sbjct: 6 KTEVFLNRFALRPLNPEELRPWRLEVVLDPPPGREEVYPLLAQVARRAGGVT-VRMGDGL 64
Query: 183 FLPFKLSSDTVNTT-CQTREGSDVQITIIFKR--QRQFYENLMFYNILFRKI--AFLLSM 237
+ T + + ++ +R + + L R++ L +
Sbjct: 65 ASWSPPEVLVLEGTLARMGQTYAYRLYPKGRRPLDPKDPGERSVLSALARRLLQERLRRL 124
Query: 238 VQFKDCLYDPRSKLLIPQYKLEVWPGFVTAIDEY-EGGLKLQIDTSCRVLRTSTCLDLID 296
+ V G V + G L++D + R+L + +
Sbjct: 125 EGVWVEGLAVYRREHARGPGWRVLGGAVLDLWVSDSGAFLLEVDPAYRILCEMSLEAWLA 184
Query: 297 ELKEKFGGNFMERLSQALIGEIVLTRYNNQTYRIDEIDFKQTPMSTFTKRGEPKSYVDYY 356
+ + + V Y+ +T+ + + ++ P G S +DY+
Sbjct: 185 QGHP--------------LPKRVRNAYDRRTWELLRLG-EEDPKELPLPGG--LSLLDYH 227
Query: 357 REAYNIEIRDKSQPMLITRVKRKTRRGTNVEESHYIAAIVPELAFLTGLSDAMRNDFQVM 416
++ R+ + + K + +P L L L + +
Sbjct: 228 ASKGRLQGREGGRVAWVADPKDPRKP-------------IPHLTGL--LVPVLTLEDLHE 272
Query: 417 KSIASFTRVDPNQKLQAISKYINNVNNNKETSELLKGWGLTLNKSMETLNARILPVEKIY 476
+ + + ++ + + + + + GL +++ A L + K+
Sbjct: 273 EEGSLALSLPWEERRRRTREIASW---------IGRRLGLGTPEAVRA-QAYRLSIPKLM 322
Query: 477 MGNNFVAPGSQEADWNRQVGTNPALTVVNFDQWVLIHIRRDQRNADNFLNCLNRNSNAIG 536
P AD R T L+ + Q + L R A G
Sbjct: 323 GRRAVSKP----ADALRVGFYRAQET-----ALALLRLDGAQGWPEFLRRALLRAFGASG 373
Query: 537 IRVKKPQVIALQEEQTLSYLTALKSMRSDTQFVVIIFNAPRTDRYQAVKKYCCCERPIPS 596
++ + A + K+ Q V+++ + +K +PS
Sbjct: 374 ASLRLHTLHAHPSQGLAFREALRKAKEEGVQAVLVLTPPMAWEDRNRLKALLL-REGLPS 432
Query: 597 QVINSRTISREDKMKSIVMKIALQINCKLGGSLWSVQIPYDCAMVIGIDVYHEGVGSQGQ 656
Q++N ++ + L + K G + ++ Y + +G D G
Sbjct: 433 QILNVPLR---EEERHRWENALLGLLAKAGLQVVALSGAYPAELAVGFDAGGRESFRFG- 488
Query: 657 NIVGLVASTNKDFTTYYSQAVIQRRGQEITDSIAQPFKQALDRFIQANSVPPKQIFIFRD 716
V +A R + + ++ L F + P ++ + R+
Sbjct: 489 GAACAVGGDGGHLLWTLPEAQAGER--IPQEVVWDLLEETLWAFRRKAGRLPSRVLLLRN 546
Query: 717 GVSDGQLDSVSRVEIDQYQQIVDTIMTTLPSCSYAPKITAIIVQKRINTKIFQLLSAGER 776
G V + E + + + V+K +++
Sbjct: 547 GR-------VPQDEFALALEALA---------REGIAYDLVSVRKSGGGRVY-------- 582
Query: 777 PNLANAPSGSVLDHTVTRKTLSDFFLVSQHVRQGTVTPSHYIVLRNDNNVKVDHLQRLSY 836
P G + + L +GT P + D L+ L++
Sbjct: 583 PVQGRLADGLYVPLEDK----TFLLLTVHRDFRGTPRPLKLVHEAGDTP-----LEALAH 633
Query: 837 KLCHLYYNWPGTI----RVPAVCQYAHRIAYLTGMHLQRLPSDVLSDKLFYL 884
++ HL +P + R+PA A R+ G R +V +KLF++
Sbjct: 634 QIFHLTRLYPASGFAFPRLPAPLHLADRLVKEVGRLGIRHLKEVDREKLFFV 685
>1u04_A Argonaute, hypothetical protein PF0537; RNAI, silencing, PIWI, PAZ,
RISC, slicer, RNAse H hydrolase-gene regulation complex;
2.25A {Pyrococcus furiosus} SCOP: b.34.14.1 c.55.3.10
PDB: 1z25_A 1z26_A
Length = 771
Score = 421 bits (1083), Expect = e-135
Identities = 103/834 (12%), Positives = 260/834 (31%), Gaps = 139/834 (16%)
Query: 125 PIKVMVNYIDLSVKE-GSGMYEYEVKFNPPIDSRGIRNRLINSLNDLLGQYKTFDGMNLF 183
V++N + ++ K +Y Y + +P + + + + +G + + +
Sbjct: 3 KAIVVINLVKINKKIIPDKIYVYRLFNDPEEELQKEGYSIYRLAYENVGIVIDPENLIIA 62
Query: 184 LPFKLSSDTVNTTCQTREGSDVQITIIFKRQRQFYENLMFYNILFRKIAFLLSMVQFKDC 243
+L + S+++ K + + K+
Sbjct: 63 TTKELEYEGEFIPEGEISFSELRNDYQSKLVLRLLKENGIGEYELSKL------------ 110
Query: 244 LYDPRSKLLIPQYKLEVWPGFVTAIDEYEGGLKLQIDTSCRVLRTSTCLDLIDELKEKFG 303
L R YK V P ++ +++ L I ++ T +L+++
Sbjct: 111 LRKFRKPKTFGDYK--VIPSVEMSVIKHDEDFYLVIHIIHQIQSMKTLWELVNKDP---- 164
Query: 304 GNFMERLSQALIGEIVLTRYNNQTYRIDEIDFKQTPMSTFTKRGEP--KSYVDYYREAY- 360
+E ++L + + + F++ + K + +Y+ E Y
Sbjct: 165 -KELEEFLMTHKENLMLKDIASPLKTVYKPCFEEYTKKPKLDHNQEIVKYWYNYHIERYW 223
Query: 361 -----------NIEIRDKSQPMLITRVKRKTRRGTNVEESHYIAAIVPELAFLTGLSDAM 409
D QP ++ + K ++ N Y ++P+L T +A
Sbjct: 224 NTPEAKLEFYRKFGQVDLKQPAILAKFASKIKKNKN-----YKIYLLPQLVVPTY--NAE 276
Query: 410 RNDFQVMKSIASFTRVDPNQKLQAISKYINNVNNNKETSEL----LKGWGLTLNKSMETL 465
+ + V K I +T++ P ++ + + + V+++ L ++ L +
Sbjct: 277 QLESDVAKEILEYTKLMPEERKELLENILAEVDSDIIDKSLSEIEVEKIAQELENKIRVR 336
Query: 466 NARILPVEKIYMGNNFVAPGSQEADWNRQVGTNPALTV------------------VNFD 507
+ + I N + +++R+ V
Sbjct: 337 DDKGNS-VPISQLNVQKSQLLLWTNYSRKYPVILPYEVPEKFRKIREIPMFIILDSGLLA 395
Query: 508 QWVLIHIRRDQRNADNFLNCLNRNSNAIGIRVKKPQVIAL-----------------QEE 550
+ + L + N++ + + I L ++
Sbjct: 396 DIQNFATNEFRELVKSMYYSLAKKYNSLAKKARSTNEIGLPFLDFRGKEKVITEDLNSDK 455
Query: 551 QTLSYLTALKSMRSDTQF---VVIIFNAPRTDRYQAVKKYCCCERPIPSQVINSRTISRE 607
+ + + S + + N +++++ +K+ + SQV+N T+ +
Sbjct: 456 GIIEVVEQVSSFMKGKELGLAFIAARNKLSSEKFEEIKRRLF-NLNVISQVVNEDTLKNK 514
Query: 608 DK-------MKSIVMKIALQINCKLGGSLWSVQIPYDCAMVIGIDVYHEGVGSQGQNIVG 660
+ + Q+ KLG + + ++ +IGIDV
Sbjct: 515 RDKYDRNRLDLFVRHNLLFQVLSKLGVKYYVLDYRFNYDYIIGIDVAPMKRSEGYIGGSA 574
Query: 661 LVASTNKDFTTYYSQAVIQRRGQEITDSIAQPFKQALDRFIQAN-SVPPKQIFIFRDGVS 719
++ + + ++RG+ + + + FK+ +D+F + N + K+I + RDG
Sbjct: 575 VMFDSQGYIRKIVPIKIGEQRGESV--DMNEFFKEMVDKFKEFNIKLDNKKILLLRDGR- 631
Query: 720 DGQLDSVSRVEIDQYQQIVDTIMTTLPSCSYAPKITAIIVQKRINTKIFQLLSAGERPNL 779
++ E + + I + + ++ + V K + F
Sbjct: 632 ------ITNNEEEGLKYISE---------MFDIEVVTMDVIKNHPVRAFA---------- 666
Query: 780 ANAPSGSVLDHTVTRKTLSDFFLVSQHVRQGTVTPSHYIVLR--------NDNNVKVDHL 831
+ + +L+ ++Q TP + + +
Sbjct: 667 ---------NMKMYFNLGGAIYLIPHKLKQAKGTPIPIKLAKKRIIKNGKVEKQSITRQD 717
Query: 832 QRLSYKLCHLYYN-WPGTIRVPAVCQYAHRIAYLTGMHLQRLPSDVLSDKLFYL 884
+ L L Y +R+PA YAH+ A + + L+++
Sbjct: 718 VLDIFILTRLNYGSISADMRLPAPVHYAHKFANAIRNEWKIKEEFLAEGFLYFV 771
>1yvu_A Hypothetical protein AQ_1447; RNAse H fold, RNA binding protein,
gene regulation; 2.90A {Aquifex aeolicus} SCOP:
b.34.14.1 c.55.3.10 PDB: 2f8s_A 2f8t_A 2nub_A
Length = 706
Score = 384 bits (987), Expect = e-122
Identities = 108/759 (14%), Positives = 241/759 (31%), Gaps = 82/759 (10%)
Query: 146 YEVKFNPPIDSRGIRNRLINSLNDLLGQYKTFDGMNLFLPFKLSSDTVNTTCQTREGSDV 205
Y +++ P + + + L + + + LP D + E +
Sbjct: 10 YRIEYRPKDTTFTVFKPTHEIQKEKLNKVRWRVFLQTGLPTFRREDEFWCAGKV-EKDTL 68
Query: 206 QITIIFKRQRQFYENLMFYNILFRKIAFLLSMVQFKDCLYDPRSKLLIPQ-YKLEVWPGF 264
+T+ + + + + + ++ D +K + + + + F
Sbjct: 69 YLTLSNGEIVELKR------VGEEEFRGFQNERECQELFRDFLTKTKVKDKFISDFYKKF 122
Query: 265 --VTAIDEYEGGLKLQIDTSCRVLRTSTCLDLIDELKEKFGGNFMERLSQALIGEIVLTR 322
+ + L + + +VL++ L+ F + + L +
Sbjct: 123 RDKITVQGKNRKIALIPEVNEKVLKSEEGYFLLH-----LDLKFRIQPFETLQTLLERND 177
Query: 323 YNNQTYRID--EIDFKQTPMSTFT-KRGEPKSYVDYYREAYNIEIRDKSQPMLITRVKRK 379
+N + R+ IDF F K + + + + + + +L R R+
Sbjct: 178 FNPKRIRVKPIGIDFVGRVQDVFKAKEKGEEFFRLCMERSTHKSSKKAWEELLKNRELRE 237
Query: 380 TRRGTNVEES-HYIAAIVPELAFLTGLSDAMRNDFQVMKSIASFTRVDPNQKLQAISKYI 438
+E+ Y A I+ + L D RN+ +A R++P ++L I +
Sbjct: 238 KAFLVVLEKGYTYPATILKPVLTYENLEDEERNE------VADIVRMEPGKRLNLIRYIL 291
Query: 439 NNVNNNKETSELLKGWGLTLNKSMETLNARILPVEKIYMGNNFVAPGSQEADWNRQVGTN 498
L+ +G ++ E ++ + + ++
Sbjct: 292 RRYVKA------LRDYGWYISPEEERAKGKLNFKDTVLDAKGKNTKVITNLRKFLELCRP 345
Query: 499 P-ALTVVNFDQWVLIHIRRDQRNADNFLNCLNRNSNAIGIRVKKPQVIALQEEQTLSYLT 557
V++ + + ++ + + FL L GI++K + +
Sbjct: 346 FVKKDVLSVEIISVSVYKKLEWRKEEFLKELINFLKNKGIKLKIKGKSLILAQTREEAKE 405
Query: 558 ALKSM---RSDTQFVVII-------FNAPRTDRYQAVKKYCCCERPIPSQVINSRTISRE 607
L + D V++ Y VK+ ++ IPSQVI +RT+ E
Sbjct: 406 KLIPVINKIKDVDLVIVFLEEYPKVDPYKSFLLYDFVKR-ELLKKMIPSQVILNRTLKNE 464
Query: 608 DKMKSIVMKIALQINCKLGGSLWSVQ-IPYDCAMVIGIDVYHEGVGSQGQNIVGLVASTN 666
+ +++ +A Q+ K G + ++ I +GID+ + N V N
Sbjct: 465 NLK-FVLLNVAEQVLAKTGNIPYKLKEIEGKVDAFVGIDISRITRDGKTVNAVAFTKIFN 523
Query: 667 KD-FTTYYSQAVIQRRGQEITDSIAQPFKQALDRFIQANSVPPKQIFIFRDGVSDGQLDS 725
Y G+++T+ + +I + RDG
Sbjct: 524 SKGELVRYYLTSYPAFGEKLTEKA---IGDVFSLLEKLGFKKGSKIVVHRDGRLYRD--- 577
Query: 726 VSRVEIDQYQQIVDTIMTTLPSCSYAPKITAIIVQKRINTKIFQLLSAGERPNLANAPSG 785
E+ +++ + Y + + + KR N + F + G
Sbjct: 578 ----EVAAFKKYGE---------LYGYSLELLEIIKRNNPRFF---------SNEKFIKG 615
Query: 786 SVLDHTVTRKTLSDFFLVSQHVRQGTVTPSHYIVLRNDNNVKVDHLQRLSYKLCHLYYNW 845
+ S V +GT P + + V + L L + Y+
Sbjct: 616 YFYKLSED----SVILATYNQVYEGTHQPIKVRKVYGELPV--EVLCSQILSLTLMNYSS 669
Query: 846 PGTIRVPAVCQYAHRIAYLTGMHLQRLPSDVLSDKLFYL 884
I++PA Y+ +I L ++ P D +++L
Sbjct: 670 FQPIKLPATVHYSDKITKLMLRGIE--PIKKEGDIMYWL 706
>4f1n_A Kpago; argonaute, RNAI, RNAse H, RNA binding protein-RNA complex;
3.19A {Vanderwaltozyma polyspora}
Length = 1046
Score = 367 bits (942), Expect = e-112
Identities = 115/754 (15%), Positives = 235/754 (31%), Gaps = 106/754 (14%)
Query: 208 TIIFKRQRQFYENLMFYNILFRKIAFLLSMVQFKDCLYDPRSKLLIPQYKLEVWPGFVTA 267
F + ++ + ++ L+ + + +Y + P
Sbjct: 284 PAPFIKHTKYLPGDPRFKNNEKEQFTLMDWIIECYHQSKAIRDI---RYNPKTAPPPSVK 340
Query: 268 IDEYEGGLKLQIDTSCRVLRTSTCLDLIDELKEKFGGNFMERLSQALIGEIVLTRYNNQT 327
Y I + L+ K+ +R S+ ++G TR + +
Sbjct: 341 DLNYFVEKNTDISALLKGLKVYRPYINYSINKDGTPKPPRKRSSKGIVG---FTRESAVS 397
Query: 328 YRIDEIDFKQTPMSTFTKRGEPK--SYVDYYREAYNIEIRDKSQPMLITRVKRKTRRGTN 385
R + ++ S +P + +DY++ Y+I ++ ++ K
Sbjct: 398 MRFNVLESSLKKNSAPKPNEKPININTIDYFKRKYDITLKYPDMKLVNLGGKND------ 451
Query: 386 VEESHYIAAIVPELAFLTGLSDAMRNDFQVMKSIASFTRVDPNQKLQAISKYINNV--NN 443
+ PE + F K+ F+ + P +K IS+
Sbjct: 452 --------VVPPECLTIVPGQKLKGQIFD-TKTYIDFSAIRPTEKFDLISRLSMPAIKRG 502
Query: 444 NKETSELLKGWGLTLNKSMETLNARILPVEKIYMGNNFVAPGSQEADW------------ 491
++ + + +RIL + + +
Sbjct: 503 LTDSEKEESSAPHNSAYQFMRVPSRILDAPVVQFKESTFEYKDKSYGTKHEESKGNWNMK 562
Query: 492 NRQVGTNPAL----TVVNFDQWVLIHIRRDQRNADNFLNCLNRNSNAIGIRVKKP----- 542
Q + PA + + + D ++ + +G+
Sbjct: 563 GHQFISTPAKQVNLRAIFINNANTAPPASMESELDISMDKFASDVKQLGVDFNVSGKPIL 622
Query: 543 ------------------------------------QVIALQEEQTLSYLTALKSMRSDT 566
+S L L+++ S+T
Sbjct: 623 INQFGPPIKKFQGGGRGGRGGRGSRGGRGGRGAPSGPPTFETSPGEISLLNLLENIPSNT 682
Query: 567 QFVVIIFNAPRTDRYQAVKKYCCCERPIPSQVINSRTISREDKMKSIVMKIALQINCKLG 626
+ ++ + Y +K + + + + + +++N KL
Sbjct: 683 YILYVLRRGNDSAVYDRLKYITDLKFGALNSCVVWDNFKKNSI--QYNSNVVMKMNLKLL 740
Query: 627 GSLWSVQIPYDCA----------MVIGIDVYHEGVGSQGQNIVGLVASTNKDFTTYYSQA 676
GS S+ I + +V+G DV H Q +I LV S + FT +
Sbjct: 741 GSNHSLSIENNKLLIDKESNLPILVLGSDVTHYPEKDQ-NSIASLVGSYDDKFTQFPGDY 799
Query: 677 VIQR-RGQEITDSIAQPFKQALDRFIQANS-VPPKQIFIFRDGVSDGQLDSVSRVEIDQY 734
++Q G+EI ++ L + + N+ P +I FRDGVS Q V ++E+
Sbjct: 800 MLQDGPGEEIITNVGSLMLNRLKIYQKHNNGKLPTKIMYFRDGVSVDQFSQVVKIEVKSI 859
Query: 735 QQIVDTIMTTLPSCS-YAPKITAIIVQKRINTKIFQLLSAGERPNLA--------NAPSG 785
++ V L + Y P +T I KR + + + N G
Sbjct: 860 KESVRKFGPQLNGGNKYDPPVTCIATVKRNQVRFIPIQENAKNEKGEEVAVQSMGNVMPG 919
Query: 786 SVLDHTVTRKTLSDFFLVSQHVRQGTVTPSHYIVLRNDNNVKVDHLQRLSYKLCHLYYNW 845
+V+D +T DFF+ S +GT P HY L ++N D+LQ + LC+++
Sbjct: 920 TVVDRGITSVAHFDFFIQSHQALKGTGVPCHYWCLYDENQSTSDYLQEICNNLCYIFGRS 979
Query: 846 PGTIRVPAVCQYAHRIAYLTGMHLQRLPSDVLSD 879
+++VPA YA + + ++
Sbjct: 980 TTSVKVPAPVYYADLLCTRATCFFKAGFELNMAQ 1013
Score = 30.8 bits (68), Expect = 2.4
Identities = 14/71 (19%), Positives = 28/71 (39%), Gaps = 3/71 (4%)
Query: 94 SSPPT-QQMKALSISKSKPPSEPVYFRGELGQPIKVMVNYIDLSVKEGSGMYEYEVKFNP 152
S+ T Q K + + K + Y G G + ++ N+I L+V + + + P
Sbjct: 1 STEKTVDQPKEDTHAIYKVENRHDY--GTKGTKVDILTNHILLAVGNDVPTEKIDKELVP 58
Query: 153 PIDSRGIRNRL 163
+D +
Sbjct: 59 KLDGWWKTAFI 69
>2yhb_A QDE-2, post-transcriptional gene silencing protein QDE-2; RNA
binding protein, argonaute, miRNA, siRNA; 3.65A
{Neurospora crassa}
Length = 437
Score = 302 bits (775), Expect = 3e-94
Identities = 91/423 (21%), Positives = 154/423 (36%), Gaps = 44/423 (10%)
Query: 477 MGNNFVAPGSQEADWNRQVGTNPALTVVNFDQWVLIHIRRDQRNADNFLNCLNRNSNAIG 536
M P + W T + + + N G
Sbjct: 3 MAVKVARPCRKIEKW----------TYLELKG------SKANEGVPQAMTAFAEFLNRTG 46
Query: 537 IRVK---KPQVIALQEEQTLSYLTALKSMRSDTQFVVIIFNAPRTDRYQAVKKYCCCERP 593
I + P + + +K + S QFVV++ Y VK+
Sbjct: 47 IPINPRFSPGMSMSVPGSEKEFFAKVKELMSSHQFVVVLLPRKDVAIYNMVKRAADITFG 106
Query: 594 IPSQVINSRTISREDKMKSIVMKIALQINCKLGGSLWSVQIPYDC-----AMVIGIDVYH 648
+ + + + L++N K GG+ +++ P MV+G DV H
Sbjct: 107 VHTVCCVAEKFLSTKGQLGYFANVGLKVNLKFGGTNHNIKTPIPLLAKGKTMVVGYDVTH 166
Query: 649 EGVGSQGQN------IVGLVASTNKDFTTYYSQAVIQRRGQE-ITDSIAQPFKQALDRFI 701
+ GQ+ IVGLV++ ++ + + GQE +T+ FK L+ +
Sbjct: 167 PTNLAAGQSPASAPSIVGLVSTIDQHLGQWPAMVWNNPHGQESMTEQFTDKFKTRLELWR 226
Query: 702 ---QANSVPPKQIFIFRDGVSDGQLDSVSRVEIDQYQQIVDTIMTTLPSCSYAPKITAII 758
N P+ I IFRDGVS+GQ V + E+ + + P+IT I+
Sbjct: 227 SNPANNRSLPENILIFRDGVSEGQFQMVIKDELPLVRAACKLVY----PAGKLPRITLIV 282
Query: 759 VQKRINTKIFQLLSAGERPNLANAPSGSVLDHTVTRKTLSDFFLVSQHVRQGTVTPSHYI 818
KR T+ F + G+V+D VT DFFL + QGT +HY
Sbjct: 283 SVKRHQTRFFPTDPKHIHFKSKSPKEGTVVDRGVTNVRYWDFFLQAHASLQGTARSAHYT 342
Query: 819 VLRND------NNVKVDHLQRLSYKLCHLYYNWPGTIRVPAVCQYAHRIAYLTGMHLQRL 872
VL ++ N D L++L++ +C+L+ + + YA + +H + L
Sbjct: 343 VLVDEIFRADYGNKAADTLEQLTHDMCYLFGRATKAVSICPPAYYADLVCDRARIHQKEL 402
Query: 873 PSD 875
Sbjct: 403 FDA 405
>2w42_A PIWI, putative uncharacterized protein; RNAI, RISC, argonaute, PIWI
domain, protein/DNA complex; 1.90A {Archaeoglobus
fulgidus} PDB: 1ytu_A 2bgg_A 1w9h_A
Length = 427
Score = 280 bits (716), Expect = 8e-86
Identities = 57/432 (13%), Positives = 130/432 (30%), Gaps = 41/432 (9%)
Query: 476 YMGNNFVAPGSQEADWNRQVGTNPALTVVNF--DQWVLIHIRRDQRNADNFLNCLNRN-S 532
+GN P S + + + V + +Q LIH + + + ++
Sbjct: 14 RIGNGASVPISNTGELIKGLRNYGPYEVPSLKYNQIALIHNNQFSSLINQLKSQISSKID 73
Query: 533 NAIGIRVKKPQVIALQEEQTLSYLTALKS-MRSDTQFVVIIFNAPRTDRYQAVKKYCCCE 591
I S + + + + + ++++ T Y +K Y
Sbjct: 74 EVWHIHNINISEFIYDSPHFDSIKSQVDNAIDTGVDGIMLVLPEYNTPLYYKLKSYLI-- 131
Query: 592 RPIPSQVINSRTISREDKMKSIVMKIALQINCKLGGSLWSVQI--PYDCAMVIGIDVYHE 649
IPSQ + +S + V + +Q KLGG W + + ++IG
Sbjct: 132 NSIPSQFMRYDILSN-RNLTFYVDNLLVQFVSKLGGKPWILNVDPEKGSDIIIGTGATRI 190
Query: 650 GVGSQGQNIVGLVASTNKDFTTYYSQAVIQRRGQEITDSIAQPFKQALDRFIQANSVPPK 709
N+ KD T +++ E + K+ + F ++N
Sbjct: 191 D----NVNLFCFAMVFKKDGTMLWNEISPIVTSSEYLTYLKSTIKKVVYGFKKSNPDWDV 246
Query: 710 QIFIFRDGVSDGQLDSVSRVEIDQYQQIVDTIMTTLPSCSYAPKITAIIVQKRINTKIFQ 769
+ G+ + E ++ V+ + S K + + + +
Sbjct: 247 EKLTLHV---SGKRPKMKDGETKILKETVEEL-KKQEMVSRDVKYAILHLNETHPFWVMG 302
Query: 770 LLSAGERPNLANAPSGSVLDHTVTRKTLSDFFLVSQHVRQG-----TVTPSHYIVLRNDN 824
+ N + G+ + ++ K L R G + P ++ ++
Sbjct: 303 -----DPNNRFHPYEGTKVK--LSSKRYLLTLLQPYLKRNGLEMVTPIKPLSVEIVSDNW 355
Query: 825 NVK-----VDHLQRLSYKLCHLYYNWPGTIRVPAVCQYAHRIAYLTG-------MHLQRL 872
+ V + Y L + + + +P Y +A + +
Sbjct: 356 TSEEYYHNVHEILDEIYYLSKMNWRGFRSRNLPVTVNYPKLVAGIIANVNRYGGYPINPE 415
Query: 873 PSDVLSDKLFYL 884
+ L ++L
Sbjct: 416 GNRSLQTNPWFL 427
>2yha_A Post-transcriptional gene silencing protein QDE-2; RNA binding
protein, argonaute, miRNA, siRNA; HET: GOL; 1.85A
{Neurospora crassa} PDB: 2xdy_A
Length = 388
Score = 238 bits (607), Expect = 8e-71
Identities = 72/412 (17%), Positives = 131/412 (31%), Gaps = 81/412 (19%)
Query: 477 MGNNFVAPGSQEADWNRQVGTNPALTVVNFDQWVLIHIRRDQRNADNFLNCLNRNSNAIG 536
M P + W T + + + N G
Sbjct: 3 MAVKVARPCRKIEKW----------TYLELKG------SKANEGVPQAMTAFAEFLNRTG 46
Query: 537 IRVK---KPQVIALQEEQTLSYLTALKSMRSDTQFVVIIFNAPRTDRYQAVKKYCCCERP 593
I + P + + +K + S QFVV++ Y VK+
Sbjct: 47 IPINPRFSPGMSMSVPGSEKEFFAKVKELMSSHQFVVVLLPRKDVAIYNMVKRAADITFG 106
Query: 594 IPSQVINSRTISREDKMKSIVMKIALQINCKLGGSLWSVQIP-----YDCAMVIGIDVYH 648
+ + + + L++N K GG+ +++ P MV+G DV H
Sbjct: 107 VHTVCCVAEKFLSTKGQLGYFANVGLKVNLKFGGTNHNIKTPIPLLAKGKTMVVGYDVTH 166
Query: 649 EGVGSQGQN------IVGLVASTNKDFTTYYSQAVIQRRGQE-ITDSIAQPFKQALD--- 698
+ GQ+ IVGLV++ ++ + + GQE +T+ FK L+
Sbjct: 167 PTNLAAGQSPASAPSIVGLVSTIDQHLGQWPAMVWNNPHGQESMTEQFTDKFKTRLELWR 226
Query: 699 RFIQANSVPPKQIFIFRDGVSDGQLDSVSRVEIDQYQQIVDTIMTTLPSCSYAPKITAII 758
N P+ I IFRDGVS+GQ V + E+ + + P+IT I+
Sbjct: 227 SNPANNRSLPENILIFRDGVSEGQFQMVIKDELPLVRAACKLVY----PAGKLPRITLIV 282
Query: 759 VQKRINTKIFQLLSAGERPNLANAPSGSVLDHTVTRKTLSDFFLVSQHVRQGTVTPSHYI 818
K + + ++D
Sbjct: 283 SVKGSGSAHY----------------TVLVDEIFR------------------------- 301
Query: 819 VLRNDNNVKVDHLQRLSYKLCHLYYNWPGTIRVPAVCQYAHRIAYLTGMHLQ 870
+ N D L++L++ +C+L+ + + YA + +H +
Sbjct: 302 --ADYGNKAADTLEQLTHDMCYLFGRATKAVSICPPAYYADLVCDRARIHQK 351
>3qir_A PIWI-like protein 2; structural genomics consortium, SGC, PAZ
domain, RNAI, RNA B RNA binding protein; 2.45A {Homo
sapiens} PDB: 3o7x_A
Length = 148
Score = 154 bits (391), Expect = 7e-44
Identities = 48/149 (32%), Positives = 91/149 (61%), Gaps = 3/149 (2%)
Query: 287 RTSTCLDLIDELKEKFGGNFMERLSQALIGEIVLTRYNNQTYRIDEIDFKQTPMSTFTKR 346
R LD++ + ++ +F + ++ L+G IV+TRYNN+TYRID++D+ +TP +FT
Sbjct: 1 RNDCVLDVMHAIYQQNKEHFQDECTKLLVGNIVITRYNNRTYRIDDVDWNKTPKDSFTMS 60
Query: 347 -GEPKSYVDYYREAYNIEIRDKSQPMLITRVKRKTRRGTNVEESHYIAAIVPELAFLTGL 405
G+ ++++YY + Y I ++++ QP+LI R + + + + ++PEL+F+TG+
Sbjct: 61 DGKEITFLEYYSKNYGITVKEEDQPLLIHRPSERQDNHGMLLKGEIL--LLPELSFMTGI 118
Query: 406 SDAMRNDFQVMKSIASFTRVDPNQKLQAI 434
+ M+ DF+ MK +A + P Q A+
Sbjct: 119 PEKMKKDFRAMKDLAQQINLSPKQHHSAL 147
>2xfm_A MIWI, PIWI-like protein 1; RNA-protein complex, differentiation,
RNA interference; HET: OMU; NMR {Mus musculus}
Length = 150
Score = 150 bits (381), Expect = 2e-42
Identities = 67/152 (44%), Positives = 99/152 (65%), Gaps = 5/152 (3%)
Query: 287 RTSTCLDLIDELKEKFG-GNFMERLSQALIGEIVLTRYNNQTYRIDEIDFKQTPMSTFTK 345
R+ T LD + L ++ F E++S+ LIG IVLT+YNN+TYR+D+ID+ Q P STF K
Sbjct: 1 RSETVLDFMFNLYQQTEEHKFQEQVSKELIGLIVLTKYNNKTYRVDDIDWDQNPKSTFKK 60
Query: 346 R-GEPKSYVDYYREAYNIEIRDKSQPMLITRVKRKTRRGTNVEESHYIAAIVPELAFLTG 404
G S+++YYR+ YN EI D QP+L+++ KR+ G + + +PEL +LTG
Sbjct: 61 ADGSEVSFLEYYRKQYNQEITDLKQPVLVSQPKRRRGPGGTLPGPAML---IPELCYLTG 117
Query: 405 LSDAMRNDFQVMKSIASFTRVDPNQKLQAISK 436
L+D MRNDF VMK +A TR+ P Q+ + + +
Sbjct: 118 LTDKMRNDFNVMKDLAVHTRLTPEQRQREVGR 149
>3o7v_X PIWI-like protein 1; PIWI, RNA silencing, PI-RNA, HIWI1, HILI, PAZ
domain, RNA BI protein; HET: OMU; 2.10A {Homo sapiens}
PDB: 2l5c_A 2l5d_A 3o3i_X 3o6e_X*
Length = 124
Score = 137 bits (346), Expect = 4e-38
Identities = 56/127 (44%), Positives = 81/127 (63%), Gaps = 5/127 (3%)
Query: 288 TSTCLDLIDELKEKFG-GNFMERLSQALIGEIVLTRYNNQTYRIDEIDFKQTPMSTFTKR 346
+ T LD + + F E++S+ LIG +VLT+YNN+TYR+D+ID+ Q P STF K
Sbjct: 1 SETVLDFMFNFYHQTEEHKFQEQVSKELIGLVVLTKYNNKTYRVDDIDWDQNPKSTFKKA 60
Query: 347 -GEPKSYVDYYREAYNIEIRDKSQPMLITRVKRKTRRGTNVEESHYIAAIVPELAFLTGL 405
G S+++YYR+ YN EI D QPML+++ KR+ G + ++PEL +LTGL
Sbjct: 61 DGSEVSFLEYYRKQYNQEITDLKQPMLVSQPKRRRGPGGTLPGPAM---LIPELCYLTGL 117
Query: 406 SDAMRND 412
+D MRND
Sbjct: 118 TDKMRND 124
>4g0o_A Protein argonaute 5; MID domain, small RNA 5' nucleotide
recognition, gene regula; 2.19A {Arabidopsis thaliana}
Length = 139
Score = 90.1 bits (223), Expect = 2e-21
Identities = 31/130 (23%), Positives = 49/130 (37%), Gaps = 12/130 (9%)
Query: 502 TVVNFDQWVLIHIRRDQRNADNFLNCLNRNSNAIGIRVKKPQVI---ALQEEQTLSYLTA 558
T V+F R D+ F L + G+ K I + E L
Sbjct: 15 TCVSFST------RIDRGLPQEFCKQLIGMCVSKGMEFKPQPAIPFISCPPEHIEEALLD 68
Query: 559 LKSMRSDTQFVVIIFNAPRTDRYQAVKKYCCCERPIPSQVINSRTISREDKMKSIVMKIA 618
+ Q +++I T Y +K+ C E I SQ R +++ +K + +A
Sbjct: 69 IHKRAPGLQLLIVILP-DVTGSYGKIKRICETELGIVSQCCQPRQVNKLNKQ--YMENVA 125
Query: 619 LQINCKLGGS 628
L+IN K GG
Sbjct: 126 LKINVKTGGR 135
>4g0x_A Protein argonaute 1; MID domain, small RNA 5' nucleotide
recognition, gene regula; 1.35A {Arabidopsis thaliana}
PDB: 4g0q_A* 4g0p_A 4g0y_A* 4g0z_A*
Length = 147
Score = 88.2 bits (218), Expect = 1e-20
Identities = 25/136 (18%), Positives = 48/136 (35%), Gaps = 14/136 (10%)
Query: 504 VNFDQWVLIHI--RRDQRNADNFLNCLNRNSNAIGIRVKKPQVIALQEEQTLSYLTALKS 561
+ W+ I+ + A F L + G+ V+ + LK+
Sbjct: 9 GTVNNWICINFSRQVQDNLARTFCQELAQMCYVSGMAFNPEPVLPPVSARPEQVEKVLKT 68
Query: 562 M----------RSDTQFVVIIFNAPRTDRYQAVKKYCCCERPIPSQVINSRTISREDKMK 611
+ +++I Y +K+ C E I SQ ++ + + K
Sbjct: 69 RYHDATSKLSQGKEIDLLIVILPDNNGSLYGDLKRICETELGIVSQCCLTKHVFK--MSK 126
Query: 612 SIVMKIALQINCKLGG 627
+ +AL+IN K+GG
Sbjct: 127 QYMANVALKINVKVGG 142
>3luc_A Protein argonaute-2; MID domain, ribonucleoprotein, RNA-binding,
RNA-mediated GEN silencing, translation regulation, RNA
binding protein; 1.69A {Homo sapiens} PDB: 3lud_A*
3lug_A 3luh_A 3luj_A* 3luk_A 3qx8_A* 3qx9_A*
Length = 138
Score = 85.9 bits (212), Expect = 6e-20
Identities = 24/129 (18%), Positives = 47/129 (36%), Gaps = 10/129 (7%)
Query: 502 TVVNFDQWVLIHIRRDQRNADNFLNCLNRNSNAIGIRVKKPQVIALQ---EEQTLSYLTA 558
+ F + + + +F L + S G+ ++ +
Sbjct: 15 AIACFAPQR----QCTEVHLKSFTEQLRKISRDAGMPIQGQPCFCKYAQGADSVEPMFRH 70
Query: 559 LKSMRSDTQFVVIIFNAPRTDRYQAVKKYCCCERPIPSQVINSRTISREDKMKSIVMKIA 618
LK+ + Q VV+I +T Y VK+ + +Q + + + R + +
Sbjct: 71 LKNTYAGLQLVVVILP-GKTPVYAEVKRVGDTVLGMATQCVQMKNVQR--TTPQTLSNLC 127
Query: 619 LQINCKLGG 627
L+IN KLGG
Sbjct: 128 LKINVKLGG 136
>4g0m_A Protein argonaute 2; MID domain, small RNA 5' nucleotide
recognition, gene regula; 2.31A {Arabidopsis thaliana}
Length = 150
Score = 79.0 bits (194), Expect = 2e-17
Identities = 24/140 (17%), Positives = 56/140 (40%), Gaps = 21/140 (15%)
Query: 502 TVVNFDQWVLIHIRRDQRNADNFLNCLNRNSNAIGIRVKKPQVIALQEEQTLSYLTALKS 561
V++F R + ++F++ L +G++++ P V +TLS A++
Sbjct: 15 AVLDFT-----ASERFNKMPNDFVDNLIDRCWRLGMQMEAPIVYKTSRMETLSNGNAIEE 69
Query: 562 M-------------RSDTQFVVIIFNAPRTDRYQAVKKYCCCERPIPSQVINSRTISRED 608
+ + V+ + + D Y+ +K + + +Q + ++
Sbjct: 70 LLRSVIDEASRKHGGARPTLVLCAMS-RKDDGYKTLKWIAETKLGLVTQCFLTGPATK-- 126
Query: 609 KMKSIVMKIALQINCKLGGS 628
+AL++N K+GGS
Sbjct: 127 GGDQYRANLALKMNAKVGGS 146
>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 = 62.6 bits (151), Expect = 5e-10
Identities = 73/552 (13%), Positives = 152/552 (27%), Gaps = 173/552 (31%)
Query: 118 FRGELGQPIKVMVNYIDLSVKEGSGMYEYEVKFN--PPIDSRGI-RNRLINSLNDLL--- 171
+ E QP + YI + + +N + R + L L
Sbjct: 98 IKTEQRQPSMMTRMYI----------EQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLEL 147
Query: 172 --GQYKTFDGMNLFLPF-K--LSSDTVNTTCQTRE----------GSDVQITIIFKRQRQ 216
+ DG+ L K ++ D + + + + + ++
Sbjct: 148 RPAKNVLIDGV---LGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQK 204
Query: 217 FYENLM---------FYNILFR------KIAFLLSMVQFKDCLYDPRSKLLIPQYKL-EV 260
+ NI R ++ LL +++CL L+ L V
Sbjct: 205 LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL-------LV----LLNV 253
Query: 261 WPGFVTAIDEYEGGLKLQIDTSCRVLRTSTCLDLIDELK---------EKFGGNFMER-- 309
A + + + SC++L T+ + D L +
Sbjct: 254 QN--AKAWNAF--------NLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEV 303
Query: 310 ------------------------LSQALIGEIV---LTRYNNQTYRIDEIDFKQTPMST 342
++I E + L ++N ++ D T + +
Sbjct: 304 KSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDN--WKHVNCDKLTTIIES 361
Query: 343 FTKRGEPKSYVDYY------REAYNIEIR---------DKSQPMLITR--VKRKTRRGTN 385
EP Y + + +I KS M++ K
Sbjct: 362 SLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQP 421
Query: 386 VEESHYIAAIVPELAFLTGLSDAMRNDFQVMKSIASFTRVDPNQKLQAISKYINNVNNNK 445
E + I P + L + N++ + +SI + Y N+
Sbjct: 422 KESTISI----PSIYLE--LKVKLENEYALHRSI--------------VDHY--NIPKTF 459
Query: 446 ETSELLKGW---------GLTLNKSMETLNARILPVEKIYMGNNFV-----APGSQEADW 491
++ +L+ + G L + +++ F+ + W
Sbjct: 460 DSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFR--MVFLDFRFLEQKIRHDSTA---W 514
Query: 492 NRQVGTNPALTVVNF-DQWVLIHIRRDQRNADNFLNCLNRNSNAIGIRVKKPQV--IALQ 548
N L + F ++ + + +R + L+ L + + I K + IAL
Sbjct: 515 NASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENL-ICSKYTDLLRIALM 573
Query: 549 EEQTLSYLTALK 560
E + A K
Sbjct: 574 AEDEAIFEEAHK 585
Score = 61.8 bits (149), Expect = 8e-10
Identities = 90/622 (14%), Positives = 183/622 (29%), Gaps = 190/622 (30%)
Query: 321 TRYNNQTYRIDEI--DFKQTPMSTFTKRGEPKSYVDYYREAYNIEIRDK--SQPMLITRV 376
Y+ +I F+ F + K D + + E D ++
Sbjct: 9 FETGEHQYQYKDILSVFEDA----FVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGT 64
Query: 377 KRK----TRRGTNVEESHYIAAIVPELAFLTGLSDAMRNDFQ-VMKSIASFTRVDPNQKL 431
R + + + F+ + +R +++ +M I + + Q
Sbjct: 65 LRLFWTLLSKQEEMVQ-----------KFV---EEVLRINYKFLMSPI----KTEQRQPS 106
Query: 432 QAISKYINNVNNNKETSELLKGWGLTLNKSMETLNARILPVEKIYMGNNFVAPGSQEADW 491
YI + +++ + ++ R+ P K+
Sbjct: 107 MMTRMYIEQRDRLYNDNQVFAKYNVS----------RLQPYLKL---------------- 140
Query: 492 NRQVGTNPALTVVNFDQWVLIHIRRDQRNADNFLNCLNRNSNAIGIRVKKPQVIALQEEQ 551
RQ AL + + VLI L G K +AL
Sbjct: 141 -RQ-----ALLELRPAKNVLID---------GVLGS--------G---K--TWVALD--- 169
Query: 552 TLSYLTALKSMRSDTQFVVIIF-------NAPRTD-------RYQAVKKYCCCERPIPSQ 597
S + + IF N+P T YQ + R S
Sbjct: 170 ------VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNW--TSRSDHSS 221
Query: 598 VINSRTISREDKMKSIVM----KIALQINCKLGGSL---WSVQIPYDCAMVIGIDVYHEG 650
I R S + +++ ++ + L + L + + + +
Sbjct: 222 NIKLRIHSIQAELRRLLKSKPYENCLLV-------LLNVQNAKA---------WNAF--N 263
Query: 651 VGSQGQNIVGLVASTNKDFTTYYSQAVIQRRGQEITDSIAQPF--KQALDRFI------- 701
+ + I L+ + K T + S A D + + +
Sbjct: 264 LSCK---I--LLTTRFKQVTDFLSAA---TTTHISLDHHSMTLTPDEVKSLLLKYLDCRP 315
Query: 702 -----QANSVPPKQIFIF----RDGVSDGQLDSVSRVEIDQYQQIVDTIMTTLPSCSYAP 752
+ + P+++ I RDG++ D+ V D+ I+++ + L Y
Sbjct: 316 QDLPREVLTTNPRRLSIIAESIRDGLA--TWDNWKHVNCDKLTTIIESSLNVLEPAEYRK 373
Query: 753 KITAI-IVQKRINTKI-FQLLSAGERPNLANAPSGSVLDHTVTRKTLSDFFLVSQHVRQG 810
+ + + I LLS + S + V L + LV + ++
Sbjct: 374 MFDRLSVFPP--SAHIPTILLSL-----IWFDVIKSDVMVVV--NKLHKYSLVEKQPKES 424
Query: 811 TVT-PSHYIVLR-NDNNVKVDHLQRL--SYKLCHLYYNWPGTIRVPAVCQY-AHRIAYLT 865
T++ PS Y+ L+ N H + + Y + + + + P + QY I +
Sbjct: 425 TISIPSIYLELKVKLENEYALH-RSIVDHYNIPKTFDSD--DLIPPYLDQYFYSHIGH-- 479
Query: 866 GMHLQRLPSDVLSDKLF---YL 884
HL+ + LF +L
Sbjct: 480 --HLKNIEHPERMT-LFRMVFL 498
Score = 61.0 bits (147), Expect = 1e-09
Identities = 82/624 (13%), Positives = 182/624 (29%), Gaps = 184/624 (29%)
Query: 270 EYEGGLKLQIDTSCRVLRTSTCLDLIDELKEKFGGNF-------MER--LSQALIGEIVL 320
++E G + + D++ ++ F NF M + LS+ I I++
Sbjct: 8 DFETG---EHQYQYK--------DILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIM 56
Query: 321 TRYN-NQTYRIDEIDFKQTPMST---FTKRGEPKSYVDYYREAYNIEIRDKSQPMLITRV 376
++ + T R+ F + +Y + E R S +
Sbjct: 57 SKDAVSGTLRLFWT-LLSKQEEMVQKFVEEVLRINY-KFLMSPIKTEQRQPSMMTRMYIE 114
Query: 377 KR-KTRRGTNVEESHYIAAIVPELAFLTGLSDAMRNDFQV---M----KSI--ASFTRVD 426
+R + V + ++ + P L L + + + K+
Sbjct: 115 QRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCL-- 172
Query: 427 PNQKLQAISK----YINNVNNNKETSELLKGWGLTLNKSMETLNARILPVEKI---YMGN 479
+ K+Q ++N + N +L+ ++ L +I P + N
Sbjct: 173 -SYKVQCKMDFKIFWLN-LKNCNSPETVLE--------MLQKLLYQIDPNWTSRSDHSSN 222
Query: 480 NFVAPGSQEADWNRQVGTNP---ALTVVNFDQWVLIHIRRDQRNADNF-LNC----LNRN 531
+ S +A+ R + + P L V+ + + + + F L+C R
Sbjct: 223 IKLRIHSIQAELRRLLKSKPYENCLLVLL-NVQ-------NAKAWNAFNLSCKILLTTRF 274
Query: 532 SNAI----GIRVKKPQVI----ALQEEQTLSYLTALKSMRSDTQ-----------FVVII 572
+ L ++ S L LK + Q + I
Sbjct: 275 KQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL--LKYLDCRPQDLPREVLTTNPRRLSI 332
Query: 573 FNA------PRTDRYQAVKKYCCCER-------------------------------PIP 595
D ++ V C++ IP
Sbjct: 333 IAESIRDGLATWDNWKHVN----CDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIP 388
Query: 596 SQVI-----NSRTISREDKMKSIVMKIALQINCKLGG-SLWSVQIPYDCAM--------V 641
+ ++ + + + ++ K S+ S+ + +
Sbjct: 389 TILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRS 448
Query: 642 IGIDVYHEGVGSQGQNIVGLVASTNKDFTTYYSQAVIQRRGQEITDSIAQPFKQA-LD-R 699
I +D Y+ ++ +YS + E + + F+ LD R
Sbjct: 449 I-VDHYNIPKTFDSDDL-----IPPYLDQYFYSHIGHHLKNIEHPERMTL-FRMVFLDFR 501
Query: 700 FIQANSVPPKQIFIFRDGV----SDGQLDSVSRVEI---------DQYQQIVDTIMTTLP 746
F++ K I D S L+++ +++ +Y+++V+ I+ LP
Sbjct: 502 FLEQ-----K---IRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLP 553
Query: 747 SCSYAPKITAIIVQKRINTKIFQL 770
+I K T + ++
Sbjct: 554 KIE-----ENLICSK--YTDLLRI 570
>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 = 56.6 bits (136), Expect = 3e-08
Identities = 52/264 (19%), Positives = 77/264 (29%), Gaps = 111/264 (42%)
Query: 104 LSISKSKPPSEPVYFRGELGQPIKVMVNYIDLSVKEGSGMYEYEVKFNPPIDSRGIRNRL 163
L I + P + ++F GE G+ I+ NY + F +D + ++
Sbjct: 1662 LDIVINNPVNLTIHFGGEKGKRIR--ENYSAM-------------IFETIVDGKLKTEKI 1706
Query: 164 INSLNDLLGQYKTFDGMNLFLPFKLSSDTVNTTCQTREGSDVQITIIFKRQRQFYENLMF 223
+N+ Y TF L S T T Q +
Sbjct: 1707 FKEINEHSTSY-TFRSEKGLL-----SATQFT----------QPAL-------------- 1736
Query: 224 YNILFRKIAFLLSMVQFKDCLYDPRSKLLIPQYK------LEVWPGFVTAIDEY-----E 272
L+ F+D L +SK LIP L G EY
Sbjct: 1737 ---------TLMEKAAFED-L---KSKGLIPADATFAGHSL----G------EYAALASL 1773
Query: 273 GGLKLQIDTSCRVLR----TSTCLDLIDELKEKFGG-------------------NFMER 309
+ + I++ V+ T DEL G +ER
Sbjct: 1774 ADV-MSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVER 1832
Query: 310 LSQALIG---EIVLTRYN--NQTY 328
+ + G EIV YN NQ Y
Sbjct: 1833 VGKR-TGWLVEIV--NYNVENQQY 1853
Score = 50.4 bits (120), Expect = 3e-06
Identities = 88/559 (15%), Positives = 161/559 (28%), Gaps = 143/559 (25%)
Query: 239 QFKDCLYDPRSKLLI---PQYKLEVWP---GFVTAIDEYEGGLKLQIDTSCRVLRTSTCL 292
QF L +P P E+ G+V+++ E ++ +VL
Sbjct: 36 QFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVE-----PSKVGQFDQVLNL---- 86
Query: 293 DLIDELKEKF-GGN----FMERLSQALIGEIVLTRYNNQTY----RIDEIDFKQTPMSTF 343
+ E + + GN +L Q +V T+ + Y + + F + S
Sbjct: 87 -CLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSAL 145
Query: 344 ---TKRGEPKSYV---------DYY---REAYNI------EIRDKSQPMLITRVKRKTRR 382
G + DY+ R+ Y ++ S L + R
Sbjct: 146 FRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELI-----R 200
Query: 383 GTNVEESHYIAAIVPELAFLTGLSDAMRNDFQVMKSIA-SFTRVDPNQKLQAISKYINNV 441
T E + + L +L S+ D+ + SI S P + ++ Y+
Sbjct: 201 TTLDAEKVFTQGL-NILEWLENPSNTPDKDY--LLSIPISC----PLIGVIQLAHYVV-- 251
Query: 442 NNNKETSELLKGWGLTLNKSMETLNARILPVEKIYMGNNFVAPGSQEADWNRQVGTNPAL 501
K G T + L + + +A + V A+
Sbjct: 252 --------TAKLLGFTPGELRSYLKGATGHSQGLVTA-VAIAETDSWESFFVSVRK--AI 300
Query: 502 TVVNFDQWVLIHIRRDQRNADNFLN-CLNRNSNAIGIRVKKPQ--VIALQEEQTLSYLTA 558
TV+ F + I +R + + L + +S V P + L +EQ Y+
Sbjct: 301 TVL-F--F--IGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNK 355
Query: 559 L-KSMRSDTQFVVIIFNAPRT--------DRY---QAVKKYCCCERPIPSQVINSRTISR 606
+ + Q + + N + Y ++K PS + SR
Sbjct: 356 TNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKA-----PSGLDQSRIPFS 410
Query: 607 EDKMK-------------SIVMKIALQINCKLGGSLWSVQIPYDCAMVIGIDVYHEGVGS 653
E K+K S ++ A + L + ++ I I VY
Sbjct: 411 ERKLKFSNRFLPVASPFHSHLLVPASD---LINKDLVKNNVSFNAKD-IQIPVYD----- 461
Query: 654 QGQNIVGLVASTNKDFTTYYSQAVIQRRGQEITDSIA-QPFKQALDRFIQANSVPPKQIF 712
D ++ I++ I + + + I
Sbjct: 462 ---------TFDGSD---------LRVLSGSISERIVDCIIRLPVK-WETTTQFKATHIL 502
Query: 713 IF-RDGVSD-GQLDSVSRV 729
F G S G L R
Sbjct: 503 DFGPGGASGLGVL--THRN 519
Score = 47.7 bits (113), Expect = 2e-05
Identities = 106/632 (16%), Positives = 185/632 (29%), Gaps = 219/632 (34%)
Query: 26 RPGSLPTTSTDDTTGSHAPGIPSPSTSSPSQASEPAPKHIGRGRLLQQLLAKGVVPTSGT 85
RP +L + GS + P T+S AS +L +Q PT G
Sbjct: 7 RPLTL-------SHGSLEHVLLVP-TASFFIAS----------QLQEQFNKILPEPTEGF 48
Query: 86 PGPGGDAPSSPPTQQMKALS-ISKSKPPSEPVYFRGELGQPIKVMVNYIDLSVKEGSGMY 144
D P++P K L +S PS+ G+ Q + + + + EG+ ++
Sbjct: 49 AA--DDEPTTPAELVGKFLGYVSSLVEPSKV----GQFDQVLNLCLTEFENCYLEGNDIH 102
Query: 145 EYEVKFNPPIDSRGIRNRLINSLNDLLGQYKTFDGMNLFLPFKLSSDTVNTTCQTREGSD 204
K D+ ++ + + + K +S EG +
Sbjct: 103 ALAAKLLQENDTTLVKTKEL-----IKNYITARIMAKRPFDKKSNSALFRAV---GEG-N 153
Query: 205 VQITIIFKRQ----------RQFYENLMFYNI----LFRKIAFLLSM------------- 237
Q+ IF Q R Y+ Y++ L + A LS
Sbjct: 154 AQLVAIFGGQGNTDDYFEELRDLYQT---YHVLVGDLIKFSAETLSELIRTTLDAEKVFT 210
Query: 238 --VQFKDCLYDPRSKLLIP--QYKLEV---WPG-FVTAIDEYEGGLKLQIDTSCRVLRTS 289
+ + L +P + P Y L + P V + Y + ++L +
Sbjct: 211 QGLNILEWLENPSNT---PDKDYLLSIPISCPLIGVIQLAHYV--------VTAKLLGFT 259
Query: 290 TCLDLIDELKEKFGG---------------------NFMERLSQAL-----IGEIVLTRY 323
EL+ G +F + +A+ IG R
Sbjct: 260 P-----GELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIG----VR- 309
Query: 324 NNQTYRIDEIDFKQTPMSTFTKRGEPKSYVDYYREAYNIEIRDKSQPMLITRVKRKTRRG 383
+ Y + S G P S + + I + +Q + V +
Sbjct: 310 CYEAYPNTSLPPSILEDSLENNEGVP-SPM--------LSISNLTQEQVQDYVNK----- 355
Query: 384 TNV---EESH-YIA------AIV---PELAFLTGLSDAMRN-------D-----FQVMKS 418
TN I+ +V P + L GL+ +R D F K
Sbjct: 356 TNSHLPAGKQVEISLVNGAKNLVVSGPPQS-LYGLNLTLRKAKAPSGLDQSRIPFSERKL 414
Query: 419 IASFTRVDPNQKLQAI-----SKYINNVNNNKETSELLKGWGLTLNKSMETLNARIL--P 471
S R P + S + S+L+ L K+ + NA+ + P
Sbjct: 415 KFS-NRFLP------VASPFHSHLL------VPASDLINKD---LVKNNVSFNAKDIQIP 458
Query: 472 VEKIYMGNN----------------FVAPGSQEADWNRQVGTNPALTVVNFDQWVLIHIR 515
V + G++ P W A +++F
Sbjct: 459 VYDTFDGSDLRVLSGSISERIVDCIIRLP----VKWETTTQF-KATHILDFG-------- 505
Query: 516 RDQRNADNFLNCL-NRNSNAIGIRVKKPQVIA 546
+ L L +RN + G+RV ++A
Sbjct: 506 ---PGGASGLGVLTHRNKDGTGVRV----IVA 530
Score = 46.6 bits (110), Expect = 4e-05
Identities = 86/514 (16%), Positives = 167/514 (32%), Gaps = 186/514 (36%)
Query: 461 SMETLNARILPVEKIYMGNNFVAPGSQEADWNRQVGTNPALTVVNFDQWVLIHIRRDQRN 520
+ L + ++G +V+ + ++ + L + L
Sbjct: 56 TPAELVGK-------FLG--YVS---SLVEPSKVGQFDQVLNLC------LTEFENC--- 94
Query: 521 ADNFLNCLNRNSNAIGIRVKKPQVIALQEEQTL--SYLTA----------------LKSM 562
+L + +A+ ++ + L + + L +Y+TA +++
Sbjct: 95 ---YLE--GNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAV 149
Query: 563 RSDTQFVVIIF----NAPRTDRY----QAV-KKYCCCERPIPSQVIN---------SRTI 604
+V IF N TD Y + + + Y + +I RT
Sbjct: 150 GEGNAQLVAIFGGQGN---TDDYFEELRDLYQTY----HVLVGDLIKFSAETLSELIRTT 202
Query: 605 SREDKMKSIVMKIA--LQINCKLGGSLWSVQIPYDCAMVIGI------------------ 644
+K+ + + I L+ + + IP C + IG+
Sbjct: 203 LDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPL-IGVIQLAHYVVTAKLLGFTPG 261
Query: 645 DVYH--EGVGSQGQNIVG--LVAS--TNKDFTTYYSQAV-----IQRRGQEITDSIAQPF 693
++ +G Q +V +A + + F +A+ I R E A P
Sbjct: 262 ELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYE-----AYPN 316
Query: 694 KQALDRFIQANSVPPKQIFIFRDGVSDGQ------LDSVSRVEIDQYQQIVDTIMTTLPS 747
S+PP I D + + + L S+S + +Q Q V+ + LP+
Sbjct: 317 T----------SLPPS---ILEDSLENNEGVPSPML-SISNLTQEQVQDYVNKTNSHLPA 362
Query: 748 CSYAPKITAIIVQKRINT-KIFQLLSAGERPNL---------ANAPSGSVLDHTVT---- 793
++ I + +N K + +G +L A APSG LD +
Sbjct: 363 ---GKQV-EISL---VNGAKNLVV--SGPPQSLYGLNLTLRKAKAPSG--LDQSRIPFSE 411
Query: 794 RK-TLSDFFL-VSQHVRQGTVTP--SHYIVLRNDNNVKVDHLQR--LSYKLCHLYYNWPG 847
RK S+ FL V+ +P SH L +++ L + +S+ +
Sbjct: 412 RKLKFSNRFLPVA--------SPFHSHL--LVPASDLINKDLVKNNVSFNAKDI------ 455
Query: 848 TIRVPAVCQYAHRIAYLT--GMHLQRLPSDVLSD 879
++P V Y T G L+ L +
Sbjct: 456 --QIP-V--------YDTFDGSDLRVLSGSISER 478
Score = 44.3 bits (104), Expect = 2e-04
Identities = 53/273 (19%), Positives = 93/273 (34%), Gaps = 93/273 (34%)
Query: 354 DYYREAYNIEIRD--KSQPMLITRVKRKTRRGTNVEESHYIAAIVPELAFLTGLSDAMRN 411
+++++ Y I D + P+ +T + +G + E +Y A + F + D
Sbjct: 1651 NHFKDTYGFSILDIVINNPVNLT-IHFGGEKGKRIRE-NYSA-----MIF-ETIVDGKLK 1702
Query: 412 DFQVMKSI----ASFTRVDPNQKL------Q-AI---SKYINNVNNNKETSELLKGWG-- 455
++ K I S+T L Q A+ K E LK G
Sbjct: 1703 TEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAF---------EDLKSKGLI 1753
Query: 456 -----------------------LTLNKSMETLNAR------ILPVEKIYMGN------- 479
+++ +E + R +P +++ N
Sbjct: 1754 PADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAIN 1813
Query: 480 --NFVAPGSQEA--DWNRQVG--TNPALTVVNF----DQWVLIHIRRDQRNADNFLNCLN 529
A SQEA +VG T + +VN+ Q+V D R D N LN
Sbjct: 1814 PGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYV---AAGDLRALDTVTNVLN 1870
Query: 530 RNSNAIGIRVKKPQVIALQEEQTLSYLTALKSM 562
I+++K +I LQ+ +LS L ++
Sbjct: 1871 F------IKLQKIDIIELQK--SLS-LEEVEGH 1894
Score = 39.3 bits (91), Expect = 0.007
Identities = 63/382 (16%), Positives = 108/382 (28%), Gaps = 161/382 (42%)
Query: 140 GS-----GMYEYEVKFNPPIDSRGIRNRLINSLNDLLGQYKTFDGMNLFLPFKLSSDTV- 193
GS GM Y+ ++ + NR N D G F + D V
Sbjct: 1625 GSQEQGMGMDLYK---TSKA-AQDVWNRADNHFKDTYG-------------FSIL-DIVI 1666
Query: 194 -NTTCQTREGSDVQITIIF-----KRQRQFYENLMFYNI---------LFRKIAFLLSMV 238
N +TI F KR R+ Y ++F I +F++I +
Sbjct: 1667 NNPV---------NLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSY 1717
Query: 239 QFKDCLYDPRSKLLIPQYKLEVWPGFVT--AIDEYEGGLKLQIDTSCRVLRTSTCLDLID 296
F+ + L Q+ T A+ +
Sbjct: 1718 TFRS----EKGLLSATQF---------TQPAL-----------------TLMEKA--AFE 1745
Query: 297 ELKEK--------FGGNFMERLSQALIGEIVLTRYNNQTY-----RIDEIDFKQTPMSTF 343
+LK K F G S +GE Y D + + +
Sbjct: 1746 DLKSKGLIPADATFAG-----HS---LGE----------YAALASLADVMSIESL-VEVV 1786
Query: 344 TKRGEPKSYVDYYREAYNIEIRDKSQPMLITRVKRKTRRGTNVEESHYIAAIVPELAFLT 403
RG + A V R +N + AI P +
Sbjct: 1787 FYRGM------TMQVA----------------VPRDELGRSNYG----MIAINPGRVAAS 1820
Query: 404 GLSDAMRNDFQVMKSIASFTR--VD------PNQ------KLQAISKYINNVNNNKETS- 448
+A++ V++ + T V+ NQ L+A+ N +N K
Sbjct: 1821 FSQEALQ---YVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKI 1877
Query: 449 ELLKGWGLTLNKSMETLNARIL 470
++++ L + S+E + +
Sbjct: 1878 DIIE---LQKSLSLEEVEGHLF 1896
>2qvw_A GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral twin, hydrolase;
3.00A {Giardia intestinalis} PDB: 2ffl_A
Length = 756
Score = 42.6 bits (100), Expect = 5e-04
Identities = 23/64 (35%), Positives = 35/64 (54%), Gaps = 1/64 (1%)
Query: 310 LSQALIGEIVLT-RYNNQTYRIDEIDFKQTPMSTFTKRGEPKSYVDYYREAYNIEIRDKS 368
LS +L G +V T + Y + ID QT +S FT+ E +Y+ YY A+NI +R
Sbjct: 152 LSASLHGRMVATPEISWSLYVVLGIDSTQTSLSYFTRANESITYMRYYATAHNIHLRAAD 211
Query: 369 QPML 372
P++
Sbjct: 212 LPLV 215
>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 = 35.7 bits (81), Expect = 0.023
Identities = 10/44 (22%), Positives = 17/44 (38%), Gaps = 21/44 (47%)
Query: 460 KSMETLNARILPVEKIYMGNNFVAPGSQEADWNRQVGTNPALTV 503
++++ L A + K+Y A S A PAL +
Sbjct: 20 QALKKLQASL----KLY------ADDS--A---------PALAI 42
Score = 29.5 bits (65), Expect = 2.9
Identities = 10/41 (24%), Positives = 16/41 (39%), Gaps = 17/41 (41%)
Query: 429 QKLQAISKYINNVNNNKETSELLKGW------GLTLNKSME 463
+K QA+ K + S LK + L + +ME
Sbjct: 18 EK-QALKKL--------QAS--LKLYADDSAPALAIKATME 47
>1deq_A Fibrinogen (alpha chain); coiled-coil, blood clotting; 3.50A {Bos
taurus} SCOP: i.9.1.1
Length = 390
Score = 37.1 bits (85), Expect = 0.025
Identities = 14/74 (18%), Positives = 20/74 (27%)
Query: 27 PGSLPTTSTDDTTGSHAPGIPSPSTSSPSQASEPAPKHIGRGRLLQQLLAKGVVPTSGTP 86
P + G+ PG P +S P P G + G P
Sbjct: 266 APGSPRKPGTSSIGNVNPGSYGPGSSGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNPGRP 325
Query: 87 GPGGDAPSSPPTQQ 100
PG +P +
Sbjct: 326 EPGSAGTWNPGRPE 339
Score = 36.0 bits (82), Expect = 0.054
Identities = 19/89 (21%), Positives = 27/89 (30%), Gaps = 4/89 (4%)
Query: 31 PTTSTDDTTGSHAPGIPSPSTSSPSQASEPAPKHIGRGRLLQQLLAKGVVPTSGTPGPG- 89
P + G+ PG P P ++ P P G + G P PG
Sbjct: 296 PGRPEPGSAGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNPGRPEPGS 355
Query: 90 ---GDAPSSPPTQQMKALSISKSKPPSEP 115
+ SS + S + PS P
Sbjct: 356 AGTWNTGSSGSSSFRPDSSGHGNIRPSSP 384
Score = 30.6 bits (68), Expect = 2.1
Identities = 15/75 (20%), Positives = 24/75 (32%), Gaps = 2/75 (2%)
Query: 26 RPGSLPTTSTDDTTGSHAPGIPSPSTSSPSQASEPAPKHIGRGRLLQQLLAKGVVPTSGT 85
G P + G+ + G +P + P + P G + ++GT
Sbjct: 262 GTGLAPGSPRK--PGTSSIGNVNPGSYGPGSSGTWNPGRPEPGSAGTWNPGRPEPGSAGT 319
Query: 86 PGPGGDAPSSPPTQQ 100
PG P S T
Sbjct: 320 WNPGRPEPGSAGTWN 334
>3mj0_A Protein argonaute-2; argonaut, PAZ domain, 3'-END 2'-O-methylated
ssRNA, RNA-RNA protein complex; HET: OMU; 2.31A
{Drosophila melanogaster} PDB: 1t2r_A 1t2s_A
Length = 124
Score = 34.5 bits (79), Expect = 0.043
Identities = 13/78 (16%), Positives = 22/78 (28%), Gaps = 7/78 (8%)
Query: 308 ERLSQALIGEIVLTRYNNQ------TYRIDEIDFKQTPMSTFTKRGEPKSYVDYYREAYN 361
L L G V+ YR++ + TF G+ + Y+ N
Sbjct: 29 RFLEPFLRGINVVYTPPQSFQSAPRVYRVNGLSRAPASSETFEHDGKKVTIASYFHS-RN 87
Query: 362 IEIRDKSQPMLITRVKRK 379
++ L K
Sbjct: 88 YPLKFPQLHCLNVGSSIK 105
>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 = 35.5 bits (81), Expect = 0.076
Identities = 17/101 (16%), Positives = 30/101 (29%), Gaps = 12/101 (11%)
Query: 19 RREEEEKRPG-SLPTTSTDDTTGSHAPG-IPSPSTSSPSQASEPAPKHIGRGRLLQQLLA 76
R P S+ + ++D H P +P P+ P + P +
Sbjct: 16 PRGSHMVIPSASVTSAASDFLAALHPPVTVPDPAPPPPPAPAAGNPPDT---------VT 66
Query: 77 KGVVPTSGTPGPGGDAPSSP-PTQQMKALSISKSKPPSEPV 116
V GP G +S P + ++ + P
Sbjct: 67 GDSVLQRILRGPTGPGTTSLAPAVRYGRQPGPEAPASAPPA 107
Score = 34.3 bits (78), Expect = 0.18
Identities = 14/68 (20%), Positives = 17/68 (25%), Gaps = 5/68 (7%)
Query: 33 TSTDDTTGSHAPGIPSPSTSSPSQASEPAPKHIGRGRLLQQLLAKGVVPTSGTPGPGGDA 92
+S S PS + A L L VP P P A
Sbjct: 3 SSHHHHHHSSGLVPRGSHMVIPSASVTSAA-----SDFLAALHPPVTVPDPAPPPPPAPA 57
Query: 93 PSSPPTQQ 100
+PP
Sbjct: 58 AGNPPDTV 65
>1vyn_A Argonaute2; nucleic acid binding, RNA interference; NMR {Drosophila
melanogaster} SCOP: b.34.14.1
Length = 143
Score = 33.7 bits (77), Expect = 0.092
Identities = 13/78 (16%), Positives = 22/78 (28%), Gaps = 7/78 (8%)
Query: 308 ERLSQALIGEIVLTRYNNQ------TYRIDEIDFKQTPMSTFTKRGEPKSYVDYYREAYN 361
L L G V+ YR++ + TF G+ + Y+ N
Sbjct: 31 RFLEPFLRGINVVYTPPQSFQSAPRVYRVNGLSRAPASSETFEHDGKKVTIASYFHS-RN 89
Query: 362 IEIRDKSQPMLITRVKRK 379
++ L K
Sbjct: 90 YPLKFPQLHCLNVGSSIK 107
>1t6c_A Exopolyphosphatase; alpha/beta protein, actin-like fold, hydrolase;
1.53A {Aquifex aeolicus} SCOP: c.55.1.8 c.55.1.8 PDB:
1t6d_A 2j4r_A*
Length = 315
Score = 34.1 bits (79), Expect = 0.16
Identities = 15/56 (26%), Positives = 28/56 (50%), Gaps = 6/56 (10%)
Query: 516 RDQRNADNFLNCLNRNSNAIGIRVKKPQVIALQEEQTLSYLTALKSMRSDTQFVVI 571
R +NA+ FL R +G+ V +VI ++E +YL S++ + + V+
Sbjct: 94 RRAKNAEEFLE---RVKREVGLVV---EVITPEQEGRYAYLAVAYSLKPEGEVCVV 143
>2kvr_A Ubiquitin carboxyl-terminal hydrolase 7; USP7, ubiquitin-like
domain, UBL, ubiquitin specific protease, HOST-virus
interaction, nucleus, protease; NMR {Homo sapiens}
Length = 130
Score = 31.7 bits (72), Expect = 0.39
Identities = 12/68 (17%), Positives = 27/68 (39%), Gaps = 6/68 (8%)
Query: 284 RVLRTSTCLDLIDELKEKFGGNFMERLSQALIGEIVLTRYNNQTYRIDEIDFKQTPMSTF 343
+VL+ S+ + + L + G + L + R +N T R +D + T
Sbjct: 61 KVLKNSSLAEFVQSLSQTMG---FPQDQIRLW--PMQAR-SNGTKRPAMLDNEADGNKTM 114
Query: 344 TKRGEPKS 351
+ + ++
Sbjct: 115 IELSDNEN 122
>2ylm_A Ubiquitin carboxyl-terminal hydrolase 7; UBL; 2.70A {Homo sapiens}
Length = 530
Score = 32.7 bits (74), Expect = 0.56
Identities = 14/87 (16%), Positives = 31/87 (35%), Gaps = 6/87 (6%)
Query: 284 RVLRTSTCLDLIDELKEKFGGNFMERLSQALIGEIVLTRYNNQTYRIDEIDFKQTPMSTF 343
+VL+ S+ + + L + G Q I + +N T R +D + T
Sbjct: 41 KVLKNSSLAEFVQSLSQTMG------FPQDQIRLWPMQARSNGTKRPAMLDNEADGNKTM 94
Query: 344 TKRGEPKSYVDYYREAYNIEIRDKSQP 370
+ + ++ + E + E+
Sbjct: 95 IELSDNENPWTIFLETVDPELAASGAT 121
>3o72_A EFEB, redox component of A tripartite ferrous iron TRAN; EFEB in
complex with heme, heme deferrochelatase, heme bindi
binding protein; HET: HEM; 1.95A {Escherichia coli}
PDB: 2y4f_A* 2wx6_A* 2wx7_A* 2y4d_A* 2y4e_A*
Length = 396
Score = 30.9 bits (69), Expect = 1.8
Identities = 18/84 (21%), Positives = 32/84 (38%), Gaps = 7/84 (8%)
Query: 21 EEEEKRPGSLPTTSTDDT---TGSHAPGIPSPSTSSPSQAS---EPAPKHIGRGRLLQQL 74
++ + PG+L + ++ G H GI +P ++ + + K RL + L
Sbjct: 1 QKTQSAPGTLSPVARNEKQPFYGEHQAGILTPQQAAMMLVAFDVLASDKADLE-RLFRLL 59
Query: 75 LAKGVVPTSGTPGPGGDAPSSPPT 98
+ T G P P PP
Sbjct: 60 TQRFAFLTQGGAAPETPNPRLPPL 83
>1mv3_A MYC box dependent interacting protein 1; tumor suppressor,
endocytosis/exocytosis complex; NMR {Homo sapiens} SCOP:
b.34.2.1
Length = 213
Score = 30.0 bits (66), Expect = 2.5
Identities = 17/96 (17%), Positives = 26/96 (27%), Gaps = 4/96 (4%)
Query: 23 EEKRPGSLPTTSTDDTTGSHAPGIPSPSTSSPSQASEPAPKHIGRGRLLQQLLAK--GVV 80
E R P + T G+ P SPS P PKH + Q+ +
Sbjct: 8 PEIRVNHEPEPAGGATPGATLP--KSPSQLRKGPPVPPPPKHTPSKEVKQEQILSLFEDT 65
Query: 81 PTSGTPGPGGDAPSSPPTQQMKALSISKSKPPSEPV 116
P+ + ++ P E
Sbjct: 66 FVPEISVTTPSQPAEASEVAGGTQPAAGAQEPGETA 101
>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 = 30.6 bits (68), Expect = 3.0
Identities = 14/86 (16%), Positives = 24/86 (27%), Gaps = 9/86 (10%)
Query: 40 GSHAPGIPSPSTSSPSQASEPAPKHIGRGRLLQQLLAKGVVPTSGTPGPGGDAPSSPPTQ 99
G +A + P+ P Q A G+ P P G +P +
Sbjct: 17 GQNATPLQQPAQFMPPQDPAAAG---------MSYGQMGMPPQGAVPSMGQQQFLTPAQE 67
Query: 100 QMKALSISKSKPPSEPVYFRGELGQP 125
Q+ + ++ L P
Sbjct: 68 QLHQQIDQATTSMNDMHLHNVPLVDP 93
>1kmt_A RHO GDP-dissociation inhibitor 1; immunoglobulin fold, beta
sandwich motif, isoprenyl-binding, protein binding;
1.30A {Homo sapiens} SCOP: b.1.18.8 PDB: 2jhu_A 2jhv_A
2jhw_A 1ft3_A 1ft0_A 1qvy_A 2jhz_A 2bxw_A 2jhx_A 2jhy_A
1rho_A 1fso_A 2ji0_A 2jhs_A* 2jht_A 1ajw_A 1gdf_A
Length = 141
Score = 29.1 bits (65), Expect = 3.1
Identities = 12/53 (22%), Positives = 22/53 (41%), Gaps = 1/53 (1%)
Query: 178 DGMNLFLPFKLSSDTVNTTCQTREGSDVQITIIFKRQRQFYENLMFYNILFRK 230
+ L L L S + +EG + +I I F+ R+ + + +RK
Sbjct: 21 GPLELDLTGDLESFK-KQSFVLKEGVEYRIKISFRVNREIVSGMKYIQHTYRK 72
>1goi_A Chitinase B; chitin degradation, hydrolase, glycosidase; 1.45A
{Serratia marcescens} SCOP: b.72.2.1 c.1.8.5 d.26.3.1
PDB: 1o6i_A* 1e6r_A* 1e15_A 1gpf_A* 1ur8_A* 1w1p_A*
1w1t_A* 1w1v_A* 1w1y_A* 1e6p_A 1e6n_A 1h0g_A* 1h0i_A*
1ogb_A 1ogg_A* 1e6z_A* 1ur9_A*
Length = 499
Score = 29.9 bits (67), Expect = 4.2
Identities = 9/60 (15%), Positives = 23/60 (38%), Gaps = 9/60 (15%)
Query: 126 IKVMVNYIDLSV---KEGSGMYEYEVKFNPPIDSRGIRNRLINSLNDLLGQYKTFDGMNL 182
+++M S+ + + + + + R + S ++ Y FDG+N+
Sbjct: 88 LRIM-----FSIGGWYYSNDLGVSHANYVNAVKTPASRAKFAQSCVRIMKDYG-FDGVNI 141
>3mdq_A Exopolyphosphatase; structural genomics, joint center for ST
genomics, JCSG, protein structure initiative, PSI-2,
hydrol; HET: MSE; 1.50A {Cytophaga hutchinsonii}
Length = 315
Score = 29.4 bits (67), Expect = 4.6
Identities = 10/57 (17%), Positives = 20/57 (35%), Gaps = 7/57 (12%)
Query: 516 RDQRNADNFLNCLNRNSNAIGIRVKKPQVIALQEEQTLSYLTALKSM-RSDTQFVVI 571
R N ++ R + I V +VI E L + +++ D + +
Sbjct: 86 RSGSNKQVLID---RIKKEVNIDV---EVIDGAREAELIFRGVQQAVPMEDHISLAM 136
>1yem_A Hypothetical protein; structural genomics, southeast collaboratory
for structural genomics, secsg, protein structure
initiative, PSI; 2.30A {Pyrococcus furiosus} SCOP:
d.63.1.2
Length = 179
Score = 29.2 bits (65), Expect = 4.8
Identities = 7/37 (18%), Positives = 12/37 (32%), Gaps = 2/37 (5%)
Query: 142 GMYEYEVKFNPPIDSRGIRNRLINSLNDLLGQYKTFD 178
E E+KF I + L + + + D
Sbjct: 7 HGSEVEIKF--KIKLEDFLHTLNTFNPEFVRYEEQED 41
>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 = 29.2 bits (65), Expect = 5.5
Identities = 17/78 (21%), Positives = 21/78 (26%)
Query: 27 PGSLPTTSTDDTTGSHAPGIPSPSTSSPSQASEPAPKHIGRGRLLQQLLAKGVVPTSGTP 86
+ T S + PG P A P G G+ P GTP
Sbjct: 153 AAAAATASIAGAPTQYPPGRGGPPPPMGRGAPPPGMMGPPPGMRPPMGPPMGIPPGRGTP 212
Query: 87 GPGGDAPSSPPTQQMKAL 104
PP M+ L
Sbjct: 213 MGMPPPGMRPPPPGMRGL 230
>1u6z_A Exopolyphosphatase; alpha/beta protein, askha (acetate and sugar
kinases, HSC70, superfamily; 1.90A {Escherichia coli}
SCOP: a.211.1.5 c.55.1.8 c.55.1.8 PDB: 2flo_A*
Length = 513
Score = 29.2 bits (66), Expect = 6.5
Identities = 13/56 (23%), Positives = 23/56 (41%), Gaps = 6/56 (10%)
Query: 516 RDQRNADNFLNCLNRNSNAIGIRVKKPQVIALQEEQTLSYLTALKSMRSDTQFVVI 571
R NA +FL R I ++ +I+ EE L ++ + + +VI
Sbjct: 93 RQALNATDFLK---RAEKVIPYPIE---IISGNEEARLIFMGVEHTQPEKGRKLVI 142
>1ds6_B RHO GDP-dissociation inhibitor 2; beta sandwhich, protein-protein
complex, G-domain, immunoglobulin fold, walker fold,
GTP-binding protein; HET: GDP; 2.35A {Homo sapiens}
SCOP: b.1.18.8 PDB: 1fst_A
Length = 180
Score = 28.4 bits (63), Expect = 6.8
Identities = 9/31 (29%), Positives = 15/31 (48%)
Query: 200 REGSDVQITIIFKRQRQFYENLMFYNILFRK 230
+EGS+ ++ I FK R L + +R
Sbjct: 81 KEGSEYRVKIHFKVNRDIVSGLKYVQHTYRT 111
>1doa_B RHO GDI 1, protein (GDP-dissociation inhibitor 1); GTP-binding
protein, CDC42, cell cycle; HET: GDP GER; 2.60A {Bos
taurus} SCOP: b.1.18.8 PDB: 1hh4_D* 1cc0_E*
Length = 219
Score = 28.5 bits (63), Expect = 7.1
Identities = 12/53 (22%), Positives = 22/53 (41%), Gaps = 1/53 (1%)
Query: 178 DGMNLFLPFKLSSDTVNTTCQTREGSDVQITIIFKRQRQFYENLMFYNILFRK 230
+ L L L S + +EG + +I I F+ R+ + + +RK
Sbjct: 99 GPLELDLTGDLESFK-KQSFVLKEGVEYRIKISFRVNREIVSGMKYIQHTYRK 150
>2ela_A Adapter protein containing PH domain, PTB domain and leucine zipper
motif 1; APPL, cell cycle; 2.00A {Homo sapiens}
Length = 175
Score = 28.1 bits (62), Expect = 8.6
Identities = 6/29 (20%), Positives = 14/29 (48%)
Query: 682 GQEITDSIAQPFKQALDRFIQANSVPPKQ 710
G++I DS+ + AL + + ++
Sbjct: 141 GEKICDSVGLAKQIALHAELDRRASEKQK 169
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 0.135 0.393
Gapped
Lambda K H
0.267 0.0519 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 13,247,165
Number of extensions: 805808
Number of successful extensions: 1968
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1839
Number of HSP's successfully gapped: 64
Length of query: 884
Length of database: 6,701,793
Length adjustment: 102
Effective length of query: 782
Effective length of database: 3,853,851
Effective search space: 3013711482
Effective search space used: 3013711482
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: 62 (28.2 bits)