RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy1544
(1331 letters)
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double
chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces
cerevisiae}
Length = 800
Score = 839 bits (2169), Expect = 0.0
Identities = 265/817 (32%), Positives = 419/817 (51%), Gaps = 69/817 (8%)
Query: 335 MRLNKAVMNYHANAEKEQKKEQERIEKERMRRLMAED---EEGYRKLIDQKKDKRLAFL- 390
+ V AN + E + + R++ + E E+ L + K++ FL
Sbjct: 19 ALSEENVHEASANPQPEDFHGIDIVINHRLKTSLEEGKVLEKTVPDLNNCKENYE--FLI 76
Query: 391 -------LSQTDEYISNLTQMVKEHKMEQK-KKQDEESKKRKQSVKQKLMDTDGKVTLDQ 442
L T E ++ Q+ +++ K+ E ++ + D + +
Sbjct: 77 KWTDESHLHNTWETYESIGQVRGLKRLDNYCKQFIIEDQQVRLDPYVTAEDIEIMDMERE 136
Query: 443 DETSQLTDMHISVREISSGKVLKGEDAPLAAHLKQWIQDHPGWEVVADSDEENEDEDSEK 502
+ + H+ R I S + + +L +W + ++ EN + +
Sbjct: 137 RRLDEFEEFHVPERIIDSQRASLEDGTSQLQYLVKW-RRLN----YDEATWENATDIVKL 191
Query: 503 SKEKTSGENENKEKNKGEDDEYNKNAMEEATYYSIAHTVHEIVTEQASILVNGKLKEYQI 562
+ E+ ++ E +K + ++ Y+ E ++ Q + G+L+++Q+
Sbjct: 192 APEQVK---------HFQNRENSKILPQYSSNYTSQRPRFEKLSVQPPFIKGGELRDFQL 242
Query: 563 KGLEWMVSLFNNNLNGILADEMGLGKTIQTIALITYLMEKKKVNGPFLIIVPLSTLSNWS 622
G+ WM L++ NGILADEMGLGKT+QT+A I++L+ ++ NGP +I+VPLST+ W
Sbjct: 243 TGINWMAFLWSKGDNGILADEMGLGKTVQTVAFISWLIFARRQNGPHIIVVPLSTMPAWL 302
Query: 623 LEFERWAPSVNVVAYKGSPHLRKTLQ----------AQMKASKFNVLLTTYEYVIKDKGP 672
FE+WAP +N + Y G+ R T++ K KFNVLLTTYEY++KD+
Sbjct: 303 DTFEKWAPDLNCICYMGNQKSRDTIREYEFYTNPRAKGKKTMKFNVLLTTYEYILKDRAE 362
Query: 673 LAKLHWKYMIIDEGHRMKNHHCKLTHILNTFYVAPHRLLLTGTPLQNKLPELWALLNFLL 732
L + W++M +DE HR+KN L LN+F V +R+L+TGTPLQN + EL AL+NFL+
Sbjct: 363 LGSIKWQFMAVDEAHRLKNAESSLYESLNSFKV-ANRMLITGTPLQNNIKELAALVNFLM 421
Query: 733 PSIFKSVSTFEQWFNAPFATTGEKVELNEEETILIIRRLHKVLRPFLLRRLKKEVESQLP 792
P F + +EE I LH+ ++PF+LRRLKK+VE LP
Sbjct: 422 PGRFTIDQEIDFENQ-------------DEEQEEYIHDLHRRIQPFILRRLKKDVEKSLP 468
Query: 793 DKVEYIIKCDMSGLQKVLYRHMHTKGILLTDGSEKGKQGKGGAKALMNTIVQLRKLCNHP 852
K E I++ ++S +Q Y+++ TK + S KGG +L+N + +L+K NHP
Sbjct: 469 SKTERILRVELSDVQTEYYKNILTK-----NYSALTAGAKGGHFSLLNIMNELKKASNHP 523
Query: 853 FMFQNIEEKFSDHVGGSGIVS---GPDLYRVSGKFELLDRILPKLKSTGHRVLLFCQMTQ 909
++F N EE+ G + L SGK LLD++L +LK GHRVL+F QM +
Sbjct: 524 YLFDNAEERVLQKFGDGKMTRENVLRGLIMSSGKMVLLDQLLTRLKKDGHRVLIFSQMVR 583
Query: 910 LMNILEDYFSYRGFKYMRLDGTTKAEDRGDLLKKFNAPDSEYFIFVLSTRAGGLGLNLQT 969
+++IL DY S +G + RLDGT + R + FN+PDS F+F+LSTRAGGLG+NL T
Sbjct: 584 MLDILGDYLSIKGINFQRLDGTVPSAQRRISIDHFNSPDSNDFVFLLSTRAGGLGINLMT 643
Query: 970 ADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLMTVNSVEERILAAARYKLNMDEK 1029
ADTV+IFDSDWNP DLQA RAHRIGQKN V V RL++ ++VEE +L AR K+ ++
Sbjct: 644 ADTVVIFDSDWNPQADLQAMARAHRIGQKNHVMVYRLVSKDTVEEEVLERARKKMILEYA 703
Query: 1030 VIQAGMFDQKSTGSERH---QFLQTILH---QDDEEDEEENAVPDDETVNQMLARSEEEF 1083
+I G+ D + L IL + + +D ++ +L +E+
Sbjct: 704 IISLGVTDGNKYTKKNEPNAGELSAILKFGAGNMFTATDNQKKLEDLNLDDVLNHAEDHV 763
Query: 1084 QTYQRIDAERRKEQGKKS-RLIEVSELPDW--LIKED 1117
T ++ E+ K + + DW +I E+
Sbjct: 764 TTPDLGESHLGGEEFLKQFEVTDYKADIDWDDIIPEE 800
Score = 35.1 bits (81), Expect = 0.21
Identities = 32/228 (14%), Positives = 75/228 (32%), Gaps = 14/228 (6%)
Query: 1053 LHQDDEEDEEENAVPDDETVNQMLARSEEEFQTYQRIDAERRKEQGKKSRLIEVSELPDW 1112
L + +++ E A+ ++ E+F + R K ++ +++E +
Sbjct: 7 LLESEDDYGSEEALSEENVHEASANPQPEDFHGIDIVINHRLKTSLEEGKVLEKTVPDLN 66
Query: 1113 LIKEDEEI-----------EQWAFEAKEEEKALHMGRGSRQRKQVDYTDSLTEKEWLKAI 1161
KE+ E W + + ++ + + ++ A
Sbjct: 67 NCKENYEFLIKWTDESHLHNTWETYESIGQVRGLKRLDNYCKQFIIEDQQVRLDPYVTA- 125
Query: 1162 DDGVEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDREKDQAK--LK 1219
+D D E E +E +R ++ E TS+ + K + D+A
Sbjct: 126 EDIEIMDMERERRLDEFEEFHVPERIIDSQRASLEDGTSQLQYLVKWRRLNYDEATWENA 185
Query: 1220 KTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIK 1267
+ K+ +K+ + P + P + ++ +P IK
Sbjct: 186 TDIVKLAPEQVKHFQNRENSKILPQYSSNYTSQRPRFEKLSVQPPFIK 233
>1z3i_X Similar to RAD54-like; recombination ATPase helicase,
recombination-DNA binding COM; 3.00A {Danio rerio} SCOP:
c.37.1.19 c.37.1.19
Length = 644
Score = 705 bits (1822), Expect = 0.0
Identities = 147/525 (28%), Positives = 250/525 (47%), Gaps = 31/525 (5%)
Query: 545 VTEQASILVNGKLKEYQIKGLEWMVSLFN-----NNLNGILADEMGLGKTIQTIALITYL 599
V +++ L+ +Q +G++++ N+ I+ADEMGLGKT+Q I LI L
Sbjct: 44 VHVVVDPVLSKVLRPHQREGVKFLWDCVTGRRIENSYGCIMADEMGLGKTLQCITLIWTL 103
Query: 600 MEKKKVNGP----FLIIVPLSTLSNWSLEFERWAPS-VNVVAYKGSPHLRKT------LQ 648
+++ P +++ P S + NW E +W V VA G +
Sbjct: 104 LKQSPDCKPEIDKVIVVSPSSLVRNWYNEVGKWLGGRVQPVAIDGGSKDEIDSKLVNFIS 163
Query: 649 AQMKASKFNVLLTTYEYVIKDKGPLAKLHWKYMIIDEGHRMKNHHCKLTHILNTFYVAPH 708
Q +L+ +YE L K +I DEGHR+KN + LN+
Sbjct: 164 QQGMRIPTPILIISYETFRLHAEVLHKGKVGLVICDEGHRLKNSDNQTYLALNSMNA-QR 222
Query: 709 RLLLTGTPLQNKLPELWALLNFLLPSIFKSVSTFEQWFNAPFATTGEK--VELNEEETIL 766
R+L++GTP+QN L E ++L++F+ I + F++ F P + + +
Sbjct: 223 RVLISGTPIQNDLLEYFSLVHFVNSGILGTAQEFKKRFEIPILKGRDADASDKDRAAGEQ 282
Query: 767 IIRRLHKVLRPFLLRRLKKEVESQLPDKVEYIIKCDMSGLQKVLYRHMHTKGILLTDGSE 826
++ L ++ L+RR + LP K+E ++ C+++ LQK LY+ L
Sbjct: 283 KLQELISIVNRCLIRRTSDILSKYLPVKIEQVVCCNLTPLQKELYKL-----FLKQAKPV 337
Query: 827 KGKQGKGGAKALMNTIVQLRKLCNHPFMFQNIEEKFSDHVGGS------GIVSGPDLYRV 880
+ Q + + +++I L+KLCNHP + + G+ + ++
Sbjct: 338 ESLQTGKISVSSLSSITSLKKLCNHPALIYEKCLTGEEGFDGALDLFPQNYSTKAVEPQL 397
Query: 881 SGKFELLDRILPKLKS-TGHRVLLFCQMTQLMNILEDYFSYRGFKYMRLDGTTKAEDRGD 939
SGK +LD IL ++ T +V+L TQ +++ E R + Y+RLDGT + R
Sbjct: 398 SGKMLVLDYILAMTRTTTSDKVVLVSNYTQTLDLFEKLCRNRRYLYVRLDGTMSIKKRAK 457
Query: 940 LLKKFNAPDSEYFIFVLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQKN 999
++++FN P S FIF+LS++AGG GLNL A+ +++FD DWNP D QA R R GQK
Sbjct: 458 IVERFNNPSSPEFIFMLSSKAGGCGLNLIGANRLVMFDPDWNPANDEQAMARVWRDGQKK 517
Query: 1000 EVRVLRLMTVNSVEERILAAARYKLNMDEKVIQAGMFDQKSTGSE 1044
+ RL++ ++EE+IL +K + V+ ++
Sbjct: 518 TCYIYRLLSTGTIEEKILQRQAHKKALSSCVVDEEQDVERHFSLG 562
>1z63_A Helicase of the SNF2/RAD54 hamily; protein-DNA complex, hydrolase/DNA
complex complex; 3.00A {Sulfolobus solfataricus} SCOP:
c.37.1.19 c.37.1.19 PDB: 1z6a_A
Length = 500
Score = 402 bits (1035), Expect = e-127
Identities = 140/485 (28%), Positives = 249/485 (51%), Gaps = 44/485 (9%)
Query: 553 VNGKLKEYQIKGLEWMVSLFNNNLNGILADEMGLGKTIQTIALITYLMEKKKVNGPFLII 612
+ L+ YQIKG WM + LAD+MGLGKT+QTIA+ + ++ + P L+I
Sbjct: 34 IKANLRPYQIKGFSWMRFMNKLGFGICLADDMGLGKTLQTIAVFSDAKKENE-LTPSLVI 92
Query: 613 VPLSTLSNWSLEFERWAPSVNVVAYKGSPHLRKTLQAQMKASKFNVLLTTYEYVIKDKGP 672
PLS L NW E ++AP + + ++++K ++++LTTY +++D
Sbjct: 93 CPLSVLKNWEEELSKFAPHLRFAVFHED-------RSKIKLEDYDIILTTYAVLLRDT-R 144
Query: 673 LAKLHWKYMIIDEGHRMKNHHCKLTHILNTFYVAPHRLLLTGTPLQNKLPELWALLNFLL 732
L ++ WKY++IDE +KN K+ + + +R+ LTGTP++NK+ +LW+++ FL
Sbjct: 145 LKEVEWKYIVIDEAQNIKNPQTKIFKAVKEL-KSKYRIALTGTPIENKVDDLWSIMTFLN 203
Query: 733 PSIFKSVSTFEQWFNAPFATTGEKVELNEEETILIIRRLHKVLRPFLLRRLKKE--VESQ 790
P + S S F+ F P ++ + L ++ PF+LRR K + + +
Sbjct: 204 PGLLGSYSEFKSKFATP-------IKKGDNMA---KEELKAIISPFILRRTKYDKAIIND 253
Query: 791 LPDKVEYIIKCDMSGLQKVLYRHMHTKGILLTDGSEKGKQGKGGAKALMNTIVQLRKLCN 850
LPDK+E + C+++ Q +Y+ + + S G + KG +++T+++L+++ +
Sbjct: 254 LPDKIETNVYCNLTPEQAAMYK-AEVENLFNNIDSVTGIKRKG---MILSTLLKLKQIVD 309
Query: 851 HPFMFQNIEEKFSDHVGGSGIVSGPDLYRVSGKFELLDRILPKLKSTGHRVLLFCQMTQL 910
HP + + E+ SGK I+ + G ++ +F Q +
Sbjct: 310 HPALLKGGEQSVRR----------------SGKMIRTMEIIEEALDEGDKIAIFTQFVDM 353
Query: 911 MNILEDYFSYR-GFKYMRLDGTTKAEDRGDLLKKFNAPDSEYFIFVLSTRAGGLGLNLQT 969
I+ + + L G ++R D++ KF + VLS +AGG G+NL +
Sbjct: 354 GKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQN-NPSVKFIVLSVKAGGFGINLTS 412
Query: 970 ADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLMTVNSVEERILAAARYKLNMDEK 1029
A+ VI FD WNP + QA DR +RIGQ V V +L++V ++EE+I +K ++ +
Sbjct: 413 ANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQLLAFKRSLFKD 472
Query: 1030 VIQAG 1034
+I +G
Sbjct: 473 IISSG 477
>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription
factor, RNA polymerase recycling, activator, ATP-binding,
DNA-binding; 3.20A {Escherichia coli K12}
Length = 968
Score = 293 bits (752), Expect = 2e-83
Identities = 97/555 (17%), Positives = 187/555 (33%), Gaps = 22/555 (3%)
Query: 557 LKEYQIKGLEWMVSLFNNNLNGILADEMGLGKTIQTIALITYLMEKKKVNGPFLIIVPLS 616
L +Q+ + + +LADE+GLGKTI+ ++ + LIIVP +
Sbjct: 154 LIPHQLNIAHDVGRRHAPRV--LLADEVGLGKTIEAGMILHQQLLSGAA-ERVLIIVPET 210
Query: 617 TLSNWSLEFERWAPSVNVVAYKGSPHLRKTLQAQMKASKFNVLLTTYEYVIKDKGPLAKL 676
W +E R ++ + + A +++ + ++ + K L L
Sbjct: 211 LQHQWLVEMLRRF-NLRFALFDDERYAEAQHDAYNPFDTEQLVICSLDFARRSKQRLEHL 269
Query: 677 ---HWKYMIIDEGHRMKNHHCKLTH----ILNTFYVAPHRLLLTGTPLQNKLPELWALLN 729
W +++DE H + + I P LLLT TP Q + +A L
Sbjct: 270 CEAEWDLLVVDEAHHLVWSEDAPSREYQAIEQLAEHVPGVLLLTATPEQLGMESHFARLR 329
Query: 730 FLLPSIFKSVSTF--EQWFNAPFATTGEKVE----LNEEETILIIRRLHKVLRPFLLRRL 783
L P+ F + F EQ P A + L+ +E ++ + + LL+
Sbjct: 330 LLDPNRFHDFAQFVEEQKNYCPVADAVAMLLAGNKLSNDELNMLGEMIGEQDIEPLLQAA 389
Query: 784 KKEVESQLPDKVEYIIK-CDMSGLQKVLYRHMHTKGILLTDGSEKGKQGKGGAKALMNTI 842
+ E + E + D G +VL+R+ + +
Sbjct: 390 NSDSEDAQSARQELVSMLMDRHGTSRVLFRNTRNGVKGFPKRELHTIKLPLPTQYQTAIK 449
Query: 843 VQLRKLCNHPFMFQNIEEKFSDHVGGSGIVSGPDLYRVSGKFELLDRILPKLKSTGHRVL 902
V + + + + + + + E L L + +VL
Sbjct: 450 VSGIMGARKSAEDRARDMLYPERIYQEFEGDNATWWNFDPRVEWLMGYLTSHR--SQKVL 507
Query: 903 LFCQMTQLMNILEDYFSYR-GFKYMRLDGTTKAEDRGDLLKKFNAPDSEYFIFVLSTRAG 961
+ C LE R G + +R F D+ + + + G
Sbjct: 508 VICAKAATALQLEQVLREREGIRAAVFHEGMSIIERDRAAAWFAEEDTGAQVLL-CSEIG 566
Query: 962 GLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLMTVNSVEERILAAAR 1021
G N Q A +++FD +NP Q R RIGQ +++++ + + ++
Sbjct: 567 SEGRNFQFASHMVMFDLPFNPDLLEQRIGRLDRIGQAHDIQIHVPYLEKTAQSVLVRWYH 626
Query: 1022 YKLNMDEKVIQAGMFDQKSTGSERHQFLQTILHQDDEEDEEENAVPDDETVNQMLARSEE 1081
L+ E G S ++ +L + + +D +N E + L + +
Sbjct: 627 EGLDAFEHTCPTGRTIYDSVYNDLINYLASPDQTEGFDDLIKNCREQHEALKAQLEQGRD 686
Query: 1082 EFQTYQRIDAERRKE 1096
E+ +
Sbjct: 687 RLLEIHSNGGEKAQA 701
>3hgt_A HDA1 complex subunit 3; RECA-like domain, SWI2/SNF2 helical domain,
chromatin regulator, coiled coil, nucleus, repressor,
transcription; 2.20A {Saccharomyces cerevisiae} PDB:
3hgq_A
Length = 328
Score = 226 bits (578), Expect = 3e-66
Identities = 47/264 (17%), Positives = 90/264 (34%), Gaps = 22/264 (8%)
Query: 791 LPDKVEYIIKCDMSGLQKVLYR---HMHTKGILLTDGSEKGKQGKGGAKALMNTIVQLRK 847
+Y + MS QK L +H IL + K+ +++ +
Sbjct: 20 GNTSGDYWLPTTMSLYQKELTDQIVSLHYSDILRYFETSHYKED-VILESMKTMCLNGSL 78
Query: 848 LCNHPFMFQNIEEKFSDHVGGSGIVSGPDLYRVSGKFELLDRILPKLKSTGHRVLLFCQM 907
+ HP++ I+ + + L SGKF +L ++ ++ + C+
Sbjct: 79 VATHPYLL--IDHYMPKSLITRDV--PAHLAENSGKFSVLRDLINLVQEYETETAIVCRP 134
Query: 908 TQLMNILEDYFSYRGFKYMRLDGTT--KAEDRGDLLKKFNAPDSEYFIFVLSTRAGGLGL 965
+ M++LE R DG + A D + SE F
Sbjct: 135 GRTMDLLEALLLGNKVHIKRYDGHSIKSAAAANDFSCTVHLFSSEGINFTKYPIKSKAR- 193
Query: 966 NLQTADTVIIFDSDWNP-HQDLQAQDRAHRI--GQKNEVRVLRLMTVNSVEERILAAARY 1022
D +I D+ + +D+Q + R G + ++RL+ +NS++ L +
Sbjct: 194 ----FDMLICLDTTVDTSQKDIQYLLQYKRERKGLERYAPIVRLVAINSIDHCRLFFGKK 249
Query: 1023 KLNMD----EKVIQAGMFDQKSTG 1042
E V A + + G
Sbjct: 250 FDKNSREYLENVTAAMVILRDRLG 273
>1z5z_A Helicase of the SNF2/RAD54 family; hydrolase, recombination,
hydrolase-recombination complex; 2.00A {Sulfolobus
solfataricus} SCOP: c.37.1.19
Length = 271
Score = 210 bits (538), Expect = 1e-61
Identities = 70/266 (26%), Positives = 127/266 (47%), Gaps = 23/266 (8%)
Query: 770 RLHKVLRPFLLRRLKKEVESQLPDKVEYIIKCDMSGLQKVLYRHMHTKGILLTDGSEKGK 829
H L+ R + S LPDK+E + C+++ Q +Y+ + + S G
Sbjct: 5 HHHHHHSSGLVPR-GSHMASDLPDKIETNVYCNLTPEQAAMYKA-EVENLFNNIDSVTGI 62
Query: 830 QGKGGAKALMNTIVQLRKLCNHPFMFQNIEEKFSDHVGGSGIVSGPDLYRVSGKFELLDR 889
+ KG +++T+++L+++ +HP + + E+ SGK
Sbjct: 63 KRKG---MILSTLLKLKQIVDHPALLKGGEQSVRR----------------SGKMIRTME 103
Query: 890 ILPKLKSTGHRVLLFCQMTQLMNILEDYFSYR-GFKYMRLDGTTKAEDRGDLLKKFNAPD 948
I+ + G ++ +F Q + I+ + + L G ++R D++ KF +
Sbjct: 104 IIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQN-N 162
Query: 949 SEYFIFVLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLMT 1008
VLS +AGG G+NL +A+ VI FD WNP + QA DR +RIGQ V V +L++
Sbjct: 163 PSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLIS 222
Query: 1009 VNSVEERILAAARYKLNMDEKVIQAG 1034
V ++EE+I +K ++ + +I +G
Sbjct: 223 VGTLEEKIDQLLAFKRSLFKDIISSG 248
>3ljw_A Protein polybromo-1; alpha helix, alternative splicing, bromodomain,
chromatin RE DNA-binding, nucleus, phosphoprotein,
transcription; 1.50A {Homo sapiens} PDB: 2ktb_B* 3hmf_A
Length = 120
Score = 140 bits (355), Expect = 4e-39
Identities = 41/116 (35%), Positives = 70/116 (60%)
Query: 1213 KDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGR 1272
A LK+ L++++ ++ T+ GR++SE F KLPS+ + PDYY +I P+D+K I R
Sbjct: 4 SSPAYLKEILEQLLEAIVVATNPSGRLISELFQKLPSKVQYPDYYAIIKEPIDLKTIAQR 63
Query: 1273 IEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTKARQRVESGED 1328
I++G Y S+ + KD L +NA+ YNE S + +D+ ++ +F + +E E
Sbjct: 64 IQNGSYKSIHAMAKDIDLLAKNAKTYNEPGSQVFKDANSIKKIFYMKKAEIEHHEM 119
>3mqm_A Probable histone-lysine N-methyltransferase ASH1L; KIAA1420, absent
small and homeotic disks prote homolog, lysine
N-methyltransferase 2H, KMT2H; 2.54A {Homo sapiens}
Length = 126
Score = 140 bits (355), Expect = 4e-39
Identities = 36/119 (30%), Positives = 55/119 (46%)
Query: 1211 REKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKIL 1270
A+L + K+I +I Y DS + L+ P + LP +K+ DYYE I P+D+ I
Sbjct: 3 EVARAARLAQIFKEICDGIISYKDSSRQALAAPLLNLPPKKKNADYYEKISDPLDLITIE 62
Query: 1271 GRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTKARQRVESGEDP 1329
+I G Y +V+ D + RNA+ Y S + D L + AR + D
Sbjct: 63 KQILTGYYKTVEAFDADMLKVFRNAEKYYGRKSPVGRDVCRLRKAYYNARHEASAQIDE 121
>2dat_A Possible global transcription activator SNF2L2; bromodomain, all
alpha protein, structural genomics, NPPSFA; NMR {Homo
sapiens}
Length = 123
Score = 140 bits (355), Expect = 5e-39
Identities = 62/119 (52%), Positives = 78/119 (65%)
Query: 1207 KEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDI 1266
+ KL K + I+ VI Y DS GR LSE FI+LPSRKELP+YYE+I +P+D
Sbjct: 3 SGSSGSPNPPKLTKQMNAIIDTVINYKDSSGRQLSEVFIQLPSRKELPEYYELIRKPVDF 62
Query: 1267 KKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTKARQRVES 1325
KKI RI + KY S+ +L+KD LC NAQ +N E S I+EDS+VL+SVF ARQ S
Sbjct: 63 KKIKERIRNHKYRSLGDLEKDVMLLCHNAQTFNLEGSQIYEDSIVLQSVFKSARQSGPS 121
>3mb4_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180,
polybromo-1D, PBRM1, BRG associated factor 180,
structural genomics consortium, SGC; 1.66A {Homo sapiens}
PDB: 3g0j_A 2yqd_A
Length = 124
Score = 139 bits (352), Expect = 1e-38
Identities = 49/127 (38%), Positives = 72/127 (56%), Gaps = 5/127 (3%)
Query: 1198 STSKKRKKEKEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYY 1257
S S K + K +++ L ++ V YTD GR LS F++LPSR ELPDYY
Sbjct: 1 SMSGISPK-----KSKYMTPMQQKLNEVYEAVKNYTDKRGRRLSAIFLRLPSRSELPDYY 55
Query: 1258 EVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFT 1317
I +PMD++KI + KY +D + +DF + NA YNE SLI++D++VL V
Sbjct: 56 LTIKKPMDMEKIRSHMMANKYQDIDSMVEDFVMMFNNACTYNEPESLIYKDALVLHKVLL 115
Query: 1318 KARQRVE 1324
+ R+ +E
Sbjct: 116 ETRRDLE 122
>2grc_A Probable global transcription activator SNF2L4; bromodomain, BRG1,
chromatin remodelling, acely-lysine binding,
protein-protein interactions; 1.50A {Homo sapiens} PDB:
3uvd_A 2h60_A
Length = 129
Score = 134 bits (340), Expect = 6e-37
Identities = 66/124 (53%), Positives = 89/124 (71%), Gaps = 1/124 (0%)
Query: 1209 KDREKDQAKLKKTLKKIMRVVIKYTDS-DGRVLSEPFIKLPSRKELPDYYEVIDRPMDIK 1267
+ + L K +KKI+ VIKY DS GR LSE FI+LPSRKELP+YYE+I +P+D K
Sbjct: 3 EKLSPNPPNLTKKMKKIVDAVIKYKDSSSGRQLSEVFIQLPSRKELPEYYELIRKPVDFK 62
Query: 1268 KILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTKARQRVESGE 1327
KI RI + KY S+++L+KD LC+NAQ +N E SLI+EDS+VL+SVFT RQ++E +
Sbjct: 63 KIKERIRNHKYRSLNDLEKDVMLLCQNAQTFNLEGSLIYEDSIVLQSVFTSVRQKIEKED 122
Query: 1328 DPDE 1331
D +
Sbjct: 123 DSEG 126
>3k2j_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180,
polybromo01D, PBRM1, BRG associated factor 180,
structural genomics consortium, SGC; 2.20A {Homo sapiens}
Length = 130
Score = 134 bits (339), Expect = 7e-37
Identities = 30/123 (24%), Positives = 64/123 (52%)
Query: 1206 EKEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMD 1265
+ L ++ V ++ G++++EPF LPS+K+ PDYY+ I P+
Sbjct: 6 HHSSGVDLGTENLYFQSMQLYDTVRSCRNNQGQLIAEPFYHLPSKKKYPDYYQQIKMPIS 65
Query: 1266 IKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTKARQRVES 1325
+++I ++++ +Y ++D L+ D + NA+ YN S I++ + L+ V ++ +
Sbjct: 66 LQQIRTKLKNQEYETLDHLECDLNLMFENAKRYNVPNSAIYKRVLKLQQVMQAKKKELAR 125
Query: 1326 GED 1328
+D
Sbjct: 126 RDD 128
>3iu5_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180,
polybromo0ID, PBRM1, BRG associated factor 180,
structural genomics, SGC; 1.63A {Homo sapiens}
Length = 116
Score = 133 bits (338), Expect = 7e-37
Identities = 32/114 (28%), Positives = 57/114 (50%)
Query: 1215 QAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIE 1274
++ + Y D GR+L E FI+ P R+ PDYYEV+ +P+D+ KI +++
Sbjct: 3 TVDPIAVCHELYNTIRDYKDEQGRLLCELFIRAPKRRNQPDYYEVVSQPIDLMKIQQKLK 62
Query: 1275 DGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTKARQRVESGED 1328
+Y V+ L DF+ L NA+ Y + S ++ + L ++ + R +
Sbjct: 63 MEEYDDVNLLTADFQLLFNNAKSYYKPDSPEYKAACKLWDLYLRTRNEFVQKGE 116
>3tlp_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180,
polybromo-1D, PBRM1, BRG associated factor 180,
structural genomics consortium, SGC; 2.13A {Homo sapiens}
Length = 150
Score = 133 bits (337), Expect = 3e-36
Identities = 42/137 (30%), Positives = 74/137 (54%), Gaps = 1/137 (0%)
Query: 1196 EPSTSKKRKKEKEKDREKDQAKLKKTLKKIMRVVIKYTDS-DGRVLSEPFIKLPSRKELP 1254
+ S R+ + K+ +K + VV++ + GR L + F+ PS+K+ P
Sbjct: 3 DSMISSATSDTGSAKRKSKKNIRKQRMKILFNVVLEAREPGSGRRLCDLFMVKPSKKDYP 62
Query: 1255 DYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLES 1314
DYY++I PMD+K I I + KY+ + + +D K + RNA+ YNEE S ++ D+ +LE
Sbjct: 63 DYYKIILEPMDLKIIEHNIRNDKYAGEEGMIEDMKLMFRNARHYNEEGSQVYNDAHILEK 122
Query: 1315 VFTKARQRVESGEDPDE 1331
+ + R+ + D D+
Sbjct: 123 LLKEKRKELGPLPDDDD 139
>3iu6_A Protein polybromo-1; PB1, polybromo 1 isoform 1, BAF180,
polybromo0ID, PBRM1, BRG associated factor 180,
structural genomics, SGC; HET: OCS; 1.79A {Homo sapiens}
Length = 147
Score = 114 bits (287), Expect = 1e-29
Identities = 24/114 (21%), Positives = 51/114 (44%), Gaps = 4/114 (3%)
Query: 1215 QAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIE 1274
+++ + + V+ + D +GR S+ ++P+ P++ P+ I +E
Sbjct: 5 TLLIQELIHNLFVSVMSHQDDEGRCYSDSLAEIPAVD--PNFPNK--PPLTFDIIRKNVE 60
Query: 1275 DGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTKARQRVESGED 1328
+ +Y +D Q+ + A+ N S I+ED+V L+ F K R + +
Sbjct: 61 NNRYRRLDLFQEHMFEVLERARRMNRTDSEIYEDAVELQQFFIKIRDELCKNGE 114
>2r0y_A Chromatin structure-remodeling complex protein RSC4; bromodomain,
chromatin, remodeler, RSC, acetylation, transcription,
chromatin regulator, nucleus, phosphorylation; HET: ALY;
1.75A {Saccharomyces cerevisiae} PDB: 2r0s_A
Length = 311
Score = 114 bits (286), Expect = 9e-28
Identities = 42/165 (25%), Positives = 74/165 (44%)
Query: 1166 EYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDREKDQAKLKKTLKKI 1225
EYD + +V + + K S+ + K + A KK + +
Sbjct: 106 EYDSLIVKNSMQVVMLIEFEVLKAKNLKRNYLINSEVKAKLLHYLNKLVDATEKKINQAL 165
Query: 1226 MRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQ 1285
+ D LSEPF++L + ELP+YYE++ PM + + +E G+YS + +
Sbjct: 166 LGASSPKNLDDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFI 225
Query: 1286 KDFKTLCRNAQIYNEELSLIHEDSVVLESVFTKARQRVESGEDPD 1330
D + +NA I+N+ +LI++D+ L + F Q+ E D
Sbjct: 226 IDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKEFFPELQD 270
Score = 104 bits (259), Expect = 3e-24
Identities = 32/141 (22%), Positives = 53/141 (37%), Gaps = 9/141 (6%)
Query: 1191 EDDDEEPSTSKKRKKEKEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSR 1250
D P K + K + + + + + + FIKLPSR
Sbjct: 6 TVDYNAPLNPKSELFLDDWHIPK--------FNRFISFTLDVLIDKYKDIFKDFIKLPSR 57
Query: 1251 KELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSV 1310
K P YY I +PM I +I R + D + L +N Q YNE SLI ++S+
Sbjct: 58 KFHPQYYYKIQQPMSINEIKSRDYE-YEDGPSNFLLDVELLTKNCQAYNEYDSLIVKNSM 116
Query: 1311 VLESVFTKARQRVESGEDPDE 1331
+ + + ++ +
Sbjct: 117 QVVMLIEFEVLKAKNLKRNYL 137
>2r10_A Chromatin structure-remodeling complex protein RSC4, linker, histone
H3; bromodomain, remodeler, acetylation, transcription;
HET: ALY; 2.20A {Saccharomyces cerevisiae} PDB: 2r0v_A*
Length = 361
Score = 112 bits (281), Expect = 1e-26
Identities = 42/165 (25%), Positives = 74/165 (44%)
Query: 1166 EYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDREKDQAKLKKTLKKI 1225
EYD + +V + + K S+ + K + A KK + +
Sbjct: 156 EYDSLIVKNSMQVVMLIEFEVLKAKNLKRNYLINSEVKAKLLHYLNKLVDATEKKINQAL 215
Query: 1226 MRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQ 1285
+ D LSEPF++L + ELP+YYE++ PM + + +E G+YS + +
Sbjct: 216 LGASSPKNLDDKVKLSEPFMELVDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFI 275
Query: 1286 KDFKTLCRNAQIYNEELSLIHEDSVVLESVFTKARQRVESGEDPD 1330
D + +NA I+N+ +LI++D+ L + F Q+ E D
Sbjct: 276 IDMLLVFQNAHIFNDPSALIYKDATTLTNYFNYLIQKEFFPELQD 320
Score = 109 bits (273), Expect = 1e-25
Identities = 34/162 (20%), Positives = 63/162 (38%), Gaps = 2/162 (1%)
Query: 1170 EEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDREKDQAKLKKTLKKIMRVV 1229
+ E + K K ++ ++ P + + D + K + +
Sbjct: 28 KLATEAGGSDERPKYLPGKHPKNQEKTPHVDYNAPLNPKSELFLDDWHIPK-FNRFISFT 86
Query: 1230 IKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFK 1289
+ + + + FIKLPSRK P YY I +PM I +I R + D +
Sbjct: 87 LDVLIDKYKDIFKDFIKLPSRKFHPQYYYKIQQPMSINEIKSRDYE-YEDGPSNFLLDVE 145
Query: 1290 TLCRNAQIYNEELSLIHEDSVVLESVFTKARQRVESGEDPDE 1331
L +N Q YNE SLI ++S+ + + + ++ +
Sbjct: 146 LLTKNCQAYNEYDSLIVKNSMQVVMLIEFEVLKAKNLKRNYL 187
>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA
repair, DNA recombina hydrolase; 2.90A {Pyrococcus
furiosus} SCOP: c.37.1.19 c.37.1.19
Length = 494
Score = 105 bits (263), Expect = 1e-23
Identities = 87/498 (17%), Positives = 176/498 (35%), Gaps = 42/498 (8%)
Query: 556 KLKEYQIKGLEWMVSLFNNNLNGILADEMGLGKTIQTIALITYLMEKKKVNGPFLIIVPL 615
+ + YQ N ++ GLGKT+ + + Y + K G L++ P
Sbjct: 9 QPRIYQEVIYA--KCKETN---CLIVLPTGLGKTLIAMMIAEYRLTKYG--GKVLMLAPT 61
Query: 616 STLSN-WSLEFERWA--PSVNVVAYKGSPHLRKTLQAQMKASKFNVLLTTYEYVIKD--K 670
L + F R P +VA G + +A ++ V++ T + + D
Sbjct: 62 KPLVLQHAESFRRLFNLPPEKIVALTGEKSPEERSKAW---ARAKVIVATPQTIENDLLA 118
Query: 671 GPLAKLHWKYMIIDEGHRMKNHH--CKLTHILNTFYVAPHRLLLTGTPL--QNKLPELWA 726
G ++ ++ DE HR ++ + P + LT +P K+ E+
Sbjct: 119 GRISLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLTASPGSTPEKIMEVIN 178
Query: 727 LLNFLLPSIFKSVSTFEQWFNAPFATTGEKVELNEEETILIIRRLHKVLRPFLLRRLKKE 786
L S + + +V+L E + + L ++LR L +
Sbjct: 179 NLGIEHIEYRSENSPDVRPYVKGIRFEWVRVDLPEIYKE-VRKLLREMLRDALKPLAETG 237
Query: 787 VESQL-PDKVEYIIKCDMSGLQKVLYRHMHTKGILLTDGSEKGK----------QGKGGA 835
+ PD + + + + + + H LL + K QG
Sbjct: 238 LLESSSPDIPKKEVLRAGQIINEEMAKGNHDLRGLLLYHAMALKLHHAIELLETQGLSAL 297
Query: 836 KALMNTIVQLRKLCNHPFMFQNIEEKFSDHVGGSGIVSGPDLYRVSGKFELLDRILPKL- 894
+A + + + K + + +K S +V ++ K + L I+ +
Sbjct: 298 RAYIKKLYEEAKAGSTKASKEIFSDKR-MKKAISLLVQAKEIGLDHPKMDKLKEIIREQL 356
Query: 895 -KSTGHRVLLFCQMTQLMNILEDYFSYRGFKYMRLDGTTKAEDRGDLLKKFNAPDSEYF- 952
+ ++++F + + + G K R G E+ L ++ + F
Sbjct: 357 QRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFA 416
Query: 953 ---IFVL-STRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLMT 1008
VL +T G GL++ D V+ ++ + + +Q R R G+ RV+ LM
Sbjct: 417 RGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQ---RRGRTGRHMPGRVIILMA 473
Query: 1009 VNSVEERILAAARYKLNM 1026
+ +E ++R K +
Sbjct: 474 KGTRDEAYYWSSRQKEKI 491
>3aad_A Transcription initiation factor TFIID subunit 1; protein-protein
complex, bromodomain, transcription, transcr regulation,
chromatin regulator, transcription-C complex; 3.30A {Homo
sapiens}
Length = 292
Score = 97.8 bits (243), Expect = 3e-22
Identities = 24/138 (17%), Positives = 56/138 (40%), Gaps = 6/138 (4%)
Query: 1181 KRKGKRRKKTEDDDEEPSTSKKRKKEKEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVL 1240
++ ++K+ + K + R L L+ I+ + ++
Sbjct: 11 QQLPPKKKRRVGTTVHCDYLNRPHKSIHRRRTDPMVTLSSILESIINDMRDLPNT----- 65
Query: 1241 SEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNE 1300
PF + K + DYY++I RPMD++ + + Y S +E ++ + + +N+ YN
Sbjct: 66 -YPFHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNG 124
Query: 1301 ELSLIHEDSVVLESVFTK 1318
+ + S + + +
Sbjct: 125 PKHSLTQISQSMLDLCDE 142
Score = 95.1 bits (236), Expect = 2e-21
Identities = 31/160 (19%), Positives = 57/160 (35%), Gaps = 5/160 (3%)
Query: 1172 EEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDREKDQAKLKKTLKKIMRVVIK 1231
+ + + + ++E ++ K + DQ L I+ +
Sbjct: 124 GPKHSLTQISQSMLDLCDEKLKEKEDKLARLEKAINPLLDDDDQVAFSFILDNIVTQKMM 183
Query: 1232 YTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTL 1291
S PF ++K +PDYY+VI PMD++ I I KY S + D +
Sbjct: 184 AVPD-----SWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLI 238
Query: 1292 CRNAQIYNEELSLIHEDSVVLESVFTKARQRVESGEDPDE 1331
N+ YN S + + + +V + + E
Sbjct: 239 LANSVKYNGPESQYTKTAQEIVNVCYQTLTEYDEHLTQLE 278
>3uv5_A Transcription initiation factor TFIID subunit 1; tandem bromodomain,
TAF1, cell cycle gene 1 protein, TBP-ASS factor 250 kDa;
2.03A {Homo sapiens} PDB: 1eqf_A
Length = 265
Score = 93.8 bits (233), Expect = 3e-21
Identities = 25/91 (27%), Positives = 40/91 (43%)
Query: 1241 SEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNE 1300
S PF ++K +PDYY+VI PMD++ I I KY S + D + N+ YN
Sbjct: 155 SWPFHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNG 214
Query: 1301 ELSLIHEDSVVLESVFTKARQRVESGEDPDE 1331
S + + + +V + + E
Sbjct: 215 PESQYTKTAQEIVNVCYQTLTEYDEHLTQLE 245
Score = 91.1 bits (226), Expect = 3e-20
Identities = 22/118 (18%), Positives = 49/118 (41%), Gaps = 6/118 (5%)
Query: 1205 KEKEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPM 1264
+ R L L+ I+ + ++ PF + K + DYY++I RPM
Sbjct: 2 MSIHRRRTDPMVTLSSILESIINDMRDLPNT------YPFHTPVNAKVVKDYYKIITRPM 55
Query: 1265 DIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTKARQR 1322
D++ + + Y S +E ++ + + +N+ YN + + S + + + +
Sbjct: 56 DLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKHSLTQISQSMLDLCDEKLKE 113
>2ri7_A Nucleosome-remodeling factor subunit BPTF; zinc finger, alpha-helical
bundle, dimethyl-lysine, bromodom chromatin regulator,
metal-binding, nucleus; HET: MLY; 1.45A {Homo sapiens}
PDB: 2fsa_A* 2f6n_A 2f6j_A* 3qzv_A* 3uv2_A* 3qzt_A*
3qzs_A* 2fui_A 2fuu_A*
Length = 174
Score = 88.8 bits (220), Expect = 2e-20
Identities = 32/142 (22%), Positives = 61/142 (42%), Gaps = 6/142 (4%)
Query: 1184 GKRRKKTEDDDEEPSTSKKRKKEKEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEP 1243
G + + E DE + ++ K + LK+++R + + + P
Sbjct: 39 GILQSEAELIDEYVCPQCQSTEDAMTVLTPLTEKDYEGLKRVLRSLQAHKMA------WP 92
Query: 1244 FIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELS 1303
F++ + PDYY VI PMD+ + R++ Y + E D + N + YN S
Sbjct: 93 FLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSDS 152
Query: 1304 LIHEDSVVLESVFTKARQRVES 1325
++ + VLES F + + ++
Sbjct: 153 PFYQCAEVLESFFVQKLKGFKA 174
>3uv4_A Second bromodomain of human transcription initiat TFIID subunit 1
(TAF1); structural genomics consortium, SGC; 1.89A {Homo
sapiens} PDB: 3hmh_A
Length = 158
Score = 86.8 bits (215), Expect = 7e-20
Identities = 29/138 (21%), Positives = 49/138 (35%), Gaps = 5/138 (3%)
Query: 1194 DEEPSTSKKRKKEKEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKEL 1253
+ + + DQ L I+ + S PF ++K +
Sbjct: 6 HHSSGVDLGTENLYFQSMDDDQVAFSFILDNIVTQKMMAVPD-----SWPFHHPVNKKFV 60
Query: 1254 PDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLE 1313
PDYY+VI PMD++ I I KY S + D + N+ YN S + + +
Sbjct: 61 PDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPESQYTKTAQEIV 120
Query: 1314 SVFTKARQRVESGEDPDE 1331
+V + + E
Sbjct: 121 NVCYQTLTEYDEHLTQLE 138
>3nxb_A CAT eye syndrome critical region protein 2; structural genomics
consortium, SGC, CECR2, CAT eye syndrome chromosome
region candidate 2, bromodomain; 1.83A {Homo sapiens}
Length = 116
Score = 84.3 bits (209), Expect = 2e-19
Identities = 33/121 (27%), Positives = 56/121 (46%), Gaps = 10/121 (8%)
Query: 1198 STSKKRKKEKEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYY 1257
S +++K + + + D + K L + + DS PF++ P+YY
Sbjct: 1 SMREEKKTKDLFELDDDFTAMYKVLDVVK----AHKDS------WPFLEPVDESYAPNYY 50
Query: 1258 EVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFT 1317
++I PMDI + ++ G Y + +E D KT+ RN + YN E S + S LE F
Sbjct: 51 QIIKAPMDISSMEKKLNGGLYCTKEEFVNDMKTMFRNCRKYNGESSEYTKMSDNLERCFH 110
Query: 1318 K 1318
+
Sbjct: 111 R 111
>3d7c_A General control of amino acid synthesis protein 5; GCN5, bromodomain,
structural genomics consortium, SGC, HOST-virus
interaction, nucleus; 2.06A {Homo sapiens} SCOP: a.29.2.1
PDB: 1f68_A 1jm4_B* 1n72_A 1wug_A* 1wum_A* 1zs5_A*
2rnw_A* 2rnx_A* 3gg3_A
Length = 112
Score = 83.9 bits (208), Expect = 2e-19
Identities = 28/106 (26%), Positives = 47/106 (44%), Gaps = 6/106 (5%)
Query: 1213 KDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGR 1272
+D +L TLK ++ + + + PF++ + E PDYYEVI P+D+K + R
Sbjct: 3 EDPDQLYTTLKNLLAQIKSHPSA------WPFMEPVKKSEAPDYYEVIRFPIDLKTMTER 56
Query: 1273 IEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTK 1318
+ Y + D + + N + YN S + LE F
Sbjct: 57 LRSRYYVTRKLFVADLQRVIANCREYNPPDSEYCRCASALEKFFYF 102
>2d9e_A Peregrin; four-helix bundle, transcription activator, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens}
Length = 121
Score = 82.0 bits (203), Expect = 1e-18
Identities = 26/123 (21%), Positives = 50/123 (40%), Gaps = 11/123 (8%)
Query: 1213 KDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGR 1272
+ L+K + + + F + E+PDY + I +PMD +
Sbjct: 3 SGSSGFLILLRKTLEQLQEKDTG------NIFSEPVPLSEVPDYLDHIKKPMDFFTMKQN 56
Query: 1273 IEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTK----ARQRVES-GE 1327
+E +Y + D+ ++DF + N YN + ++ + +V L AR++ E G
Sbjct: 57 LEAYRYLNFDDFEEDFNLIVSNCLKYNAKDTIFYRAAVRLREQGGAVLRQARRQAEKMGS 116
Query: 1328 DPD 1330
P
Sbjct: 117 GPS 119
>2i7k_A Bromodomain-containing protein 7; helix, LEFT-handed four-helix
bundle, transcription; NMR {Homo sapiens}
Length = 117
Score = 81.6 bits (202), Expect = 1e-18
Identities = 29/107 (27%), Positives = 53/107 (49%), Gaps = 6/107 (5%)
Query: 1212 EKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILG 1271
E +Q L++ L ++MR + + S F + P Y +I PMD +
Sbjct: 3 EVEQTPLQEALNQLMRQLQRKDPS------AFFSFPVTDFIAPGYSMIIKHPMDFSTMKE 56
Query: 1272 RIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTK 1318
+I++ Y S++EL+ +FK +C NA IYN+ ++ ++ + L K
Sbjct: 57 KIKNNDYQSIEELKDNFKLMCTNAMIYNKPETIYYKAAKKLLHSGMK 103
>3hme_A Bromodomain-containing protein 9; BRD9, bromodomain containing 9
isoform 1, LAVS3040, rhabdomyosarcoma antigen
MU-RMS-40.8; 2.23A {Homo sapiens}
Length = 123
Score = 82.0 bits (203), Expect = 1e-18
Identities = 24/111 (21%), Positives = 46/111 (41%), Gaps = 6/111 (5%)
Query: 1208 EKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIK 1267
+ E + +++ L+ +R + + F + P Y +I PMD
Sbjct: 4 KLSAENESTPIQQLLEHFLRQLQRKDPH------GFFAFPVTDAIAPGYSMIIKHPMDFG 57
Query: 1268 KILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTK 1318
+ +I +Y SV E + DFK +C NA YN ++ ++ + + K
Sbjct: 58 TMKDKIVANEYKSVTEFKADFKLMCDNAMTYNRPDTVYYKLAKKILHAGFK 108
>3mb3_A PH-interacting protein; PHIP, pleckstrin homology domain interacting
protein, DCAF14 DDB1 and CUL4 associated factor 14, SGC;
2.25A {Homo sapiens}
Length = 135
Score = 82.5 bits (204), Expect = 2e-18
Identities = 32/123 (26%), Positives = 55/123 (44%), Gaps = 11/123 (8%)
Query: 1195 EEPSTSKKRKKEKEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELP 1254
+ + R + + D + + + ++ L I + SEPF + E P
Sbjct: 3 DHQPRRRLRNRAQSYDIQAWKKQCEELLNLIFQ----------CEDSEPFRQPVDLLEYP 52
Query: 1255 DYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYN-EELSLIHEDSVVLE 1313
DY ++ID PMD + +E G Y S EL KD + + N++ Y + S I+ S+ L
Sbjct: 53 DYRDIIDTPMDFATVRETLEAGNYESPMELCKDVRLIFSNSKAYTPSKRSRIYSMSLRLS 112
Query: 1314 SVF 1316
+ F
Sbjct: 113 AFF 115
>2yyn_A Transcription intermediary factor 1-alpha; bromo domain, structural
genomics, NPPSFA; 2.50A {Homo sapiens}
Length = 135
Score = 81.6 bits (202), Expect = 3e-18
Identities = 31/124 (25%), Positives = 56/124 (45%), Gaps = 13/124 (10%)
Query: 1197 PSTSKKRKKEKEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDY 1256
S+ KK+ + K D+ K ++ L + +S F P +PDY
Sbjct: 4 GSSGKKKTEGLVKLTPIDKRKCERLLLFLYC----------HEMSLAFQD-PVPLTVPDY 52
Query: 1257 YEVIDRPMDIKKILGRIED--GKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLES 1314
Y++I PMD+ I R+++ YS ++ DF+ + +N +NE S + + LE+
Sbjct: 53 YKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPDSEVANAGIKLEN 112
Query: 1315 VFTK 1318
F +
Sbjct: 113 YFEE 116
>3g0l_A Hwalp4, bromodomain adjacent to zinc finger domain protei; BAZB2,
KIAA1 WALP4, structural genomics consortium, SGC,
transcription; 2.03A {Homo sapiens} PDB: 3q2f_A* 2e7o_A
Length = 117
Score = 80.8 bits (200), Expect = 3e-18
Identities = 30/121 (24%), Positives = 52/121 (42%), Gaps = 13/121 (10%)
Query: 1198 STSKKRKKEKEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYY 1257
S S K+ K +D KD A L ++ + PF+ + K +P Y
Sbjct: 1 SMSVKKPK---RDDSKDLALCSMILTEMET----------HEDAWPFLLPVNLKLVPGYK 47
Query: 1258 EVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFT 1317
+VI +PMD I ++ G+Y +++ D + + N + +NE+ S I + F
Sbjct: 48 KVIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNEDDSDIGRAGHNMRKYFE 107
Query: 1318 K 1318
K
Sbjct: 108 K 108
>1e6i_A Transcriptional activator GCN5; gene regulation, bromodomain, histone
binding, N-acetyl lysine; HET: ALY; 1.87A {Saccharomyces
cerevisiae} SCOP: a.29.2.1
Length = 121
Score = 80.4 bits (199), Expect = 4e-18
Identities = 23/108 (21%), Positives = 53/108 (49%), Gaps = 6/108 (5%)
Query: 1211 REKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKIL 1270
+ + ++ I+ + + + PF++ +++E+PDYY+ I PMD+ +
Sbjct: 7 QRPKRGPHDAAIQNILTELQNHAAA------WPFLQPVNKEEVPDYYDFIKEPMDLSTME 60
Query: 1271 GRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTK 1318
++E KY +++ D + + N ++YN E + ++ + LE F
Sbjct: 61 IKLESNKYQKMEDFIYDARLVFNNCRMYNGENTSYYKYANRLEKFFNN 108
>3fkm_X Signaling protein; bromodomain, malaria, structural genomics,
structural genomi consortium, SGC; 2.50A {Plasmodium
falciparum 3D7}
Length = 166
Score = 81.8 bits (202), Expect = 5e-18
Identities = 26/121 (21%), Positives = 48/121 (39%), Gaps = 8/121 (6%)
Query: 1200 SKKRKKEKEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKL--PSRKELPDYY 1257
+E + + +++ + KY F KL ++ PDYY
Sbjct: 4 HHHHSSGRENLYFQGNKQWYLLANQLILSLSKYEGG------HIFEKLVDAKKQNCPDYY 57
Query: 1258 EVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFT 1317
+VI PM I +++ G+Y+ E KD + + N +YN S++ +E+ F
Sbjct: 58 DVIKNPMSFSCIKTKLKKGQYAYPSEFVKDVQLIFDNCSLYNTSNSVVAITGKNIETYFN 117
Query: 1318 K 1318
Sbjct: 118 N 118
>2oss_A HUNK1 protein, bromodomain-containing protein 4; BRD4, structural
genomics consortium, SGC, signaling protein; 1.35A {Homo
sapiens} PDB: 2yel_A* 3mxf_A* 3p5o_A* 3svf_A* 3svg_A*
3u5j_A* 3u5k_A* 3u5l_A* 3uvw_A* 3uvx_A* 3uvy_A* 3uw9_A*
3zyu_A* 4a9l_A* 4e96_A* 3jvj_A 3jvk_A* 3muk_A* 3mul_A*
2nxb_A ...
Length = 127
Score = 80.4 bits (199), Expect = 6e-18
Identities = 30/119 (25%), Positives = 56/119 (47%), Gaps = 8/119 (6%)
Query: 1202 KRKKEKEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIK--LPSRKELPDYYEV 1259
+ ++ +L+ L+ +++ + K+ + PF + + LPDYY++
Sbjct: 6 PPETSNPNKPKRQTNQLQYLLRVVLKTLWKHQFA------WPFQQPVDAVKLNLPDYYKI 59
Query: 1260 IDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTK 1318
I PMD+ I R+E+ Y + E +DF T+ N IYN+ I + LE +F +
Sbjct: 60 IKTPMDMGTIKKRLENNYYWNAQECIQDFNTMFTNCYIYNKPGDDIVLMAEALEKLFLQ 118
>3p1f_A CREB-binding protein; structural genomics consortium, SGC, CBP,
crebbp, CREB bindi protein isoform A, KAT3A, RSTS, RST,
bromodomain, transcrip; HET: 3PF; 1.63A {Homo sapiens}
PDB: 3dwy_A 3p1d_A 3p1c_A 3p1e_A* 3svh_A* 4a9k_A* 1jsp_B*
2d82_A* 2l84_A* 2l85_A* 2rny_A* 3i3j_A
Length = 119
Score = 79.3 bits (196), Expect = 1e-17
Identities = 28/115 (24%), Positives = 54/115 (46%), Gaps = 11/115 (9%)
Query: 1204 KKEKEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIK--LPSRKELPDYYEVID 1261
++K E+ + L TL+ + R + +S PF + P +PDY++++
Sbjct: 2 MRKKIFKPEELRQALMPTLEALYR---QDPES------LPFRQPVDPQLLGIPDYFDIVK 52
Query: 1262 RPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVF 1316
PMD+ I +++ G+Y + D + NA +YN + S +++ L VF
Sbjct: 53 NPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYNRKTSRVYKFCSKLAEVF 107
>4alg_A Bromodomain-containing protein 2; signaling protein, inhibitor,
histone, epigenetic reader; HET: 1GH; 1.60A {Homo
sapiens} PDB: 4a9e_A 4a9h_A* 4a9i_A* 4a9j_A* 4a9m_A*
4a9n_A* 4a9o_A* 4a9p_A* 4a9f_A* 4alh_A* 4akn_A* 2yek_A*
2ydw_A* 2yw5_A
Length = 154
Score = 80.2 bits (198), Expect = 2e-17
Identities = 34/142 (23%), Positives = 58/142 (40%), Gaps = 16/142 (11%)
Query: 1179 RSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDREKDQAKLKKTLKKIMRVVIKYTDSDGR 1238
S S KK + + L+ K +M+ + K+ +
Sbjct: 2 SSHHHHHHSSGLVPRGSHMSNPKKPGRVTNQ--------LQYLHKVVMKALWKHQFA--- 50
Query: 1239 VLSEPFIK--LPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQ 1296
PF + + LPDY+++I +PMD+ I R+E+ Y + E +DF T+ N
Sbjct: 51 ---WPFRQPVDAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAASECMQDFNTMFTNCY 107
Query: 1297 IYNEELSLIHEDSVVLESVFTK 1318
IYN+ I + LE +F +
Sbjct: 108 IYNKPTDDIVLMAQTLEKIFLQ 129
>3rcw_A Bromodomain-containing protein 1; transcription, structural genomics,
structural consortium, SGC; 2.21A {Homo sapiens}
Length = 135
Score = 78.3 bits (193), Expect = 4e-17
Identities = 29/123 (23%), Positives = 52/123 (42%), Gaps = 10/123 (8%)
Query: 1207 KEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDI 1266
++ E L L+ ++ + + F + S KE+PDY + I PMD
Sbjct: 3 EQVAMELRLTPLTVLLRSVLDQLQDKDPA------RIFAQPVSLKEVPDYLDHIKHPMDF 56
Query: 1267 KKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTK----ARQR 1322
+ R+E Y ++ E ++DF + N YN ++ + +V L AR+
Sbjct: 57 ATMRKRLEAQGYKNLHEFEEDFDLIIDNCMKYNARDTVFYRAAVRLRDQGGVVLRQARRE 116
Query: 1323 VES 1325
V+S
Sbjct: 117 VDS 119
>2ouo_A HUNK1 protein, bromodomain-containing protein 4; BRD4, structural
genomics consortium, SGC, signaling protein; 1.89A {Homo
sapiens} PDB: 2yem_A*
Length = 130
Score = 77.8 bits (192), Expect = 5e-17
Identities = 27/124 (21%), Positives = 45/124 (36%), Gaps = 9/124 (7%)
Query: 1197 PSTSKKRKKEKEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKL--PSRKELP 1254
P + + EK + LK++ K+ + PF K L
Sbjct: 6 PDSQQHPAPEKSSKVSEQLKCCSGILKEMFAK--KHAAY-----AWPFYKPVDVEALGLH 58
Query: 1255 DYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLES 1314
DY ++I PMD+ I ++E +Y E D + + N YN + + L+
Sbjct: 59 DYCDIIKHPMDMSTIKSKLEAREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQD 118
Query: 1315 VFTK 1318
VF
Sbjct: 119 VFEM 122
>3q2e_A Bromodomain and WD repeat-containing protein 1; structural genomics
consortium, SGC, cell cycle progression, signal
transduction, apoptosis; 1.74A {Homo sapiens}
Length = 123
Score = 75.8 bits (187), Expect = 2e-16
Identities = 33/128 (25%), Positives = 59/128 (46%), Gaps = 11/128 (8%)
Query: 1209 KDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKK 1268
++ KK K+++ ++ + DS EPF + E PDY ++ID PMD
Sbjct: 2 MATNYVESNWKKQCKELVNLIFQCEDS------EPFRQPVDLVEYPDYRDIIDTPMDFGT 55
Query: 1269 ILGRIEDGKYSSVDELQKDFKTLCRNAQIYNE-ELSLIHEDSVVLESVF----TKARQRV 1323
+ ++ G Y S E KD + + NA+ Y + S I+ ++ L ++F K
Sbjct: 56 VRETLDAGNYDSPLEFCKDIRLIFSNAKAYTPNKRSKIYSMTLRLSALFEEKMKKISSDF 115
Query: 1324 ESGEDPDE 1331
+ G+ +E
Sbjct: 116 KIGQKFNE 123
>3o36_A Transcription intermediary factor 1-alpha; TRIM24, PHD finger,
bromodomain, H4K16 acetylation, breast C
transcription-protein binding complex; HET: ALY; 1.70A
{Homo sapiens} PDB: 3o33_A* 3o34_A* 3o35_A* 3o37_A
Length = 184
Score = 75.4 bits (185), Expect = 2e-15
Identities = 31/149 (20%), Positives = 62/149 (41%), Gaps = 9/149 (6%)
Query: 1172 EEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDREKDQAKLKKTLKKIMRVVIK 1231
+ K E + + + S +K+K + K K+ ++++ +
Sbjct: 36 TNFPSGEWICTFCRDLSKPEVEYDCDAPSHNSEKKKTEGLVKLTPIDKRKCERLLLFLYC 95
Query: 1232 YTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIED--GKYSSVDELQKDFK 1289
+ S F P +PDYY++I PMD+ I R+++ YS ++ DF+
Sbjct: 96 HEMS------LAFQD-PVPLTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFR 148
Query: 1290 TLCRNAQIYNEELSLIHEDSVVLESVFTK 1318
+ +N +NE S + + LE+ F +
Sbjct: 149 LIFQNCAEFNEPDSEVANAGIKLENYFEE 177
>3jvl_A Bromodomain-containing protein 4; alpha helical, N-acetyl lysine
binding domain, signaling protein; 1.20A {Mus musculus}
PDB: 3jvm_A 2dww_A 2i8n_A 3oni_A* 2dvv_A* 2e3k_A* 2g4a_A
3s92_A* 2oo1_A* 2e7n_A 2wp1_A*
Length = 120
Score = 72.7 bits (179), Expect = 2e-15
Identities = 24/108 (22%), Positives = 42/108 (38%), Gaps = 2/108 (1%)
Query: 1213 KDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKL--PSRKELPDYYEVIDRPMDIKKIL 1270
+K+ + LK ++ + + PF K L DY ++I PMD+ I
Sbjct: 2 AMGSKISEQLKCCSGILKEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIK 61
Query: 1271 GRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTK 1318
++E +Y E D + + N YN + + L+ VF
Sbjct: 62 SKLESREYRDAQEFGADVRLMFSNCYKYNPPDHEVVAMARKLQDVFEM 109
>3dai_A ATPase family AAA domain-containing protein 2; ancca, AAA+ nuclear
coregulator cancer-associated Pro2000 protein, two AAA
DOMA containing protein; 1.95A {Homo sapiens} PDB: 3lxj_A
Length = 130
Score = 72.1 bits (177), Expect = 5e-15
Identities = 29/121 (23%), Positives = 50/121 (41%), Gaps = 4/121 (3%)
Query: 1212 EKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILG 1271
+++ ++ L+ +R V D R F K E+PDY VI +PMD+ ++
Sbjct: 2 MQEEDTFRE-LRIFLRNVTHRLAIDKR--FRVFTKPVDPDEVPDYVTVIKQPMDLSSVIS 58
Query: 1272 RIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVFTK-ARQRVESGEDPD 1330
+I+ KY +V + +D +C NA YN + A ++ D D
Sbjct: 59 KIDLHKYLTVKDYLRDIDLICSNALEYNPDRDPGDRLIRHRACALRDTAYAIIKEELDED 118
Query: 1331 E 1331
Sbjct: 119 F 119
>2dkw_A Hypothetical protein KIAA1240; bromodomain-like, five-helix,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 131
Score = 67.1 bits (164), Expect = 3e-13
Identities = 28/110 (25%), Positives = 45/110 (40%), Gaps = 8/110 (7%)
Query: 1222 LKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSV 1281
L+ +R V K +D R F K + DY EVI PMD+ ++ +I+ Y +
Sbjct: 13 LRLFLRDVTKRLATDKR--FNIF-----SKPVSDYLEVIKEPMDLSTVITKIDKHNYLTA 65
Query: 1282 DELQKDFKTLCRNAQIYNEELSLIHEDSVVLESVF-TKARQRVESGEDPD 1330
+ KD +C NA YN + + A + + DP+
Sbjct: 66 KDFLKDIDLICSNALEYNPDKDPGDKIIRHRACTLKDTAHAIIAAELDPE 115
>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 = 66.8 bits (162), Expect = 4e-11
Identities = 99/697 (14%), Positives = 198/697 (28%), Gaps = 242/697 (34%)
Query: 739 VSTFEQWFNAPF-----------ATTGEKVE--LNEEETILIIRRLHKVLR--------- 776
+S FE F F + E+++ + ++ + RL L
Sbjct: 22 LSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQK 81
Query: 777 ----------PFLLRRLKKEVESQLPDKVEYIIKCD-------------------MSGLQ 807
FL+ +K E YI + D L+
Sbjct: 82 FVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLR 141
Query: 808 KVLYRHMHTKGILLTDGSEKGKQGKGGA-KALMNTIVQLRKLCNHPFMFQNIEEKFSDHV 866
+ L K +L+ G G+ K T V L ++ ++ K +
Sbjct: 142 QALLELRPAKNVLI--------DGVLGSGK----TWVALDVCLSYK-----VQCKMDFKI 184
Query: 867 GGSGIVSGPDLYRVS-GKFELLDRILPKLKSTGHRVLLFCQMTQLMNILEDY-FSYRGFK 924
+ ++ + +L L+ L Q+ D+ + +
Sbjct: 185 -----------FWLNLKNCNSPETVLEMLQK------LLYQIDPNWTSRSDHSSNIK--- 224
Query: 925 YMRLDGTTKAEDRGDLLKKFNAPDSEYFIFVLSTRAGGLGLNLQTADTVIIFDSDWNPHQ 984
+R+ + +AE R LLK + +++ + N +
Sbjct: 225 -LRIH-SIQAELR-RLLKSKPYENC-----------------------LLVLLNVQNA-K 257
Query: 985 DLQAQDRAHRIGQKNEVRVLRLMTVN-SVEERILAAARYKLNMDEKVIQAGMFDQKSTGS 1043
A + ++L L T V + + AA +++D + T
Sbjct: 258 AWNAFN--------LSCKIL-LTTRFKQVTDFLSAATTTHISLDH--HSMTL-----TPD 301
Query: 1044 ERHQFLQTILHQDDEEDEEENAVPDDETVNQMLARSEEEF----QTYQRIDAERRKEQGK 1099
E L L ++ E + + ++A S + ++ ++ + K
Sbjct: 302 EVKSLLLKYLDCRPQDLPRE-VLTTNPRRLSIIAESIRDGLATWDNWKHVNCD------K 354
Query: 1100 KSRLIEVS--ELPDWLIK----------EDEEIEQ------WAFEAKEEEKALHMGRGSR 1141
+ +IE S L + I W F+ + + + +
Sbjct: 355 LTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIW-FDVIKSDVMVVV----- 408
Query: 1142 QRKQVDYTDSLTEKEWLK---AIDDGVEYDDEEEEEEEEVRSKRKG----KRRKKTEDDD 1194
K Y SL EK+ + +I Y + + + E E R K + DD
Sbjct: 409 -NKLHKY--SLVEKQPKESTISIPSI--YLELKVKLENEYALHRSIVDHYNIPKTFDSDD 463
Query: 1195 EEPST-------------SKKRKKEKEKDREK---D----QAKLKKT---------LKKI 1225
P E+ D + K++ +
Sbjct: 464 LIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNT 523
Query: 1226 MRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQ 1285
++ + Y +P+I P Y +++ I L +IE+ S
Sbjct: 524 LQQLKFY---------KPYI----CDNDPKYERLVN---AILDFLPKIEENLICS----- 562
Query: 1286 KDFKTLCRNAQIYNEELSLIHEDSVVLESVFTKARQR 1322
+ L R ++L+ ED + E + QR
Sbjct: 563 -KYTDLLR--------IALMAEDEAIFEEAHKQV-QR 589
Score = 47.9 bits (113), Expect = 3e-05
Identities = 51/433 (11%), Positives = 117/433 (27%), Gaps = 98/433 (22%)
Query: 50 PQENLTALQRAIDSMKEQGLEEDPRYQKLIEMKANRTEIKHAFTSAQVQQLRFQIMAYRL 109
P+ L+ + ID + + + + + E+ F ++ Y+
Sbjct: 42 PKSILS--KEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRI------NYKF 93
Query: 110 LA---RNQPLTPQLAMGVQGKRMEGVPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQ 166
L + + P + + ++ + + + Q+ + QP + + L+
Sbjct: 94 LMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFA-----KYNVSRLQPY-LKLRQALLEL 147
Query: 167 QPPP--------------------QPHQQQGHISSQIKQSKLTNIPKPEGLDPLIILQER 206
+P ++ Q + +I L N PE + L +LQ+
Sbjct: 148 RPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETV--LEMLQKL 205
Query: 207 ENRV----------ALNIERRIEELNGSLTSTLPEHLRVKAEIELR------ALKVLNFQ 250
++ + NI+ RI + L L + L A N
Sbjct: 206 LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS 265
Query: 251 -RQLRAEVIACARRDTTLETAVNVKAYKRTK----RQGLKEARATEKLEKQQKVEAERKK 305
+ L + R + ++ L L K +
Sbjct: 266 CKIL---LTT---RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP 319
Query: 306 RQKHQEYITTVLQHCKDFKEYHRNNQARI--------MRLNKAV-MNYHANAEKEQKK-- 354
R+ T + E R+ A +L + + + E +K
Sbjct: 320 REVLT----TNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMF 375
Query: 355 -------EQERIEKERMRRL---MAEDEEGY-------RKLIDQKKDKRLAFLLSQTDEY 397
I + + + + + L++++ + + S E
Sbjct: 376 DRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLEL 435
Query: 398 ISNLTQMVKEHKM 410
L H+
Sbjct: 436 KVKLENEYALHRS 448
Score = 42.9 bits (100), Expect = 8e-04
Identities = 43/402 (10%), Positives = 106/402 (26%), Gaps = 146/402 (36%)
Query: 1041 TGSERHQFLQTILH---QDDEEDEEENAVPD-------DETVNQMLARSEEEFQTYQRID 1090
TG ++Q+ + IL ++ + V D E ++ ++ + T +
Sbjct: 11 TGEHQYQY-KDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFW 69
Query: 1091 AERRKEQGKKSRLIEVSELPD--WL----------------------------------- 1113
K++ + +E + +L
Sbjct: 70 TLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKY 129
Query: 1114 ----IKEDEEIEQWAFEAKEEEK-ALH-M-GRGSRQRKQV-------DY----------- 1148
++ ++ Q E + + + + G G K Y
Sbjct: 130 NVSRLQPYLKLRQALLELRPAKNVLIDGVLGSG----KTWVALDVCLSYKVQCKMDFKIF 185
Query: 1149 ---------TDSLTE----------KEWLKAIDDGVEYDDEEEEEEEEVRSKRKGKRRKK 1189
+++ E W D + E+R K K +
Sbjct: 186 WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN 245
Query: 1190 T---EDDDEEPSTSKK-----------RKKE--------KEKDREKDQAKLKKTLKKIMR 1227
+ + R K+ D + T ++
Sbjct: 246 CLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKS 305
Query: 1228 VVIKYTDSDGRVLSE------PFI------KLPSRKELPDYYEVIDRPMDIKKILGRIED 1275
+++KY D + L P + D + + ++ K+ IE
Sbjct: 306 LLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNW----KHVNCDKLTTIIE- 360
Query: 1276 GKYSSVDELQ-KDFKTLCRNAQIYNEELSLIHEDSVVLESVF 1316
SS++ L+ +++ +++ + LS+ + + +
Sbjct: 361 ---SSLNVLEPAEYR------KMF-DRLSVFPPSAHIPTILL 392
Score = 41.0 bits (95), Expect = 0.003
Identities = 31/157 (19%), Positives = 54/157 (34%), Gaps = 26/157 (16%)
Query: 200 LIILQERENRVALN---IERRIEELNGSLTSTLPE------------HLRVKAEIELRAL 244
L + + EN AL+ ++ +P HL+ E L
Sbjct: 433 LELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTL 492
Query: 245 --KV-LNF---QRQLRAEVIACARRDTTLETAVNVKAYKR--TKRQGLKEARATEKLEKQ 296
V L+F ++++R + A + L T +K YK E L+
Sbjct: 493 FRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFL 552
Query: 297 QKVEAERKKRQKHQEYITTVLQHCKD--FKEYHRNNQ 331
K+E E K+ + + L + F+E H+ Q
Sbjct: 553 PKIE-ENLICSKYTDLLRIALMAEDEAIFEEAHKQVQ 588
Score = 38.7 bits (89), Expect = 0.014
Identities = 38/235 (16%), Positives = 80/235 (34%), Gaps = 71/235 (30%)
Query: 189 TNIP---------KPEGLDPLIILQERENRVALNIERRIEELNGSLTSTLPE-HLRVKAE 238
+IP D ++++ + +L +E++ +E T ++P +L +K +
Sbjct: 385 AHIPTILLSLIWFDVIKSDVMVVVNKLHKY-SL-VEKQPKES----TISIPSIYLELKVK 438
Query: 239 IELRALKVLNFQRQLRAEVIACARRDTTLETAVNVK-----------AYKRTKRQGLKEA 287
+E L ++ T ++ + + LK
Sbjct: 439 LENEY--------ALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHH------LKNI 484
Query: 288 RATEKLEK-----------QQKVEAERKKRQKHQEYITTVLQHCKDFKEYHRNNQARIMR 336
E++ +QK+ + I LQ K +K Y +N + R
Sbjct: 485 EHPERMTLFRMVFLDFRFLEQKIRHDSTAWNA-SGSILNTLQQLKFYKPYICDNDPKYER 543
Query: 337 LNKAVMNYHANAEKEQKKEQERIEKERMRR-----LMAED----EEGYRKLIDQK 382
L A++++ E E + + LMAED EE ++++ Q+
Sbjct: 544 LVNAILDFLPKIE-------ENLICSKYTDLLRIALMAEDEAIFEEAHKQV--QR 589
Score = 32.9 bits (74), Expect = 0.86
Identities = 24/126 (19%), Positives = 46/126 (36%), Gaps = 35/126 (27%)
Query: 1230 IKYTDSD-GRVLSEPFIKLPSRKELPDYYEVIDRPMDIKKILG---------RI------ 1273
+Y D V + F+ K++ D + I +I I+ R+
Sbjct: 14 HQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLS 73
Query: 1274 --EDGKYSSVDE-LQKDFKTL-------CR----NAQIYNEELSLIHEDSVVLESVFTK- 1318
E+ V+E L+ ++K L R ++Y E+ ++ D+ VF K
Sbjct: 74 KQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDN----QVFAKY 129
Query: 1319 ARQRVE 1324
R++
Sbjct: 130 NVSRLQ 135
>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.70A {Anas platyrhynchos}
Length = 936
Score = 66.5 bits (161), Expect = 5e-11
Identities = 102/834 (12%), Positives = 238/834 (28%), Gaps = 90/834 (10%)
Query: 352 QKKEQERIEKERMRRLMAEDEEGYRKLIDQKKDKRL-AFLLSQTDEYISNLTQMVKEHKM 410
+ +ERI KE R + ++ + L + + L + ++
Sbjct: 37 PDELRERIRKEEERGVSGAAALFLDAVLQLEARGWFRGMLDAMLAAGYTGLAEAIENWDF 96
Query: 411 EQKKKQDEESKKRKQSVKQKLMDTDGKVTLDQDETSQLTDMHISVREISSGKVLKGEDAP 470
+ +K + + K+ ++ +++ D + T + EI + + A
Sbjct: 97 SKLEKLELHRQLLKR-IEATMLEVDPVALIPYISTCLIDR---ECEEIQQISENRSKAAG 152
Query: 471 LAAHLKQWIQDHPGWEVVADSDEENEDEDSEKSKEKTSGENENKEKNKGEDDEYNKNAME 530
+ ++ + + + S+ E+ K+ + D
Sbjct: 153 ITKLIECLCRSDKEHWPKSLQLALDTTGYYRASELWDIREDNAKDVDSEMTDASEDCLEA 212
Query: 531 EATYYSIAHTVHEIVTEQASILV----------NGKLKEYQIKGLEWMVSLFNNNLNGIL 580
TY A + S K + YQI+ + ++ N ++
Sbjct: 213 SMTYSEEAEPDDNLSENLGSAAEGIGKPPPVYETKKARSYQIELAQP--AINGKNA--LI 268
Query: 581 ADEMGLGKTIQTIALITYLMEKKKVNGPFLII--VPLSTLSN-WSLEFERWA--PSVNVV 635
G GKT +I + + + ++ + F+ +V
Sbjct: 269 CAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQ 328
Query: 636 AYKGSPHLRKTLQAQMKASKFNVLLTTYEYVIKD--KGPLAKL-HWKYMIIDEGHRMKNH 692
G +++ ++ ++++ T + ++ G L L + MI DE H +
Sbjct: 329 GISGENFSNVSVEKVIE--DSDIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTTGN 386
Query: 693 HCK-------LTHILNTFYVAPHRLLLTGTPLQNKLPELWALLNFLLPSIFKSVSTFEQW 745
H L N+ P L LT + + + +
Sbjct: 387 HPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQAIST 446
Query: 746 FNAPFATTGEKVELNEEETILIIRRLHKVLRPFLLRRLKKEVESQLPDKVEYIIKCDMSG 805
+ E + L+ RR+H ++ L E E+ + S
Sbjct: 447 VRENIQELQRFMNKPEIDVRLVKRRIHNPFAA-IISNLMSETEALMRTIAYVDTLSQNSK 505
Query: 806 LQKVLYRHMHTKGILLTDGSEKGKQGKGGAKALMNTIVQLRKLCNHPFMFQNIEE----- 860
+ H + + K + + + I E
Sbjct: 506 KDFGTQNYEHWIVVTQRKCRLLQLEDKEEESRICRALFICTEHLRKYNDALIISEDARII 565
Query: 861 -------------------KFSDHVGGSGIVSGPDLYRVSGKFELLDRILPKLK------ 895
+ H+ P+L +S + L +L
Sbjct: 566 DALSYLTEFFTNVKNGPYTELEQHLTAKFQEKEPELIALSKDETNENPKLEELVCILDDA 625
Query: 896 ---STGHRVLLFCQMTQ----LMNILEDYFSYRGFKYMRLDGTTKAEDRGDLLKKFNAP- 947
+ R LLF + L +E+ K L G + + +
Sbjct: 626 YRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGV 685
Query: 948 -----DSEYFIFVLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVR 1002
S+ +++T G+++ + V++++ N + +Q + R G +
Sbjct: 686 LDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGS----K 741
Query: 1003 VLRLMTVNSVEERILAAARYKLNMDEKVIQAGMFDQKSTGSERHQFLQTILHQDDEEDEE 1062
+ + + V E + M++ V + +D+++ + H D +E
Sbjct: 742 CILVTSKTEVVENEKCNRYKEEMMNKAVEKIQKWDEETFAKKIHNLQMKERVLRDSRRKE 801
Query: 1063 ENAVPDDETVN------QMLARSEEEFQTYQRIDAERRKEQGKKSRLIEVSELP 1110
+ N + A S ++ + + E K+ + + P
Sbjct: 802 IKPKVVEGQKNLLCGKCKAYACSTDDIRIIKDSHHIVLGEAFKERYTTKPHKKP 855
>2dl6_A Chromodomain-helicase-DNA-binding protein 8; BRK, CHD8, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; NMR {Homo sapiens} SCOP:
d.76.2.1
Length = 83
Score = 58.2 bits (140), Expect = 1e-10
Identities = 19/62 (30%), Positives = 27/62 (43%)
Query: 441 DQDETSQLTDMHISVREISSGKVLKGEDAPLAAHLKQWIQDHPGWEVVADSDEENEDEDS 500
+ + + I V G +L GEDAP A L+ W+Q HP + V ED
Sbjct: 8 EPNHLDVDLETRIPVINKVDGTLLVGEDAPRRAELEMWLQGHPEFAVDPRFLAYMEDRRK 67
Query: 501 EK 502
+K
Sbjct: 68 QK 69
>2ckc_A Chromodomain-helicase-DNA-binding protein 7; protein-protein
interaction, phosphorylation, disease mutation,
nucleotide-binding; NMR {Homo sapiens} SCOP: d.76.2.1
PDB: 2v0e_A
Length = 80
Score = 57.1 bits (137), Expect = 2e-10
Identities = 16/48 (33%), Positives = 22/48 (45%)
Query: 440 LDQDETSQLTDMHISVREISSGKVLKGEDAPLAAHLKQWIQDHPGWEV 487
+ S D I V + G L GEDAP L +W++ HP + V
Sbjct: 14 MLVPRGSLDPDTRIPVINLEDGTRLVGEDAPKNKDLVEWLKLHPTYTV 61
>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.40A {Anas platyrhynchos}
Length = 797
Score = 63.5 bits (153), Expect = 4e-10
Identities = 102/770 (13%), Positives = 221/770 (28%), Gaps = 89/770 (11%)
Query: 352 QKKEQERIEKERMRRLMAEDEEGYRKLIDQKKDKRL-AFLLSQTDEYISNLTQMVKEHKM 410
+ +ERI KE R + ++ + L + + L + ++
Sbjct: 37 PDELRERIRKEEERGVSGAAALFLDAVLQLEARGWFRGMLDAMLAAGYTGLAEAIENWDF 96
Query: 411 EQKKKQDEESKKRKQSVKQKLMDTDGKVTLDQDETSQLTDMHISVREISSGKVLKGEDAP 470
+ +K + + K+ ++ +++ D + T + EI + + A
Sbjct: 97 SKLEKLELHRQLLKR-IEATMLEVDPVALIPYISTCLIDR---ECEEIQQISENRSKAAG 152
Query: 471 LAAHLKQWIQDHPGWEVVADSDEENEDEDSEKSKEKTSGENENKEKNKGEDDEYNKNAME 530
+ ++ + + + S+ E+ K+ + D
Sbjct: 153 ITKLIECLCRSDKEHWPKSLQLALDTTGYYRASELWDIREDNAKDVDSEMTDASEDCLEA 212
Query: 531 EATYYSIAHTVHEIVTEQASILV----------NGKLKEYQIKGLEWMVSLFNNNLNGIL 580
TY A + S K + YQI+ + ++ N ++
Sbjct: 213 SMTYSEEAEPDDNLSENLGSAAEGIGKPPPVYETKKARSYQIELAQP--AINGKNA--LI 268
Query: 581 ADEMGLGKTIQTIALITYLMEKKKVNGPF--LIIVPLSTLSN-WSLEFERWA--PSVNVV 635
G GKT +I + + + + + + F+ +V
Sbjct: 269 CAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLATKVPVYEQQKNVFKHHFERQGYSVQ 328
Query: 636 AYKGSPHLRKTLQAQMKASKFNVLLTTYEYVIKD--KGPLAKL-HWKYMIIDEGHRMKNH 692
G +++ ++ S ++++ T + ++ G L L + MI DE H +
Sbjct: 329 GISGENFSNVSVEKVIEDS--DIIVVTPQILVNSFEDGTLTSLSIFTLMIFDECHNTTGN 386
Query: 693 HCK-------LTHILNTFYVAPHRLLLTGTPLQNKLPELWALLNFLLPSIFKSVSTFEQW 745
H L N+ P L LT + + + +
Sbjct: 387 HPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGNAKNIEETIEHICSLCSYLDIQAIST 446
Query: 746 FNAPFATTGEKVELNEEETILIIRRLHKVLRPFLLRRLKKEVESQLPDKVEYIIKCDMSG 805
+ E + L+ RR+H ++ L E E+ + S
Sbjct: 447 VRENIQELQRFMNKPEIDVRLVKRRIHNPFAA-IISNLMSETEALMRTIYSVDTLSQNSK 505
Query: 806 LQKVLYRHMHTKGILLTDGSEKGKQGKGGAKALMNTIVQLRKLCNHPFMFQNIEEKFSDH 865
+ H + + K + + + I E
Sbjct: 506 KDFGTQNYEHWIVVTQRKCRLLQLEDKEEESRICRALFICTEHLRKYNDALIISEDARII 565
Query: 866 VGGSGIVSGPDLYRVSGKFELLDRIL---------------------PKL---------- 894
S + + EL + PKL
Sbjct: 566 DALSYLTEFFTNVKNGPYTELEQHLTAKFQEKEPELIALSKDETNENPKLEELVCILDDA 625
Query: 895 --KSTGHRVLLFCQM----TQLMNILEDYFSYRGFKYMRLDGTTKAEDRGDL-------- 940
+ R LLF + + L +E+ K L G + + +
Sbjct: 626 YRYNPQTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGV 685
Query: 941 LKKFNAPDSEYFIFVLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQKNE 1000
L F S+ +++T G+++ + V++++ N + +Q + R G K
Sbjct: 686 LDAFK--TSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRAAGSK-- 741
Query: 1001 VRVLRLMTVNSVEERILAAARYKLNMDEKVIQAGMFDQKSTGSERHQFLQ 1050
L+T + RYK M K ++ + T +++ LQ
Sbjct: 742 ---CILVTSKTEVVENEKCNRYKEEMMNKAVEKIQKWDEETFAKKIHNLQ 788
>2cka_A Chromodomain-helicase-DNA-binding protein 8; BRK domain,
transcription elongation, chromatin remodeling,
protein-protein interaction, transcription; NMR {Homo
sapiens} SCOP: d.76.2.1
Length = 95
Score = 56.0 bits (134), Expect = 8e-10
Identities = 23/96 (23%), Positives = 36/96 (37%), Gaps = 8/96 (8%)
Query: 407 EHKMEQKKKQDEESKKRKQSVKQKLMDTDGKVTLDQDETSQLTDMHISVREISSGKVLKG 466
H KK + + + + + + +D + I V G +L G
Sbjct: 8 HHHSSHMLVPRGSLKKLVELEVECMEEPN-HLDVD-------LETRIPVINKVDGTLLVG 59
Query: 467 EDAPLAAHLKQWIQDHPGWEVVADSDEENEDEDSEK 502
EDAP A L+ W+Q HP + V ED +K
Sbjct: 60 EDAPRRAELEMWLQGHPEFAVDPRFLAYMEDRRKQK 95
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 61.1 bits (147), Expect = 2e-09
Identities = 88/586 (15%), Positives = 184/586 (31%), Gaps = 88/586 (15%)
Query: 556 KLKEYQIKGLEWMVSLFNNNLNGILADEMGLGKTIQTIALITYLMEKKKVNGPFLII--V 613
K + YQ++ ++ N I+ G GKT ++ + + ++K ++
Sbjct: 13 KPRNYQLELALP--AMKGKNT--IICAPTGCGKTFVSLLICEHHLKKFPQGQKGKVVFFA 68
Query: 614 PLSTLSN-WSLEFERWA--PSVNVVAYKGSPHLRKTLQAQMKASKFNVLLTTYEYVIKD- 669
+ F ++ V G+ ++ ++ ++++ T + ++ +
Sbjct: 69 NQIPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVE--NNDIIILTPQILVNNL 126
Query: 670 -KGPLAKL-HWKYMIIDEGHRMKNHHCKLTHILNTFYVA---------PHRLLLTGTP-- 716
KG + L + MI DE H H I+ + P + LT +
Sbjct: 127 KKGTIPSLSIFTLMIFDECHNTSKQHP-YNMIMFNYLDQKLGGSSGPLPQVIGLTASVGV 185
Query: 717 -----LQNKLPELWALLNFLLPSIFKSVS------------------TFEQWFNAPFATT 753
L + L L S+ +V E + F
Sbjct: 186 GDAKTTDEALDYICKLCASLDASVIATVKHNLEELEQVVYKPQKFFRKVESRISDKFKYI 245
Query: 754 GEK-VELNEEETILIIRRLHKV------------LRPFLLRRLKKEVESQLPDKVEYIIK 800
+ + E I + L + +++ K + Q+PDK E
Sbjct: 246 IAQLMRDTESLAKRICKDLENLSQIQNREFGTQKYEQWIVTVQKACMVFQMPDKDEESRI 305
Query: 801 C-DMSGLQKVLYRHMHTKGILLTDGSEKGKQGKGGAKALMNTIVQLRKLCNHPFMFQNIE 859
C + L ++ I A + + + Q++
Sbjct: 306 CKALFLYTSHLRKYNDALIISEH-------ARMKDALDYLKDFFSNVRAAGFDEIEQDLT 358
Query: 860 EKFSDHVGGSGIVSGPDLYRVSGKFELLDRILPKLKSTGH--RVLLFCQMTQ----LMNI 913
++F + + VS D + K E L IL + +LF + L N
Sbjct: 359 QRFEEKLQELESVS-RDPSNENPKLEDLCFILQEEYHLNPETITILFVKTRALVDALKNW 417
Query: 914 LEDYFSYRGFKYMRLDGTTKAEDRGDLLKKFNAPDSEYFIF------VLSTRAGGLGLNL 967
+E K L G K + + F +++T G+++
Sbjct: 418 IEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDI 477
Query: 968 QTADTVIIFDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLMTVNSVEERILAAARYKLNMD 1027
+ VI+++ N + +Q + R G + L + V E+ + M+
Sbjct: 478 AQCNLVILYEYVGNVIKMIQTRGRGRARGS----KCFLLTSNAGVIEKEQINMYKEKMMN 533
Query: 1028 EKVIQAGMFDQKSTGSERHQFLQTILHQDDEEDEEENAVPDDETVN 1073
+ +++ +D+ E+ +QT + E+ VPD E
Sbjct: 534 DSILRLQTWDEAVF-REKILHIQTHEKFIRDSQEKPKPVPDKENKK 578
>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein;
HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19
c.37.1.19 PDB: 2fzl_A*
Length = 472
Score = 60.6 bits (147), Expect = 2e-09
Identities = 45/213 (21%), Positives = 72/213 (33%), Gaps = 31/213 (14%)
Query: 554 NGKLKEYQIKGLEWMVSLFNNNLNGILADEMGLGKTIQTIALITYLMEKKKVNGPFLIIV 613
L++YQ K LE + G + G GKT +A I L LI+V
Sbjct: 91 EISLRDYQEKALERW---LVDK-RGCIVLPTGSGKTHVAMAAINEL--STPT----LIVV 140
Query: 614 PLSTLSN-WSLEFERWAPSVNVVAYKGSPHLRKTLQAQMKASKFNVLLTTYEYVIKDKGP 672
P L+ W + V + G K + ++TY+ +
Sbjct: 141 PTLALAEQWKERLGIF-GEEYVGEFSGRIKELK-----------PLTVSTYDSAYVNAEK 188
Query: 673 LAKLHWKYMIIDEGHRMKNHHCKLTHILNTFYVAPHRLLLTGTPLQNKLPELWALLNFLL 732
L + +I DE H + I +AP RL LT T + +L ++
Sbjct: 189 LGN-RFMLLIFDEVHHLPAE--SYVQIAQMS-IAPFRLGLTATFERED--GRHEILKEVV 242
Query: 733 -PSIFK-SVSTFEQWFNAPFATTGEKVELNEEE 763
+F+ + A + V L E+E
Sbjct: 243 GGKVFELFPDSLAGKHLAKYTIKRIFVPLAEDE 275
Score = 43.3 bits (102), Expect = 4e-04
Identities = 24/136 (17%), Positives = 54/136 (39%), Gaps = 11/136 (8%)
Query: 881 SGKFELLDRILPKLKSTGHRVLLFCQMTQLMNILEDYFSYRGFKYMRLDGTTKAEDRGDL 940
K L IL + + ++++F + +L+ + F T E+R ++
Sbjct: 334 KNKIRKLREILERHR--KDKIIIFTRHNELVYRISKVFLIPAIT-----HRTSREEREEI 386
Query: 941 LKKFNAPDSEYFIFVLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQ-KN 999
L+ F + V S++ G+++ A+ +I + + +Q R R + K
Sbjct: 387 LEGFR--TGRFRAIV-SSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRPSKGKK 443
Query: 1000 EVRVLRLMTVNSVEER 1015
E + L++ + E
Sbjct: 444 EAVLYELISRGTGEVN 459
>3u5n_A E3 ubiquitin-protein ligase TRIM33; TRIM33, PHD, bromodomain,
TGF-beta, epigenetics, methylation, K9ME3, K14AC,
transcription; HET: M3L ALY; 1.95A {Homo sapiens} PDB:
3u5m_A* 3u5o_A* 3u5p_A*
Length = 207
Score = 55.7 bits (133), Expect = 1e-08
Identities = 17/89 (19%), Positives = 42/89 (47%), Gaps = 4/89 (4%)
Query: 1242 EPFIKLPSRKELPDYYEVIDRPMDIKKILGRIE---DGKYSSVDELQKDFKTLCRNAQIY 1298
F + P +P+YY++I +PMD+ + +++ Y D+ D + + +N + +
Sbjct: 100 IEFQE-PVPASIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQIPDDFVADVRLIFKNCERF 158
Query: 1299 NEELSLIHEDSVVLESVFTKARQRVESGE 1327
NE + ++ + E + ++G+
Sbjct: 159 NEMMKVVQVYADTQEINLKADSEVAQAGK 187
>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 = 57.9 bits (139), Expect = 2e-08
Identities = 29/183 (15%), Positives = 39/183 (21%), Gaps = 46/183 (25%)
Query: 1 MSNSSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQENLTALQRA 60
MS+ P Q Q P P + G S GQ + Q
Sbjct: 1 MSHHKKRVYPQAQLQYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQ-- 58
Query: 61 IDSMKEQGLEEDPRYQKLIEMKANRTEIKHAFTSAQVQQLRFQIMAYRLLARNQPLTPQL 120
F + +QL QI Q T
Sbjct: 59 -----------------------------QQFLTPAQEQLHQQID--------QATTSMN 81
Query: 121 AMGVQGKRMEGVPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQGHIS 180
M + P + +P+ P+ Q QPM P Q
Sbjct: 82 DMHLHN-------VPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAAMGQNMRP 134
Query: 181 SQI 183
Sbjct: 135 MNQ 137
Score = 53.3 bits (127), Expect = 5e-07
Identities = 26/197 (13%), Positives = 43/197 (21%), Gaps = 55/197 (27%)
Query: 12 PPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQENLTALQRAIDSMKEQGLEE 71
++ P G P+ P ++ Q +
Sbjct: 4 HKKRVYPQ------AQLQYGQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQ------- 50
Query: 72 DPRYQKLIEMKANRTEIKHAFTSAQVQQLRFQIMAYRLLARNQPLTPQLAMGVQGKRMEG 131
A + + Q LTP Q
Sbjct: 51 ---------------------------------GAVPSMGQQQFLTPAQEQLHQ------ 71
Query: 132 VPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQGHISSQIKQSKLT-- 189
M+ +P P +P+Q P Q QQ + + S
Sbjct: 72 -QIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAAMGQ 130
Query: 190 NIPKPEGLDPLIILQER 206
N+ L P+ +L E
Sbjct: 131 NMRPMNQLYPIDLLTEL 147
Score = 52.1 bits (124), Expect = 1e-06
Identities = 28/196 (14%), Positives = 40/196 (20%), Gaps = 39/196 (19%)
Query: 1 MSNSSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQENLTALQRA 60
+ P P Q + MG P G S G P Q
Sbjct: 19 NATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTPAQEQL--------- 69
Query: 61 IDSMKEQGLEEDPRYQKLIEMKANRTEIKHAFTSAQVQQLRFQIMAYRLLARNQPLTPQL 120
A + L+ N + PQ
Sbjct: 70 ----------------------------HQQIDQATTSMNDMHLHNVPLVDPNAYMQPQ- 100
Query: 121 AMGVQGKRMEGVPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQGHIS 180
+ VQ P P M + NQ P+ L + PP
Sbjct: 101 -VPVQMGTPLQQQQQPMAAPAYGQPSAAMGQNMRPMNQLYPIDLLTELPPPITDLTLPPP 159
Query: 181 SQIKQSKLTNIPKPEG 196
+ + +P
Sbjct: 160 PLVIPPERMLVPSELS 175
Score = 51.8 bits (123), Expect = 2e-06
Identities = 27/203 (13%), Positives = 38/203 (18%), Gaps = 55/203 (27%)
Query: 4 SSTSPNPPPPQQQQPPLNVGQLPMGAPGSG-PPGSPGPSPGQAPGQNPQENLTALQRAID 62
+ P Q PP + M G PP PS GQ P
Sbjct: 17 GQNATPLQQPAQFMPPQDPAAAGMSYGQMGMPPQGAVPSMGQQQFLTP------------ 64
Query: 63 SMKEQGLEEDPRYQKLIEMKANRTEIKHAFTSAQVQQLRFQIMAYRLLARNQPLTPQLAM 122
+QL QI + +
Sbjct: 65 ---------------------------------AQEQLHQQIDQA------TTSMNDMHL 85
Query: 123 GVQGKRMEGVPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQGHISSQ 182
PQ+P P QP Q +Q
Sbjct: 86 HNVPLVDPNAYMQPQVPVQMGTPLQQQQQPMAAPAYGQPSAAMGQNMRPMNQLY---PID 142
Query: 183 IKQSKLTNIPKPEGLDPLIILQE 205
+ I P +++
Sbjct: 143 LLTELPPPITDLTLPPPPLVIPP 165
Score = 46.0 bits (108), Expect = 9e-05
Identities = 28/199 (14%), Positives = 49/199 (24%), Gaps = 42/199 (21%)
Query: 1 MSNSSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQENLTALQRA 60
+ S PPQ P +GQ P + N+ +
Sbjct: 37 AAGMSYGQMGMPPQGAVPS--MGQQQFLTPAQEQLHQQIDQATTSMNDMHLHNVPLVD-- 92
Query: 61 IDSMKEQGLEEDPRYQKLIEMKANRTEIKHAFTSAQVQQLRFQIMAYRLLARNQPLTPQL 120
+A +Q M L + QP+
Sbjct: 93 --------------------------------PNAYMQPQVPVQMGTPLQQQQQPMAAPA 120
Query: 121 AMGVQGKRMEGVPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQGHIS 180
+ + Q+ P+ L +P P+ + P P PP + +
Sbjct: 121 YGQPSAAMGQNMRPMNQLYPIDLLTELP----PPITDLTLPPPPLVIPPERMLVPSELSN 176
Query: 181 SQIKQSKLT--NIPKPEGL 197
+ + T +PK L
Sbjct: 177 ASPDYIRSTLNAVPKNSSL 195
Score = 42.5 bits (99), Expect = 0.001
Identities = 21/200 (10%), Positives = 40/200 (20%), Gaps = 31/200 (15%)
Query: 2 SNSSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQENLTALQRAI 61
S P +Q ++ M P+ P Q Q+
Sbjct: 55 SMGQQQFLTPAQEQLHQQIDQATTSMNDMHLHNVPLVDPNAYMQPQVPVQMGTPLQQQ-- 112
Query: 62 DSMKEQGLEEDPRYQKLIEMKANRTEIKHAFTSAQVQQLRFQIMAYRLLARNQPLTPQLA 121
+A M + NQ L
Sbjct: 113 ----------------------------QQPMAAPAYGQPSAAMGQNMRPMNQLYPIDLL 144
Query: 122 MGVQGKRMEGVPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQGHISS 181
+ + P + +P S P+ + L P ++ +
Sbjct: 145 TELPPPITDLTLPPPPLVIPPERMLVPSELSNASPDYIR-STLNAVPKNSSLLKKSKLPF 203
Query: 182 QIKQSKLTNIPKPEGLDPLI 201
+ ++ PL
Sbjct: 204 GLVIRPYQHLYDDIDPPPLN 223
>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition
domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus
fulgidus} SCOP: c.37.1.19
Length = 237
Score = 54.3 bits (131), Expect = 6e-08
Identities = 39/167 (23%), Positives = 56/167 (33%), Gaps = 33/167 (19%)
Query: 554 NGKLKEYQIKGLEWMVSLFNNNLNGILADEMGLGKTIQTIALITYLMEKKKVNGPFLIIV 613
L++YQ K LE + G + G GKT +A I L LI+V
Sbjct: 91 EISLRDYQEKALE---RWLVDK-RGCIVLPTGSGKTHVAMAAINEL--STPT----LIVV 140
Query: 614 PLSTLSN-WSLEFERWAPSVNVVAYKGSPHLRKTLQAQMKASKFNVLLTTYEYVIKDKGP 672
P L+ W + V + G K + ++TY+ +
Sbjct: 141 PTLALAEQWKERLGIF-GEEYVGEFSGRIKELK-----------PLTVSTYDSAYVNAEK 188
Query: 673 LAKLHWKYMIIDEGHRMKNHHCK---LTHILNTFYVAPHRLLLTGTP 716
L + +I DE H H I +AP RL LT T
Sbjct: 189 LGN-RFMLLIFDEVH-----HLPAESYVQIAQMS-IAPFRLGLTATF 228
>3lqh_A Histone-lysine N-methyltransferase MLL; PHD finger, bromodomain,
leukemia, apoptosis, chromati regulator, DNA-binding,
isopeptide bond; 1.72A {Homo sapiens} PDB: 3lqi_A*
3lqj_A* 2kyu_A
Length = 183
Score = 52.7 bits (125), Expect = 9e-08
Identities = 14/78 (17%), Positives = 34/78 (43%)
Query: 1254 PDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLE 1313
+P+D++ + +++ G Y+SV E D + + A + I + + +++
Sbjct: 95 HLLRYRQQQPLDLEGVKRKMDQGNYTSVLEFSDDIVKIIQAAINSDGGQPEIKKANSMVK 154
Query: 1314 SVFTKARQRVESGEDPDE 1331
S F + +RV +
Sbjct: 155 SFFIRQMERVFPWFSVKK 172
>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 = 53.5 bits (128), Expect = 1e-07
Identities = 31/176 (17%), Positives = 38/176 (21%), Gaps = 38/176 (21%)
Query: 5 STSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQENLTALQRAIDSM 64
S + PPP+ G PG G G G Q P
Sbjct: 79 SMTVEGPPPKDTGIARVPLAGAAGGPGIGRAAGRGIPAGVPMPQAPA------------- 125
Query: 65 KEQGLEEDPRYQKLIEMKANRTEIKHAFTSAQVQQLRFQIMAYRLLARNQPLTPQLAMGV 124
GL R + Q R + A T +A
Sbjct: 126 ---GLAGPVR------------GVGGPSQQVMTPQGRGTVAA-----AAAAATASIAGAP 165
Query: 125 QGKRMEGVPSGPQM-----PPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQ 175
P M PP + P M P P P P P +
Sbjct: 166 TQYPPGRGGPPPPMGRGAPPPGMMGPPPGMRPPMGPPMGIPPGRGTPMGMPPPGMR 221
Score = 46.6 bits (110), Expect = 2e-05
Identities = 13/65 (20%), Positives = 17/65 (26%), Gaps = 3/65 (4%)
Query: 113 NQPLTPQLAMGVQGKRMEGVPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQP 172
Q +TPQ G + + P P + P P PPP
Sbjct: 139 QQVMTPQ---GRGTVAAAAAAATASIAGAPTQYPPGRGGPPPPMGRGAPPPGMMGPPPGM 195
Query: 173 HQQQG 177
G
Sbjct: 196 RPPMG 200
Score = 40.0 bits (93), Expect = 0.003
Identities = 14/43 (32%), Positives = 15/43 (34%)
Query: 8 PNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNP 50
PP P + PMG P PPG P PG P
Sbjct: 180 GRGAPPPGMMGPPPGMRPPMGPPMGIPPGRGTPMGMPPPGMRP 222
Score = 38.1 bits (88), Expect = 0.012
Identities = 9/51 (17%), Positives = 12/51 (23%)
Query: 1 MSNSSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQ 51
M + P P V + + S AP Q P
Sbjct: 120 MPQAPAGLAGPVRGVGGPSQQVMTPQGRGTVAAAAAAATASIAGAPTQYPP 170
Score = 36.9 bits (85), Expect = 0.029
Identities = 8/67 (11%), Positives = 14/67 (20%)
Query: 111 ARNQPLTPQLAMGVQGKRMEGVPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPP 170
A + + + M + G G P + P A
Sbjct: 109 AAGRGIPAGVPMPQAPAGLAGPVRGVGGPSQQVMTPQGRGTVAAAAAAATASIAGAPTQY 168
Query: 171 QPHQQQG 177
P +
Sbjct: 169 PPGRGGP 175
Score = 36.5 bits (84), Expect = 0.031
Identities = 13/38 (34%), Positives = 13/38 (34%), Gaps = 7/38 (18%)
Query: 8 PNPPPPQQQQPPLNVGQLPMGAP-GSGPPGSPGPSPGQ 44
P P PP G P G PPG P PG
Sbjct: 196 RPPMGPPMGIPP------GRGTPMGMPPPGMRPPPPGM 227
Score = 35.4 bits (81), Expect = 0.077
Identities = 6/50 (12%), Positives = 8/50 (16%)
Query: 1 MSNSSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNP 50
M+ + GPP G P
Sbjct: 142 MTPQGRGTVAAAAAAATASIAGAPTQYPPGRGGPPPPMGRGAPPPGMMGP 191
Score = 32.3 bits (73), Expect = 0.75
Identities = 8/45 (17%), Positives = 10/45 (22%)
Query: 5 STSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQN 49
P +G PG G P P + P
Sbjct: 182 GAPPPGMMGPPPGMRPPMGPPMGIPPGRGTPMGMPPPGMRPPPPG 226
Score = 29.6 bits (66), Expect = 5.7
Identities = 12/61 (19%), Positives = 17/61 (27%), Gaps = 2/61 (3%)
Query: 118 PQLAMGVQGKRMEGVPSGPQM-PPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQ 176
P G+ + G GP + P +P Q A P+ P Q
Sbjct: 86 PPKDTGIARVPLAGAAGGPGIGRAAGRGIPAGVPMPQAPAGLAGPVR-GVGGPSQQVMTP 144
Query: 177 G 177
Sbjct: 145 Q 145
>2v0f_A Chromodomain-helicase-DNA-binding protein 7; nucleotide-binding,
chromatin regulator, charge syndrome, phosphorylation,
disease mutation; NMR {Homo sapiens} SCOP: d.76.2.1
Length = 87
Score = 47.9 bits (113), Expect = 5e-07
Identities = 12/51 (23%), Positives = 24/51 (47%)
Query: 443 DETSQLTDMHISVREISSGKVLKGEDAPLAAHLKQWIQDHPGWEVVADSDE 493
D + + + V +GK + G AP L +W++++P + V D +
Sbjct: 9 DINTLTGEERVPVVNKRNGKKMGGAMAPPMKDLPRWLEENPEFAVAPDWTD 59
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 52.2 bits (124), Expect = 8e-07
Identities = 69/562 (12%), Positives = 169/562 (30%), Gaps = 71/562 (12%)
Query: 556 KLKEYQIKGLEWMVSLFNNNLNGILADEMGLGKTIQTIALITYLMEKKKVNGPFLII--V 613
K + YQ++ + N I+ G GKT ++ + + ++K ++
Sbjct: 4 KPRNYQLELALP--AKKGKNT--IICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVFFA 59
Query: 614 PLSTLSN-WSLEFERWA--PSVNVVAYKGSPHLRKTLQAQMKASKFNVLLTTYEYVIKD- 669
+ + F R+ N+ + G+ ++Q ++ + +++ T + ++ +
Sbjct: 60 NQIPVYEQQATVFSRYFERLGYNIASISGATSDSVSVQHIIEDND--IIILTPQILVNNL 117
Query: 670 -KGPLAKL-HWKYMIIDEGHRMKNHHCKLTHILNTFYVA---------PHRLLLTGTPLQ 718
G + L + MI DE H +H I+ + P + LT +
Sbjct: 118 NNGAIPSLSVFTLMIFDECHNTSKNH-PYNQIMFRYLDHKLGESRDPLPQVVGLTASVGV 176
Query: 719 NK-------LPELWALLNFLLPSIFKSVSTFEQWFNAPFATTGEKVELNEEETILIIRRL 771
+ + L L S+ +V + T + +
Sbjct: 177 GDAKTAEEAMQHICKLCAALDASVIATVRDNVAELEQVVYKPQKISRKVASRTSNTFKCI 236
Query: 772 HKVLRPFL---LRRLKKEVESQLPDKVEYIIKCDMSGLQKVLYRHMHTKGILLTDGSEKG 828
L + + +E+ + +++ + + +
Sbjct: 237 ISQLMKETEKLAKDVSEELGKLFQIQNREFGTQKYEQWIVGVHKACSVFQMADKEEESRV 296
Query: 829 KQGKGGAKALMNTIVQLRKLCNHPFMFQNIE--EKFSDHVGGSGIVSG------------ 874
+ + + + M + + F V +
Sbjct: 297 CKALFLYTSHLRKYNDALIISEDAQMTDALNYLKAFFHDVREAAFDETERELTRRFEEKL 356
Query: 875 PDLYRVSGKFELLDRILPKLK---------STGHRVLLFCQM----TQLMNILEDYFSYR 921
+L +VS + L L + +LF + L +E+ +
Sbjct: 357 EELEKVSRDPSNENPKLRDLYLVLQEEYHLKPETKTILFVKTRALVDALKKWIEENPALS 416
Query: 922 GFKYMRLDGTTKAEDRGDLLKKFNAPDSEYFIF------VLSTRAGGLGLNLQTADTVII 975
K L G + + E F +++T G+++ + VI+
Sbjct: 417 FLKPGILTGRGRTNRATGMTLPAQKCVLEAFRASGDNNILIATSVADEGIDIAECNLVIL 476
Query: 976 FDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLMTVNSVEERILAAARYKLNMDEKVIQAGM 1035
++ N + +Q + R + + + L + V E+ A + M+E +++
Sbjct: 477 YEYVGNVIKMIQTRGRG----RARDSKCFLLTSSADVIEKEKANMIKEKIMNESILRLQT 532
Query: 1036 FDQKSTGSERHQFLQTILHQDD 1057
+D+ G H+ D
Sbjct: 533 WDEMKFGKTVHRIQVNEKLLRD 554
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 50.9 bits (122), Expect = 3e-06
Identities = 46/268 (17%), Positives = 103/268 (38%), Gaps = 14/268 (5%)
Query: 262 RRDTTLETAVNVKAYK-RTKRQGLKEARATEKLEKQQKVEAERKKRQKHQEYITTVLQHC 320
R + V+ ++ R L+ RA ++K Q++ RK+ Q ++ +
Sbjct: 790 MRRAAITIQRYVRGHQARCYATFLRRTRAAIIIQKFQRMYVVRKRYQCMRDATIALQALL 849
Query: 321 KDFKEYHRNNQARIMRLNKAVMNYHANAEKEQKKEQERIEKERMRRLMAEDEEGYRKLID 380
+ + RN ++R +K+++ +K + R+ R + + + YR+++
Sbjct: 850 RGYLV--RNKYQMMLREHKSII-----IQKHVRGWLARVHYHRTLKAIVYLQCCYRRMMA 902
Query: 381 QKKDKRLAFLLSQTDEYISNLTQMVKEHKMEQKKKQDEESKKRKQSVKQKLMDTDGKVTL 440
+++ K+L + Y + + Q+K ++ + + K ++ T
Sbjct: 903 KRELKKLKIEARSVERYKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEIT-YSTE 961
Query: 441 DQDETSQLTDMHISVREISSG----KVLKGEDAPLAAHLKQWIQDHPGW-EVVADSDEEN 495
+ S + + +S E + L+ E A L L Q + E E
Sbjct: 962 TEKLRSDVERLRMSEEEAKNATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHET 1021
Query: 496 EDEDSEKSKEKTSGENENKEKNKGEDDE 523
E SE ++ T + E +E N+ D+
Sbjct: 1022 EQLVSELKEQNTLLKTEKEELNRRIHDQ 1049
Score = 48.2 bits (115), Expect = 2e-05
Identities = 44/220 (20%), Positives = 78/220 (35%), Gaps = 37/220 (16%)
Query: 234 RVKAEIELRALKVLNFQRQLRAEVIACARRDTTLETAVNVKAYKRTKR-----QGLKEAR 288
R K ++ LR K + Q+ +R + AR Y RT + Q
Sbjct: 855 RNKYQMMLREHKSIIIQKHVRGWL---ARV-----------HYHRTLKAIVYLQCCYRRM 900
Query: 289 ATEKLEKQQKVEAERKKRQKHQEYITTVLQHCKDFKEYHRNNQARIMRLNKAVMNYHANA 348
++ K+ K+EA +R K + Q +I NK
Sbjct: 901 MAKRELKKLKIEARSVERYKKLHI-----GLENKIMQL----QRKIDEQNK------EYK 945
Query: 349 EKEQKKEQERIEKERMRRLMAEDEEGYRKLIDQKKDKRLAFLLSQTDEYISNLTQMVKEH 408
+K I + D E R ++ K +LS +E I+ L + + +
Sbjct: 946 SLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAK-NATNRVLSLQEE-IAKLRKELHQT 1003
Query: 409 KMEQKKKQDEESKKRKQSVKQKLMDTDGKVTLDQDETSQL 448
+ +KK +E + K K +Q + + + TL + E +L
Sbjct: 1004 Q-TEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKEEL 1042
Score = 37.0 bits (86), Expect = 0.048
Identities = 23/189 (12%), Positives = 56/189 (29%), Gaps = 27/189 (14%)
Query: 1045 RHQFLQTILHQDDEEDEEENAVPDDETVNQMLARSEEEFQTYQRIDAERRKEQGKKSRLI 1104
R ++ + + ++ + Q + R R ++
Sbjct: 832 RKRYQCMRDATIALQALLRGYLVRNKYQMMLREHKSIIIQKHVRGWLARVHYHRTLKAIV 891
Query: 1105 EV-SELPDWLIKEDEEIEQWAFEAKEEEKALHMGRGSRQRKQVDYTDSLTEKEWLKAIDD 1163
+ + K + + + + E K LH+G + K + +
Sbjct: 892 YLQCCYRRMMAKRELKKLKIEARSVERYKKLHIGL---ENKIMQLQRKI----------- 937
Query: 1164 GVEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDREKDQ-------- 1215
D++ +E + + + TE + + R E+E ++
Sbjct: 938 ----DEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVLSLQEEI 993
Query: 1216 AKLKKTLKK 1224
AKL+K L +
Sbjct: 994 AKLRKELHQ 1002
Score = 36.2 bits (84), Expect = 0.078
Identities = 32/253 (12%), Positives = 94/253 (37%), Gaps = 30/253 (11%)
Query: 986 LQAQDRAHRIGQKNEVRVLRLMTVNSVEERILAAARYKLNMDEK---VIQAGMFDQKSTG 1042
+Q R + + ++ + + + ++ L +Y++ + E +IQ
Sbjct: 822 IQKFQRMYVVRKRYQCMRDATIALQALLRGYLVRNKYQMMLREHKSIIIQK--------- 872
Query: 1043 SERHQFLQTILHQDDEEDEEENAVPDDETVNQMLARSEEEFQTYQ--RIDAERRKEQGKK 1100
++ L + + V +M+A+ E + + ++ ++ G +
Sbjct: 873 -----HVRGWLARVHYHRTLKAIVYLQCCYRRMMAKRELKKLKIEARSVERYKKLHIGLE 927
Query: 1101 SRLIEVSELPDWLIKEDEEIE--------QWAFEAKEEEKALHMGRGSRQRKQVDYTDSL 1152
++++++ D KE + + ++ E ++ + R S + + L
Sbjct: 928 NKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVERLRMSEEEAKNATNRVL 987
Query: 1153 TEKEWLKAIDDGVEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDRE 1212
+ +E + + + E++ EE K K + + + E+ + K EKE+
Sbjct: 988 SLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQ---NTLLKTEKEELNR 1044
Query: 1213 KDQAKLKKTLKKI 1225
+ + K+ + +
Sbjct: 1045 RIHDQAKEITETM 1057
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment
2, heavy meromyosin, essential light chain, motor
protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1
PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 50.6 bits (121), Expect = 4e-06
Identities = 51/345 (14%), Positives = 124/345 (35%), Gaps = 49/345 (14%)
Query: 209 RVALNIERRIEELNGSLTSTLPEHLRVKAEIELRALKVLN----FQRQLRAEVIACARRD 264
R ++ + EEL + E+E + ++ Q +L+AE A +
Sbjct: 854 RQEEEMQAKDEELQ-RTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELYAEAE 912
Query: 265 TTLETAVNVKAYKRTKRQGLKEARATEKLEKQQKVEAERKKRQKHQEYITTVLQHCKDFK 324
K ++ E+ QQ ++K +Q+ +
Sbjct: 913 EMRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDL------------ 960
Query: 325 EYHRNNQARIMRLNKAVMNYHANAEKEQKKEQERIEKERMRRLMAEDEEGYRKLIDQKKD 384
+ ++ A + E+ +I+K M + E+ KL ++K
Sbjct: 961 ------EEQLEEEEAAR----QKLQLEKVTADGKIKK--MEDDILIMEDQNNKLTKERKL 1008
Query: 385 -----KRLAFLLSQTDEYISNLTQMVKEH---------KMEQKKKQDEESKKRKQSVKQK 430
L L++ +E NLT++ +H ++++++K +E +K K+ ++ +
Sbjct: 1009 LEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGE 1068
Query: 431 LMDTDGKVTLDQDETSQLTDMHIS-VREISSGKVLKGEDAPLAAHLKQWIQDHPGWEVVA 489
D ++ Q + ++L E+ + ++ + + I++ ++
Sbjct: 1069 SSDLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELE--SHIS 1126
Query: 490 DSDEENEDEDSEKS---KEKTSGENENKEKNKGEDDEYNKNAMEE 531
D E+ E E + ++ K+K E + +D + A ++
Sbjct: 1127 DLQEDLESEKAARNKAEKQKRDLSEELEALKTELEDTLDTTATQQ 1171
Score = 43.3 bits (102), Expect = 7e-04
Identities = 40/287 (13%), Positives = 108/287 (37%), Gaps = 36/287 (12%)
Query: 234 RVKAEIELRALKVLNFQRQLRAEVIACARRDTTLETAVNVKAYKRTKRQGLKEARATEKL 293
+ A+ + + + Q +R+ + K T+++ +A+ E
Sbjct: 809 KAFAKRQQQLESIFCIQYNVRSF-MNVXHWPWMXLFFXIXPLLKVTRQEEEMQAKDEELQ 867
Query: 294 EKQQKVEAERKKRQKHQEYITTVLQHCKDFKEYHRNNQARIMRLNKAVMNYHANAEKEQK 353
+++ + + ++ ++ T + + +E + + A +K
Sbjct: 868 RTKERQQKAEAELKELEQKHTQLCEEKNLLQE-----KLQAETELYAEAEEMRVRLAAKK 922
Query: 354 KEQERIEKERMRRLMAEDEEGYRKLIDQKKDKRLAFLLSQTDEYISNLTQMVKEHKMEQK 413
+E E I E R+ E+E ++L +KK M ++ ++
Sbjct: 923 QELEEILHEMEARIEEEEER-SQQLQAEKKK-------------------MQQQMLDLEE 962
Query: 414 KKQDEESKKRKQSVKQKLMDTDGKVTLDQDETSQLTDMHISVREISSGKVLKGEDAPLAA 473
+ ++EE+ ++K ++ + + DGK+ +D+ + D + + + K+L+ + L
Sbjct: 963 QLEEEEAARQK--LQLEKVTADGKIKKMEDDILIMEDQNNKLTKER--KLLEERVSDLTT 1018
Query: 474 HLKQWIQDHPGWEVVADSDEENEDEDSEKSKEKTSGENENKEKNKGE 520
+L + E + + +S S+ + + E K + + E
Sbjct: 1019 NLAEEE------EKAKNLTKLKNKHESMISELEVRLKKEEKSRQELE 1059
Score = 42.1 bits (99), Expect = 0.001
Identities = 38/245 (15%), Positives = 102/245 (41%), Gaps = 6/245 (2%)
Query: 984 QDLQAQDRAHRIGQKNEVRVLRLMTVNSVEERILAAARYKLNMDEKVIQAGMFDQKSTGS 1043
+ + + + + E++ L EE+ L + + E + A + + +
Sbjct: 863 DEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQ---AETELYAEAEEMRVRLA 919
Query: 1044 ERHQFLQTILH--QDDEEDEEENAVPDDETVNQMLARSEEEFQTYQRIDAERRK-EQGKK 1100
+ Q L+ ILH + E+EEE + +M + + + + +A R+K + K
Sbjct: 920 AKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKV 979
Query: 1101 SRLIEVSELPDWLIKEDEEIEQWAFEAKEEEKALHMGRGSRQRKQVDYTDSLTEKEWLKA 1160
+ ++ ++ D ++ +++ + E K E+ + + ++ + K ++
Sbjct: 980 TADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHES 1039
Query: 1161 IDDGVEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDREKDQAKLKK 1220
+ +E ++EE+ + K K K ++ D E+ + + + E + K + +L+
Sbjct: 1040 MISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQA 1099
Query: 1221 TLKKI 1225
L ++
Sbjct: 1100 ALARL 1104
Score = 42.1 bits (99), Expect = 0.002
Identities = 47/257 (18%), Positives = 97/257 (37%), Gaps = 29/257 (11%)
Query: 1070 ETVNQMLARSEEEFQTYQRIDAERRKEQGKKSRLIE-VSELPDWLIKEDEEIEQWAFEAK 1128
E +++M AR EEE + Q++ AE++K Q + L E + E K E + K
Sbjct: 927 EILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIK 986
Query: 1129 EEEKALHMGRGSRQRKQVDYTDSLTEKEWLKAIDDGVEYDDEEEEEEEEVRSKRKGKRRK 1188
+ E + + E++ L+ + + EEEE+ + +K K K
Sbjct: 987 KMEDDI-------LIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHES 1039
Query: 1189 KTEDDDEEPSTSKKRKKEKEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLP 1248
+ + +K ++E EK + K + + ++I + + + ++
Sbjct: 1040 MISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQL--------- 1090
Query: 1249 SRKELPDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHED 1308
++KE +++ L R+ED S + K + L + E+L
Sbjct: 1091 AKKE-----------EELQAALARLEDET-SQKNNALKKIRELESHISDLQEDLESEKAA 1138
Query: 1309 SVVLESVFTKARQRVES 1325
E + +E+
Sbjct: 1139 RNKAEKQKRDLSEELEA 1155
Score = 41.4 bits (97), Expect = 0.003
Identities = 34/226 (15%), Positives = 77/226 (34%), Gaps = 12/226 (5%)
Query: 215 ERRIEELNGSLTSTLPEHLRVKAEIELRALKVLNFQRQLRAEVIACARRDTTLETAVNVK 274
E ++EE + E + +I+ +L + Q + +
Sbjct: 961 EEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNL 1020
Query: 275 AYKRTKRQGLKEARA---TEKLEKQQKVEAERKKRQKHQEYITTVLQHCKDFKEYHRNNQ 331
A + K + L + + + E + +++ E K RQ+ ++ + D E Q
Sbjct: 1021 AEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQ 1080
Query: 332 ARIMRLNKAVMNYHA-NAEKEQKKEQERIEKERMRRLMAEDEEGYRKLIDQKKDKRLAFL 390
A+I L + + E E +K + + E E L + + ++ A
Sbjct: 1081 AQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAA-- 1138
Query: 391 LSQTDEYISNLTQMVKEHKME------QKKKQDEESKKRKQSVKQK 430
++ ++ +L++ ++ K E Q E + K
Sbjct: 1139 RNKAEKQKRDLSEELEALKTELEDTLDTTATQQELRGSDYKDDDDK 1184
Score = 35.2 bits (81), Expect = 0.19
Identities = 36/255 (14%), Positives = 92/255 (36%), Gaps = 16/255 (6%)
Query: 1074 QMLARSEEEFQTYQRIDAERRKEQGKKSRLIEVSELPDWLIKEDEEIEQWAFEAKEEEKA 1133
+ R EEE Q ++ Q K ++ E ++ Q E ++
Sbjct: 850 LKVTRQEEEMQAKDEELQRTKERQQKAEAELKELE---------QKHTQLCEEKNLLQEK 900
Query: 1134 LHMGRGSRQRKQVDYTDSLTEKEWLKAIDDGVEYDDEEEEEEEEVRSKRKGKRRKKTEDD 1193
L + +K+ L+ + ++ E EEEE RS++ +KK +
Sbjct: 901 LQAETELYAEAEEMRVRLAAKKQELEE----ILHEMEARIEEEEERSQQLQAEKKKMQQQ 956
Query: 1194 DEEPSTSKKRKKEKEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKEL 1253
+ + ++ + + ++ +KK+ ++ D + ++ E + + +
Sbjct: 957 MLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKE---RKLLEERV 1013
Query: 1254 PDYYEVIDRPMDIKKILGRIEDGKYSSVDELQKDFKTLCRNAQIYNEELSLIHEDSVVLE 1313
D + + K L ++++ S + EL+ K ++ Q + + +S L
Sbjct: 1014 SDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLH 1073
Query: 1314 SVFTKARQRVESGED 1328
+ + ++ +
Sbjct: 1074 EQIAELQAQIAELKA 1088
Score = 34.4 bits (79), Expect = 0.36
Identities = 35/197 (17%), Positives = 84/197 (42%), Gaps = 32/197 (16%)
Query: 1038 QKSTGSERHQFLQTILHQDDEEDEEENAVPD--DETVNQMLARSEEEFQTYQRIDAERRK 1095
++ ER L T L +++E+ + + + + ++++ R ++E ++ Q ++ +RK
Sbjct: 1005 ERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRK 1064
Query: 1096 EQGKKSRLI--------EVSELPDWLIKEDEEIEQWAFEAKEEEKALHMGRGSRQRKQVD 1147
+G+ S L +++EL L K++EE++ ++E +
Sbjct: 1065 LEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDE-------TSQKNNALKK 1117
Query: 1148 YTDSLTEKEWLKAIDDGVEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEK 1207
+ + L+ E+ E E+ R+K + ++R +E+ + K + E
Sbjct: 1118 IRELESHISDLQ----------EDLESEKAARNKAEKQKRDLSEELEA-----LKTELED 1162
Query: 1208 EKDREKDQAKLKKTLKK 1224
D Q +L+ + K
Sbjct: 1163 TLDTTATQQELRGSDYK 1179
Score = 32.1 bits (73), Expect = 1.6
Identities = 26/160 (16%), Positives = 62/160 (38%), Gaps = 27/160 (16%)
Query: 205 ERENRVALNIERRIEELNGSLTSTLPEHLRVKAEIELRALKVLNFQRQLRAEVIACARRD 264
++E + +E+ +L G + + ++A+I +L+A++ A+++
Sbjct: 1049 KKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIA-----------ELKAQL---AKKE 1094
Query: 265 TTLETAVN-VKAYKRTKRQGLKEARATEKL--EKQQKVEAERKKRQKHQEYITTVLQHCK 321
L+ A+ ++ K LK+ R E + Q+ +E+E+ R K + K
Sbjct: 1095 EELQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKAARNKAE----------K 1144
Query: 322 DFKEYHRNNQARIMRLNKAVMNYHANAEKEQKKEQERIEK 361
++ +A L + E ++ +K
Sbjct: 1145 QKRDLSEELEALKTELEDTLDTTATQQELRGSDYKDDDDK 1184
>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*
Length = 556
Score = 48.4 bits (114), Expect = 1e-05
Identities = 72/553 (13%), Positives = 164/553 (29%), Gaps = 73/553 (13%)
Query: 556 KLKEYQIKGLEWMVSLFNNNLNGILADEMGLGKTIQTIALITYLMEKKKVNGPFLII--V 613
K + YQI+ + ++ N ++ G GKT +I + + + ++
Sbjct: 7 KARSYQIELAQP--AINGKNA--LICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFLA 62
Query: 614 PLSTLSNWSLEFERW---APSVNVVAYKGSPHLRKTLQAQMKASKFNVLLTTYEYVIKD- 669
+ + +V G +++ ++ S ++++ T + ++
Sbjct: 63 TKVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDS--DIIVVTPQILVNSF 120
Query: 670 -KGPLAKL-HWKYMIIDEGHRMKNHHC-------KLTHILNTFYVAPHRLLLTGTPLQNK 720
G L L + MI DE H +H L N+ P L LT +
Sbjct: 121 EDGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLPQILGLTASVGVGN 180
Query: 721 LPELWALLNFLLPSIFKSVSTFEQWFNAPFATTGEKVELNEEETILIIRRLHKVLRPFLL 780
+ + + + E + L+ RR+H ++
Sbjct: 181 AKNIEETIEHICSLCSYLDIQAISTVRENIQELQRFMNKPEIDVRLVKRRIHNPFAA-II 239
Query: 781 RRLKKEVESQLPDKVEYIIKCDMSGLQKVLYRHMHTKGILLTDGSEKGKQGKGGAKALMN 840
L E E+ + S + H + + K +
Sbjct: 240 SNLMSETEALMRTIYSVDTLSQNSKKDFGTQNYEHWIVVTQRKCRLLQLEDKEEESRICR 299
Query: 841 TIVQLRKLCNHPFMFQNIEE------------------------KFSDHVGGSGIVSGPD 876
+ + I E + H+ P+
Sbjct: 300 ALFICTEHLRKYNDALIISEDARIIDALSYLTEFFTNVKNGPYTELEQHLTAKFQEKEPE 359
Query: 877 LYRVSGKFELLDRILPKLK---------STGHRVLLFCQM----TQLMNILEDYFSYRGF 923
L +S + L +L + R LLF + + L +E+
Sbjct: 360 LIALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKKCMEENPILNYI 419
Query: 924 KYMRLDGTTKAEDRGDL--------LKKFNAPDSEYFIFVLSTRAGGLGLNLQTADTVII 975
K L G + + + L F S+ +++T G+++ + V++
Sbjct: 420 KPGVLMGRGRRDQTTGMTLPSQKGVLDAFK--TSKDNRLLIATSVADEGIDIVQCNLVVL 477
Query: 976 FDSDWNPHQDLQAQDRAHRIGQKNEVRVLRLMTVNSVEERILAAARYKLNMDEKVIQAGM 1035
++ N + +Q + R + + + + + V E + M++ V +
Sbjct: 478 YEYSGNVTKMIQVRGRG----RAAGSKCILVTSKTEVVENEKCNRYKEEMMNKAVEKIQK 533
Query: 1036 FDQKSTGSERHQF 1048
+D+++ + H
Sbjct: 534 WDEETFAKKIHNL 546
>2ro1_A Transcription intermediary factor 1-beta; KAP, TIF, PHD finger,
bromodomain, SUMO, acetylation, alternative splicing,
metal-binding, nucleus; NMR {Homo sapiens}
Length = 189
Score = 45.2 bits (106), Expect = 4e-05
Identities = 14/86 (16%), Positives = 28/86 (32%), Gaps = 16/86 (18%)
Query: 1241 SEPFIKLPSRKELPDYYEVIDRPMDIKKILGRIED---GKYSSVDELQKDFKTLCRNAQI 1297
P +L + + +D+ I R+++ YSS E +D + +
Sbjct: 94 CRPLHQLATDS--TFSLDQPGGTLDLTLIRARLQEKLSPPYSSPQEFAQDVGRMFKQFNK 151
Query: 1298 YNEELSLIHEDSVV-----LESVFTK 1318
E + + V L+ F
Sbjct: 152 LTE------DKADVQSIIGLQRFFET 171
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 44.0 bits (103), Expect = 8e-05
Identities = 25/111 (22%), Positives = 41/111 (36%), Gaps = 39/111 (35%)
Query: 1110 PDWLIKEDEEIEQWAFEAKEEEKALHMGRGSRQRKQVDYTDSLTEKEWLKAIDDGVEYDD 1169
D L +E E I +W +EE QRK+ L E D
Sbjct: 77 ADRLTQEPESIRKW----REE-----------QRKR------LQEL------------DA 103
Query: 1170 EEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDREKDQAKLKK 1220
+ E+E R K K + ++ S++ +K K +R D+A ++
Sbjct: 104 ASKVMEQEWREK------AKKDLEEWNQRQSEQVEKNKINNRIADKAFYQQ 148
Score = 43.6 bits (102), Expect = 1e-04
Identities = 15/82 (18%), Positives = 34/82 (41%), Gaps = 14/82 (17%)
Query: 1055 QDDEEDEEENAVPDDETVNQMLARSEEEFQTYQRIDAERRKEQGKKSRLIEVS--ELPDW 1112
Q D +E E++ + R EE + +R+ + + E + +L +W
Sbjct: 76 QADRLTQEP------ESIRK--WR--EEQR--KRLQELDAASKVMEQEWREKAKKDLEEW 123
Query: 1113 LIKEDEEIEQWAFEAKEEEKAL 1134
++ E++E+ + +KA
Sbjct: 124 NQRQSEQVEKNKINNRIADKAF 145
Score = 37.4 bits (86), Expect = 0.014
Identities = 12/74 (16%), Positives = 33/74 (44%), Gaps = 10/74 (13%)
Query: 284 LKEARATEKLEKQQKVEAERKKRQKHQEYITTVLQHCKDFKEYHRNNQARIMRLNKAVMN 343
+++ R ++ Q+ A + Q+ +E + KD +E+++ ++ + NK
Sbjct: 87 IRKWREEQRKRLQELDAASKVMEQEWRE------KAKKDLEEWNQRQSEQVEK-NKINN- 138
Query: 344 YHANAEKEQKKEQE 357
A+K ++ +
Sbjct: 139 --RIADKAFYQQPD 150
Score = 37.4 bits (86), Expect = 0.015
Identities = 16/79 (20%), Positives = 34/79 (43%), Gaps = 15/79 (18%)
Query: 1169 DEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKE------KEKD-----REKDQAK 1217
D +E E +R K + ++RK+ ++ D SK ++E K+ + + + K
Sbjct: 78 DRLTQEPESIR-KWREEQRKRLQELDAA---SKVMEQEWREKAKKDLEEWNQRQSEQVEK 133
Query: 1218 LKKTLKKIMRVVIKYTDSD 1236
K + + + D+D
Sbjct: 134 NKINNRIADKAFYQQPDAD 152
Score = 35.9 bits (82), Expect = 0.043
Identities = 11/83 (13%), Positives = 31/83 (37%), Gaps = 10/83 (12%)
Query: 346 ANAEKEQ-KKEQERIEKERMRRLMAEDEEGYRKLIDQKKDKRLAFLLSQTDEYISNLTQM 404
E E +K +E E+ +RL D + ++ + +E+ ++
Sbjct: 80 LTQEPESIRKWRE----EQRKRLQELDAASKVMEQEWREKAK-----KDLEEWNQRQSEQ 130
Query: 405 VKEHKMEQKKKQDEESKKRKQSV 427
V+++K+ + ++ +
Sbjct: 131 VEKNKINNRIADKAFYQQPDADI 153
Score = 35.9 bits (82), Expect = 0.047
Identities = 13/89 (14%), Positives = 25/89 (28%), Gaps = 12/89 (13%)
Query: 347 NAEKEQKKEQERIEK---ERMRRLMAEDEEGYRKLIDQKKDKRLAFLLSQTDEYISNLTQ 403
+E E I K E+ +RL D + ++ + + + Q
Sbjct: 75 AQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWRE---------KAKKDLEEWNQ 125
Query: 404 MVKEHKMEQKKKQDEESKKRKQSVKQKLM 432
E + K K Q ++
Sbjct: 126 RQSEQVEKNKINNRIADKAFYQQPDADII 154
Score = 31.7 bits (71), Expect = 1.2
Identities = 10/42 (23%), Positives = 20/42 (47%), Gaps = 9/42 (21%)
Query: 398 ISNLTQMVKEH------KMEQKK---KQDEESKKRKQSVKQK 430
I+ ++ +E + EQ+K + D SK +Q ++K
Sbjct: 74 IAQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREK 115
Score = 31.3 bits (70), Expect = 1.4
Identities = 19/112 (16%), Positives = 34/112 (30%), Gaps = 43/112 (38%)
Query: 294 EKQQKVEAERKKRQKHQEYITTVLQHCKDFKEYHRNNQARIMRLNKAVMNYHANAEKEQK 353
Q+ E+ RK R++ + R+ +
Sbjct: 79 RLTQEPESIRKWREE---------------------QRKRL----------QELDAASKV 107
Query: 354 KEQERIEKERMRRLMAEDEEGYRKLIDQ----KKDKRLA---FLLSQTDEYI 398
EQE EK + + EE ++ +Q K + R+A F + I
Sbjct: 108 MEQEWREKAK-----KDLEEWNQRQSEQVEKNKINNRIADKAFYQQPDADII 154
Score = 30.1 bits (67), Expect = 3.3
Identities = 15/92 (16%), Positives = 27/92 (29%), Gaps = 39/92 (42%)
Query: 458 ISSGKVLKGEDAPLAAHLKQWIQDHPGWEVVADSDEENE------DEDSEKSKEKTSGE- 510
I+ L E +++W EE D S+ +++ +
Sbjct: 74 IAQADRLTQE----PESIRKW-------------REEQRKRLQELDAASKVMEQEWREKA 116
Query: 511 -----------NENKEKNKGEDDEYNKNAMEE 531
+E EKNK N+ A +
Sbjct: 117 KKDLEEWNQRQSEQVEKNKIN----NRIADKA 144
>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex,
cytoplasm, ribonucleoprotein, structural protein; 3.50A
{Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A
Length = 861
Score = 43.6 bits (102), Expect = 4e-04
Identities = 28/208 (13%), Positives = 63/208 (30%), Gaps = 17/208 (8%)
Query: 205 ERENRVALNIE-RRIEELNGSLTSTLPEHLRVKAEIELRALKVLNFQRQLRAEVIACARR 263
+ V +++ + +E ++ L +++ EI + + R E A R
Sbjct: 629 PQNGLVVSSVDVQSVEPVDQRTRDALQRSVQLAIEITTNSQEAAAKHEAQRLEQEARGRL 688
Query: 264 DTTLETAVNVKAYKRTKRQGLKEARATEKLEKQQKVEAERKKRQKHQEYITTVLQHCKDF 323
+ + R + L+ + K EAE + E
Sbjct: 689 ERQKILDQSEAEKARKELLELEAMSMAVESTGNAKAEAESRAEAARIE------------ 736
Query: 324 KEYHRNNQARIMRLNKAVMNYHANAEKEQKKEQERIEKERMRRLMAEDEEGYRKLIDQKK 383
+L + AE E+ K+ +E R + + ++L + +
Sbjct: 737 ----GEGSVLQAKLKAQALAIETEAELERVKKVREMELIYARAQLELEVSKAQQLANVEA 792
Query: 384 DKRLAFLLSQTDEYISNLTQMVKEHKME 411
K + I +L E +++
Sbjct: 793 KKFKEMTEALGPGTIRDLAVAGPEMQVK 820
Score = 34.0 bits (77), Expect = 0.37
Identities = 31/249 (12%), Positives = 73/249 (29%), Gaps = 7/249 (2%)
Query: 1011 SVEERILAAARYKLNMDEKVIQAGMFDQKST--GSERHQFLQTILHQDDEEDEEENAVPD 1068
+ +L AR + + + D +S +R + Q E +
Sbjct: 613 GPDGTLLPKARDQAVFPQNGLVVSSVDVQSVEPVDQRTRDALQRSVQLAIEITTNSQEAA 672
Query: 1069 DETVNQMLARSEEEFQTYQRIDAERRKEQGKKSRLIEVSELPDWLIKEDEEIEQWAFEAK 1128
+ Q L + Q+I + E+ +K L + + + E +
Sbjct: 673 AKHEAQRLEQEARGRLERQKILDQSEAEKARKELLELEAMSMAVESTGNAKAEAESRAEA 732
Query: 1129 EEEKALHMGRGSRQRKQVDYTDSLTEKEWLKA-----IDDGVEYDDEEEEEEEEVRSKRK 1183
+ ++ + Q ++ E E +K + + E + +++ +
Sbjct: 733 ARIEGEGSVLQAKLKAQALAIETEAELERVKKVREMELIYARAQLELEVSKAQQLANVEA 792
Query: 1184 GKRRKKTEDDDEEPSTSKKRKKEKEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEP 1243
K ++ TE + + + LK TL I + +L
Sbjct: 793 KKFKEMTEALGPGTIRDLAVAGPEMQVKLLQSLGLKSTLITDGSSPINLFSTAFGLLGLG 852
Query: 1244 FIKLPSRKE 1252
P ++
Sbjct: 853 SDGQPPAQK 861
Score = 32.5 bits (73), Expect = 1.4
Identities = 21/188 (11%), Positives = 60/188 (31%), Gaps = 7/188 (3%)
Query: 1033 AGMFDQKSTGSERHQFLQTILHQDDEEDEEENAVPDDETVNQMLARSEEEFQTYQRIDAE 1092
A + + + + ED + + +Q + + + +
Sbjct: 584 ASVTFDDFHKNSARIIRMAVFGFEMSEDTGPDGTLLPKARDQAVFPQNGLVVSSVDVQSV 643
Query: 1093 RRKEQGKKSRLIEVSELPDWLIKEDEEIEQWAFEAKEEEKALHMGRGSRQRKQVDYTDSL 1152
+Q + L ++ EI + EA + +A + + +R R +
Sbjct: 644 EPVDQRTRDALQR-------SVQLAIEITTNSQEAAAKHEAQRLEQEARGRLERQKILDQ 696
Query: 1153 TEKEWLKAIDDGVEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDRE 1212
+E E + +E E +++ + + + + +K + + + E
Sbjct: 697 SEAEKARKELLELEAMSMAVESTGNAKAEAESRAEAARIEGEGSVLQAKLKAQALAIETE 756
Query: 1213 KDQAKLKK 1220
+ ++KK
Sbjct: 757 AELERVKK 764
Score = 29.8 bits (66), Expect = 8.9
Identities = 31/171 (18%), Positives = 58/171 (33%), Gaps = 10/171 (5%)
Query: 204 QERENRVALNIERRIEELNGSLTSTLPEHLRVKAEIELRALKVLNFQRQLRAEVIACARR 263
+R ++A+ I +E E R++ E R + Q+ L AR+
Sbjct: 654 LQRSVQLAIEITTNSQEAAAKH-----EAQRLEQEARGRLER----QKILDQSEAEKARK 704
Query: 264 DTTLETAVNVKAYKRTKRQGLKEARATE-KLEKQQKVEAERKKRQKHQEYITTVLQHCKD 322
+ A+++ + E+RA ++E + V + K Q L+ K
Sbjct: 705 ELLELEAMSMAVESTGNAKAEAESRAEAARIEGEGSVLQAKLKAQALAIETEAELERVKK 764
Query: 323 FKEYHRNNQARIMRLNKAVMNYHANAEKEQKKEQERIEKERMRRLMAEDEE 373
+E + L + AN E ++ KE R +A
Sbjct: 765 VREMELIYARAQLELEVSKAQQLANVEAKKFKEMTEALGPGTIRDLAVAGP 815
>1rif_A DAR protein, DNA helicase UVSW; bacteriophage, RECG, SF2, DNA
binding protein; HET: DNA; 2.00A {Enterobacteria phage
T4} SCOP: c.37.1.23
Length = 282
Score = 41.2 bits (95), Expect = 0.001
Identities = 35/203 (17%), Positives = 67/203 (33%), Gaps = 13/203 (6%)
Query: 515 EKNKGEDDEYNKNAMEEATYYSIAHTVHEIVTEQASILVNGKLKEYQIKGLEWMVSLFNN 574
N G + E+ E S + YQ + +
Sbjct: 72 CDNFGYKAWIDPQINEKEELSRKDFDEWLSKLEIYSGNKRIEPHWYQKDAVFEGLVNRRR 131
Query: 575 NLNGILADEMGLGKTIQTIALITYLMEKKKVNGPFLIIVPLSTLSN-WSLEFERWAPSVN 633
LN G+++ L Y +E G LIIVP + L+ + +F + +
Sbjct: 132 ILNL----PTSAGRSLIQALLARYYLENY--EGKILIIVPTTALTTQMADDFVDYRLFSH 185
Query: 634 VVAYKGSPHLRKTLQAQMKASKFNVLLTTYEYVIKDKGPLAKLHWKYMIIDEGHRMKNHH 693
+ K K + + A V++ T++ V+K + M+ DE H
Sbjct: 186 AMIKKIGGGASKDDKYKNDA---PVVVGTWQTVVKQPKEWFS-QFGMMMNDECHLATGK- 240
Query: 694 CKLTHILNTFYVAPHRLLLTGTP 716
++ I++ + L+G+
Sbjct: 241 -SISSIISGLNNCMFKFGLSGSL 262
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant helicase,
T4-bacteriophage, recombination, hydrolase; 2.70A
{Enterobacteria phage T4}
Length = 510
Score = 41.0 bits (95), Expect = 0.003
Identities = 18/113 (15%), Positives = 30/113 (26%), Gaps = 3/113 (2%)
Query: 893 KLKSTGHRVLLFCQMTQLMNILEDYFSYRGFKYMRLDGTTKAEDRGDLLKKFNAPDSEYF 952
KL + + + D K + G E R +
Sbjct: 342 KLAQKDENAFVMFKHVSHGKAIFDLIKNEYDKVYYVSGEVDTETRNIMKTLAENGKG--I 399
Query: 953 IFVLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQ-KNEVRVL 1004
I V S G++++ V++ + LQ R R K V
Sbjct: 400 IIVASYGVFSTGISVKNLHHVVLAHGVKSKIIVLQTIGRVLRKHGSKTIATVW 452
>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 = 41.2 bits (96), Expect = 0.003
Identities = 54/347 (15%), Positives = 102/347 (29%), Gaps = 133/347 (38%)
Query: 34 PPGSPGPSP-------GQAP------GQ-NPQENLTALQ-----------RAIDSMKEQG 68
P S G A GQ N + L+ I E
Sbjct: 136 PFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAET- 194
Query: 69 LEE--------DPRYQKLIEMKA-----NRTEIKHAFTSAQVQ----QLRFQIMAYRLLA 111
L E + + + + + + T K S + + Q+ Y + A
Sbjct: 195 LSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGV-IQLAHYVVTA 253
Query: 112 RNQPLTP-QLAMGVQG--KRMEGV---------PSGPQMPPMSLHGPMPMPPSQPMPNQA 159
+ TP +L ++G +G+ S S +
Sbjct: 254 KLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWE-----SFF-----------VSVR 297
Query: 160 QPMPL--------QQQPPPQPHQQQGHISSQIKQSKLTN---IPKP----EGLDPLIILQ 204
+ + + + P + I + L N +P P L Q
Sbjct: 298 KAITVLFFIGVRCYEAYPNTS------LPPSILEDSLENNEGVPSPMLSISNLT-----Q 346
Query: 205 ERENRVALNIERRIEELNGSLTSTLPEHLRVKAEIELRALKVLNFQRQLRAEVIACARRD 264
E+ ++ + + N L P +V EI L N + L V++ +
Sbjct: 347 EQ-------VQDYVNKTNSHL----PAGKQV--EISLV-----NGAKNL---VVSGPPQS 385
Query: 265 TTLETAVNVKAYKRTKRQGLKEARATEKLEKQQKVE-AERKKRQKHQ 310
L +N+ L++A+A L+ Q ++ +ERK + ++
Sbjct: 386 --LY-GLNLT---------LRKAKAPSGLD-QSRIPFSERKLKFSNR 419
Score = 35.0 bits (80), Expect = 0.23
Identities = 32/173 (18%), Positives = 58/173 (33%), Gaps = 57/173 (32%)
Query: 1190 TED--DDEEPSTSKK----------RKKEKEKDREKDQAKLKKTLKKIMRVVIKYTDSD- 1236
TE D+EP+T + E K + DQ L L + ++ +D
Sbjct: 45 TEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQV-LNLCLTEFENCYLE--GNDI 101
Query: 1237 ----GRVLSEPFIKLPSRKE-LPDYYE---VIDRPMDIK---KILGRIEDGKYSSVDELQ 1285
++L E L KE + +Y + RP D K + + +G
Sbjct: 102 HALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEG--------- 152
Query: 1286 KDFKTLCRNAQIY-------N-----EELSLIHEDS-VVLESVFTKARQRVES 1325
NAQ+ N EEL +++ V++ + + + +
Sbjct: 153 --------NAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSE 197
Score = 34.6 bits (79), Expect = 0.31
Identities = 31/182 (17%), Positives = 57/182 (31%), Gaps = 48/182 (26%)
Query: 540 TVHEIVTEQASILVNGKLKEY-QIKGLEWMVSLFNNNLNGILA----DEMGLGKTIQTIA 594
V + V + N L Q++ +SL N N +++ GL T++
Sbjct: 348 QVQDYVNK-----TNSHLPAGKQVE-----ISLVNGAKNLVVSGPPQSLYGLNLTLRKAK 397
Query: 595 L--------ITYLMEKKKVNGPFL-IIVPL--STLSNWSLEFERWAPSVNVVAYKGSPHL 643
I + K K + FL + P L S + NV ++ +
Sbjct: 398 APSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNV-SFNAK-DI 455
Query: 644 R----KTLQAQ-MKASKFNVLLTTYEYVIKDKGPLAKLHWKYMIIDEGHRMKNHHCKLTH 698
+ T ++ ++ + +I+ P+ W K TH
Sbjct: 456 QIPVYDTFDGSDLRVLSGSISERIVDCIIRL--PV---KW----------ETTTQFKATH 500
Query: 699 IL 700
IL
Sbjct: 501 IL 502
Score = 34.6 bits (79), Expect = 0.31
Identities = 17/112 (15%), Positives = 33/112 (29%), Gaps = 23/112 (20%)
Query: 401 LTQMVKEHKMEQKKKQDEESK----KRKQSVKQK------------LMDTDGKVTLD--- 441
L +++ K Q S+ +RK + L+ + D
Sbjct: 389 LNLTLRKAKAPSGLDQ---SRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVK 445
Query: 442 QDETSQLTDMHISVREISSGKVLKGEDAPLAAHLKQWIQDHP-GWEVVADSD 492
+ + D+ I V + G L+ ++ + I P WE
Sbjct: 446 NNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFK 497
Score = 34.3 bits (78), Expect = 0.36
Identities = 44/234 (18%), Positives = 70/234 (29%), Gaps = 78/234 (33%)
Query: 50 PQENLTALQRAIDSMKEQGLEEDPRYQKLIEMKANRTEIKHAFTSAQVQQLRFQIMAYRL 109
P +L DS+ E E P M + I + T QVQ +
Sbjct: 315 PNTSLPPSILE-DSL-ENN-EGVPSP-----MLS----ISNL-TQEQVQD--------YV 353
Query: 110 LARNQ--PLTPQLAMG-VQGKRMEGVPSGPQMPPMSLHG------PMPMPPSQPMPNQAQ 160
N P Q+ + V G + V SGP P SL+G P +Q++
Sbjct: 354 NKTNSHLPAGKQVEISLVNGAKNL-VVSGP---PQSLYGLNLTLRKAKAPSGL---DQSR 406
Query: 161 PMPLQQQPP-------P--QP-H------------QQQGHISSQIKQSKLTNIP--KPE- 195
+P ++ P P H + + + IP
Sbjct: 407 -IPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDI-QIPVYDTFD 464
Query: 196 GLDPLIILQERENRVALNIERRIEELNGSLTSTLPEHLRVKAEIELRALKVLNF 249
G D L+ ++ I I LP + + +A +L+F
Sbjct: 465 GSD----LRVLSGSISERIVDCI--------IRLPVKW--ETTTQFKATHILDF 504
>3q2s_C Cleavage and polyadenylation specificity factor S; CFIM, CFIM25,
CFIM68, CPSF5, CPSF6, CPSF, 3' END processing,
processing, cleavage factor; 2.90A {Homo sapiens} PDB:
3q2t_C
Length = 229
Score = 39.7 bits (92), Expect = 0.003
Identities = 14/68 (20%), Positives = 21/68 (30%)
Query: 111 ARNQPLTPQLAMGVQGKRMEGVPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPP 170
+++ T M +GK S P G P + P ++ PPP
Sbjct: 157 MQSRKTTQSGQMSGEGKAGPPGGSSRAAFPQGGRGRGRFPGAVPGGDRFPGPAGPGGPPP 216
Query: 171 QPHQQQGH 178
Q H
Sbjct: 217 PFPAGQTH 224
Score = 38.5 bits (89), Expect = 0.009
Identities = 10/75 (13%), Positives = 18/75 (24%), Gaps = 3/75 (4%)
Query: 107 YRLLARNQPLTPQLAMGVQGKRMEGVPSGPQMPPMSLHGPMPMPP---SQPMPNQAQPMP 163
+ + +R + Q++ + G G P + P
Sbjct: 155 FEMQSRKTTQSGQMSGEGKAGPPGGSSRAAFPQGGRGRGRFPGAVPGGDRFPGPAGPGGP 214
Query: 164 LQQQPPPQPHQQQGH 178
P Q H H
Sbjct: 215 PPPFPAGQTHHHHHH 229
Score = 36.6 bits (84), Expect = 0.029
Identities = 13/48 (27%), Positives = 16/48 (33%)
Query: 4 SSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQ 51
+S P + G +P G GP G GP P GQ
Sbjct: 178 GGSSRAAFPQGGRGRGRFPGAVPGGDRFPGPAGPGGPPPPFPAGQTHH 225
Score = 32.8 bits (74), Expect = 0.55
Identities = 7/68 (10%), Positives = 13/68 (19%)
Query: 110 LARNQPLTPQLAMGVQGKRMEGVPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPP 169
Q L+ + + + + P P +
Sbjct: 146 PVNKQFLSQFEMQSRKTTQSGQMSGEGKAGPPGGSSRAAFPQGGRGRGRFPGAVPGGDRF 205
Query: 170 PQPHQQQG 177
P P G
Sbjct: 206 PGPAGPGG 213
>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting,
simibi class GTPase, GTP-BIND membrane,
nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A
2xxa_B* 1fts_A
Length = 503
Score = 39.8 bits (93), Expect = 0.006
Identities = 32/191 (16%), Positives = 72/191 (37%), Gaps = 2/191 (1%)
Query: 1036 FDQKSTGSERHQFLQTILHQDDEEDEEENAVPDDETV--NQMLARSEEEFQTYQRIDAER 1093
F QK E+ +Q +E + + V E Q A +E E +T+ E
Sbjct: 15 FGQKEQTPEKETEVQNEQPVVEEIVQAQEPVKASEQAVEEQPQAHTEAEAETFAADVVEV 74
Query: 1094 RKEQGKKSRLIEVSELPDWLIKEDEEIEQWAFEAKEEEKALHMGRGSRQRKQVDYTDSLT 1153
++ + + +E+ EE + +EE + ++ T
Sbjct: 75 TEQVAESEKAQPEAEVVAQPEPVVEETPEPVAIEREELPLPEDVNAEAVSPEEWQAEAET 134
Query: 1154 EKEWLKAIDDGVEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDREK 1213
+ A ++ + + +EE E + ++ + +EE + +++++ +E
Sbjct: 135 VEIVEAAEEEAAKEEITDEELETALAAEAAEEAVMVVPPAEEEQPVEEIAQEQEKPTKEG 194
Query: 1214 DQAKLKKTLKK 1224
A+LK++L K
Sbjct: 195 FFARLKRSLLK 205
>1deq_A Fibrinogen (alpha chain); coiled-coil, blood clotting; 3.50A {Bos
taurus} SCOP: i.9.1.1
Length = 390
Score = 39.1 bits (90), Expect = 0.009
Identities = 10/50 (20%), Positives = 13/50 (26%), Gaps = 4/50 (8%)
Query: 6 TSPNPPPPQQQQP----PLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQ 51
P P P P + G G P G G+ + P
Sbjct: 323 GRPEPGSAGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNTGSSGSSSFRPD 372
Score = 37.1 bits (85), Expect = 0.038
Identities = 13/46 (28%), Positives = 17/46 (36%), Gaps = 5/46 (10%)
Query: 7 SPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGP-SPGQAPGQNPQ 51
P P P G+ G+ G+ PG P P S G P+
Sbjct: 311 RPEPGSAGTWNP----GRPEPGSAGTWNPGRPEPGSAGTWNPGRPE 352
Score = 35.6 bits (81), Expect = 0.099
Identities = 11/46 (23%), Positives = 15/46 (32%), Gaps = 4/46 (8%)
Query: 7 SPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQE 52
S P + +P G PG PGS G + G +
Sbjct: 329 SAGTWNPGRPEP----GSAGTWNPGRPEPGSAGTWNTGSSGSSSFR 370
Score = 35.6 bits (81), Expect = 0.11
Identities = 9/51 (17%), Positives = 11/51 (21%), Gaps = 1/51 (1%)
Query: 2 SNSSTSPNPPPPQQQQP-PLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQ 51
+ + P P P G GS S P P
Sbjct: 332 TWNPGRPEPGSAGTWNPGRPEPGSAGTWNTGSSGSSSFRPDSSGHGNIRPS 382
Score = 34.8 bits (79), Expect = 0.17
Identities = 16/52 (30%), Positives = 18/52 (34%), Gaps = 10/52 (19%)
Query: 7 SPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPG------PSPGQAPGQNPQE 52
S P + +P G PG PGS G P PG A NP
Sbjct: 303 SAGTWNPGRPEP----GSAGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNPGR 350
Score = 34.8 bits (79), Expect = 0.20
Identities = 16/54 (29%), Positives = 16/54 (29%), Gaps = 7/54 (12%)
Query: 4 SSTSPNPPPPQQQQP-PLNVGQLPMGAPGSGPPGSPG------PSPGQAPGQNP 50
S P P G PG PGS G P PG A NP
Sbjct: 269 SPRKPGTSSIGNVNPGSYGPGSSGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNP 322
Score = 34.5 bits (78), Expect = 0.23
Identities = 13/48 (27%), Positives = 19/48 (39%), Gaps = 2/48 (4%)
Query: 5 STSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGP-SPGQAPGQNPQ 51
+ +P P N G+ G+ G+ PG P P S G P+
Sbjct: 280 NVNPGSYGPGSSGTW-NPGRPEPGSAGTWNPGRPEPGSAGTWNPGRPE 326
Score = 34.5 bits (78), Expect = 0.27
Identities = 13/51 (25%), Positives = 17/51 (33%), Gaps = 1/51 (1%)
Query: 2 SNSSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPG-PSPGQAPGQNPQ 51
S + P + + PGS +PG P PG A NP
Sbjct: 260 SQGTGLAPGSPRKPGTSSIGNVNPGSYGPGSSGTWNPGRPEPGSAGTWNPG 310
Score = 34.1 bits (77), Expect = 0.36
Identities = 16/50 (32%), Positives = 18/50 (36%), Gaps = 10/50 (20%)
Query: 7 SPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPG------PSPGQAPGQNP 50
S P + +P G PG PGS G P PG A NP
Sbjct: 290 SSGTWNPGRPEP----GSAGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNP 335
Score = 33.3 bits (75), Expect = 0.51
Identities = 13/51 (25%), Positives = 19/51 (37%), Gaps = 5/51 (9%)
Query: 2 SNSSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGP-SPGQAPGQNPQ 51
+ + P P P G+ G+ G+ PG P P S G P+
Sbjct: 293 TWNPGRPEPGSAGTWNP----GRPEPGSAGTWNPGRPEPGSAGTWNPGRPE 339
Score = 33.3 bits (75), Expect = 0.57
Identities = 14/50 (28%), Positives = 18/50 (36%), Gaps = 2/50 (4%)
Query: 3 NSSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGP-SPGQAPGQNPQ 51
+ SP P N G G+ G+ PG P P S G P+
Sbjct: 265 LAPGSPRKPGTSSIGNV-NPGSYGPGSSGTWNPGRPEPGSAGTWNPGRPE 313
Score = 32.9 bits (74), Expect = 0.72
Identities = 6/46 (13%), Positives = 8/46 (17%), Gaps = 7/46 (15%)
Query: 5 STSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNP 50
P P S P S G + +
Sbjct: 348 PGRPEPGSAGTWNTG-------SSGSSSFRPDSSGHGNIRPSSPDW 386
Score = 32.9 bits (74), Expect = 0.77
Identities = 6/47 (12%), Positives = 9/47 (19%)
Query: 5 STSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQ 51
T + G P G +PG +
Sbjct: 246 ETFGGDGHARGDSVSQGTGLAPGSPRKPGTSSIGNVNPGSYGPGSSG 292
Score = 31.8 bits (71), Expect = 1.8
Identities = 7/46 (15%), Positives = 13/46 (28%)
Query: 2 SNSSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPG 47
+ + P + + + G+ PGS GP
Sbjct: 250 GDGHARGDSVSQGTGLAPGSPRKPGTSSIGNVNPGSYGPGSSGTWN 295
Score = 31.4 bits (70), Expect = 1.9
Identities = 18/177 (10%), Positives = 30/177 (16%), Gaps = 2/177 (1%)
Query: 4 SSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQENLTALQRAIDS 63
+ + P Q P L + + P Q+ L+
Sbjct: 192 IAINLLPSRDIQYLPILKMSTITGPVPREFKSQLQEAPLEWKALLEMQQTKMVLETFGGD 251
Query: 64 MKEQGLEEDPRYQKLIEMKANRTEIKHAFTSAQVQQLRFQIMAY-RLLARNQPLTPQLAM 122
+G + T
Sbjct: 252 GHARGDSVSQGTGLAPGSPRKPGTSSIGNVNPGSYGPGSSGTWNPGRPEPGSAGTWNPGR 311
Query: 123 GVQGKRMEGVPSGPQ-MPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQGH 178
G P P+ + + P P S N +P P
Sbjct: 312 PEPGSAGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNPGRPEPGSAGTWNTGSSGSSS 368
Score = 30.6 bits (68), Expect = 3.8
Identities = 9/50 (18%), Positives = 11/50 (22%)
Query: 1 MSNSSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNP 50
M + +V Q APGS PG
Sbjct: 238 MQQTKMVLETFGGDGHARGDSVSQGTGLAPGSPRKPGTSSIGNVNPGSYG 287
Score = 30.2 bits (67), Expect = 4.8
Identities = 7/48 (14%), Positives = 8/48 (16%)
Query: 3 NSSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNP 50
Q G G PG + NP
Sbjct: 249 GGDGHARGDSVSQGTGLAPGSPRKPGTSSIGNVNPGSYGPGSSGTWNP 296
>1dx0_A Prion protein; brain, repeat; NMR {Bos taurus} SCOP: d.6.1.1 PDB:
1dx1_A 1qlx_A 1qlz_A
Length = 219
Score = 37.9 bits (87), Expect = 0.011
Identities = 11/44 (25%), Positives = 11/44 (25%)
Query: 8 PNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQ 51
P Q GQ G G G G G GQ
Sbjct: 32 PQGGGGWGQPHGGGWGQPHGGGWGQPHGGGWGQPHGGGWGQPHG 75
Score = 36.0 bits (82), Expect = 0.053
Identities = 10/50 (20%), Positives = 11/50 (22%), Gaps = 2/50 (4%)
Query: 4 SSTSPNPPPPQ--QQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQ 51
S P P + P G G G P G G
Sbjct: 16 GSRYPGQGSPGGNRYPPQGGGGWGQPHGGGWGQPHGGGWGQPHGGGWGQP 65
Score = 34.0 bits (77), Expect = 0.24
Identities = 12/50 (24%), Positives = 12/50 (24%), Gaps = 5/50 (10%)
Query: 7 SPNPPPPQQQQPP---LNVGQLPMGAPGSGPPG--SPGPSPGQAPGQNPQ 51
S P P GQ G P G G G GQ
Sbjct: 2 SKKRPKPGGGWNTGGSRYPGQGSPGGNRYPPQGGGGWGQPHGGGWGQPHG 51
Score = 33.7 bits (76), Expect = 0.27
Identities = 9/45 (20%), Positives = 9/45 (20%)
Query: 7 SPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQ 51
P P G G G P G G Q
Sbjct: 37 GWGQPHGGGWGQPHGGGWGQPHGGGWGQPHGGGWGQPHGGGGWGQ 81
Score = 32.9 bits (74), Expect = 0.49
Identities = 7/46 (15%), Positives = 8/46 (17%)
Query: 7 SPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQE 52
P P G G G P G +
Sbjct: 45 GWGQPHGGGWGQPHGGGWGQPHGGGWGQPHGGGGWGQGGTHGQWNK 90
Score = 32.1 bits (72), Expect = 0.79
Identities = 9/45 (20%), Positives = 10/45 (22%)
Query: 7 SPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQ 51
+ P Q P N G P G P P
Sbjct: 14 TGGSRYPGQGSPGGNRYPPQGGGGWGQPHGGGWGQPHGGGWGQPH 58
Score = 31.0 bits (69), Expect = 2.4
Identities = 9/49 (18%), Positives = 9/49 (18%), Gaps = 3/49 (6%)
Query: 5 STSPNPPPPQQQQPPLNVGQLP---MGAPGSGPPGSPGPSPGQAPGQNP 50
Q GQ G P G G P P
Sbjct: 21 GQGSPGGNRYPPQGGGGWGQPHGGGWGQPHGGGWGQPHGGGWGQPHGGG 69
>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 = 38.0 bits (88), Expect = 0.023
Identities = 18/70 (25%), Positives = 21/70 (30%), Gaps = 7/70 (10%)
Query: 114 QPLTPQLAMGVQGKRMEGVPSGPQMPPMSLHGPMP------MPPSQPMPNQAQPMPLQQQ 167
P M M+ + P + P P P Q P Q P P
Sbjct: 363 APSADAAQMKEMMAMMQKMQQQQAAYPPQGYAPPPQGYPPQGYPPQGYPPQGYP-PQGYP 421
Query: 168 PPPQPHQQQG 177
PPPQ QG
Sbjct: 422 PPPQGAPPQG 431
Score = 37.6 bits (87), Expect = 0.025
Identities = 19/74 (25%), Positives = 23/74 (31%), Gaps = 2/74 (2%)
Query: 4 SSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAP-GQNPQENLTALQRAID 62
+ Q PP P G P G P P G P G P Q A
Sbjct: 375 MAMMQKMQQQQAAYPPQGYAPPPQGYPPQGYPPQGYPPQGYPPQGYPPPPQGAPPQGAPP 434
Query: 63 SMKEQGLEEDPRYQ 76
+ QG++ YQ
Sbjct: 435 AAPPQGVDNQA-YQ 447
Score = 32.6 bits (74), Expect = 1.1
Identities = 14/49 (28%), Positives = 17/49 (34%), Gaps = 3/49 (6%)
Query: 114 QPLTPQLAMGVQGKRMEGVPSGPQMPPMSLHGPMPMPPSQP---MPNQA 159
P QG +G P PP P PP+ P + NQA
Sbjct: 397 PQGYPPQGYPPQGYPPQGYPPQGYPPPPQGAPPQGAPPAAPPQGVDNQA 445
Score = 32.2 bits (73), Expect = 1.3
Identities = 13/50 (26%), Positives = 13/50 (26%)
Query: 2 SNSSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQ 51
P P Q PP G PP P G P PQ
Sbjct: 390 PQGYAPPPQGYPPQGYPPQGYPPQGYPPQGYPPPPQGAPPQGAPPAAPPQ 439
>1g9l_A Polyadenylate-binding protein 1; all-helical domain, RNA binding
protein; NMR {Homo sapiens} SCOP: a.144.1.1 PDB: 1jgn_A
1jh4_A
Length = 144
Score = 36.0 bits (82), Expect = 0.028
Identities = 13/63 (20%), Positives = 19/63 (30%), Gaps = 3/63 (4%)
Query: 123 GVQGKRMEGVPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQGHISSQ 182
G G P+ +P + P AQP QQP Q+ +S
Sbjct: 1 GPLGSAAAATPAVRTVPQYKYAAGVRNPQQHL---NAQPQVTMQQPAVHVQGQEPLTASM 57
Query: 183 IKQ 185
+
Sbjct: 58 LAS 60
Score = 35.2 bits (80), Expect = 0.048
Identities = 20/123 (16%), Positives = 40/123 (32%), Gaps = 8/123 (6%)
Query: 135 GPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQGHISSQIKQSKLTNIPKP 194
GP + + P + PQ QQ + Q ++ ++
Sbjct: 1 GPLGSAAAATPAVRTVPQYKYAAGVRNPQQHLNAQPQVTMQQPAVHVQGQEPLTASMLAS 60
Query: 195 EGLDPLIILQERENRVALNIERRIEELNGSLTSTLPEHLRVKAEIELRALKVLNFQRQLR 254
QE++ + + I+ ++ +L + L EL L +L LR
Sbjct: 61 A------PPQEQKQMLGERLFPLIQAMHPTLAGKITGMLLEIDNSEL--LHMLESPESLR 112
Query: 255 AEV 257
++V
Sbjct: 113 SKV 115
Score = 34.1 bits (77), Expect = 0.10
Identities = 9/63 (14%), Positives = 16/63 (25%)
Query: 114 QPLTPQLAMGVQGKRMEGVPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPH 173
V+ +G + P L+ + QP + PL
Sbjct: 3 LGSAAAATPAVRTVPQYKYAAGVRNPQQHLNAQPQVTMQQPAVHVQGQEPLTASMLASAP 62
Query: 174 QQQ 176
Q+
Sbjct: 63 PQE 65
Score = 33.3 bits (75), Expect = 0.20
Identities = 15/65 (23%), Positives = 16/65 (24%), Gaps = 5/65 (7%)
Query: 8 PNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQ-----NPQENLTALQRAID 62
P V Q A P P Q QE LTA A
Sbjct: 2 PLGSAAAATPAVRTVPQYKYAAGVRNPQQHLNAQPQVTMQQPAVHVQGQEPLTASMLASA 61
Query: 63 SMKEQ 67
+EQ
Sbjct: 62 PPQEQ 66
Score = 30.6 bits (68), Expect = 1.8
Identities = 9/66 (13%), Positives = 14/66 (21%), Gaps = 2/66 (3%)
Query: 8 PNPPPPQQQQPPLNVGQLPMGAPG--SGPPGSPGPSPGQAPGQNPQENLTALQRAIDSMK 65
P + P + P P + L A +
Sbjct: 7 AAATPAVRTVPQYKYAAGVRNPQQHLNAQPQVTMQQPAVHVQGQEPLTASMLASAPPQEQ 66
Query: 66 EQGLEE 71
+Q L E
Sbjct: 67 KQMLGE 72
>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 = 36.7 bits (84), Expect = 0.037
Identities = 16/75 (21%), Positives = 25/75 (33%)
Query: 8 PNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQENLTALQRAIDSMKEQ 67
N Q QQ V L +G P P P Q Q + + K+Q
Sbjct: 35 RNGLASQIQQLTTAVSALVIGQATRPQNPRPRPPPRQKKQAPKQPPKPKKPKPQEKKKKQ 94
Query: 68 GLEEDPRYQKLIEMK 82
+ P ++ + +K
Sbjct: 95 PAKTKPGKRQRMALK 109
Score = 34.0 bits (77), Expect = 0.25
Identities = 27/162 (16%), Positives = 53/162 (32%), Gaps = 13/162 (8%)
Query: 115 PLTPQLAMGVQGKRMEGVPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQ 174
P A +++ + + + P +P P Q + P Q P +P
Sbjct: 28 QAAPMPARNGLASQIQQLTTAVSALVIGQATRPQNPRPRPPPRQKKQAPKQPPKPKKPKP 87
Query: 175 QQGHISSQIKQSKLTNIPKPEGLDPLII-LQERENRVALNIERRIEELNGSLTSTLPEHL 233
Q+ K+ K KP + + L+ N + + ++ + + L
Sbjct: 88 QE-------KKKKQPAKTKPGKRQRMALKLEADRLFDVKNEDGDVIGHALAMEGKVMKPL 140
Query: 234 RVKAEIELRALKVLNFQRQLR-----AEVIACARRDTTLETA 270
VK I+ L L F + A++ R + T+
Sbjct: 141 HVKGTIDHPVLSKLKFTKSSAYDMEFAQLPVNMRSEAFTYTS 182
>1ei8_A Collagen-like peptide (Pro-HYP-Gly)4-PG-(Pro-HYP- Gly)5; triple
helix, contractIle protein; 2.00A {Synthetic} SCOP:
k.3.1.1
Length = 29
Score = 31.8 bits (72), Expect = 0.057
Identities = 14/23 (60%), Positives = 14/23 (60%), Gaps = 1/23 (4%)
Query: 26 PMGAPGSGPPGSPG-PSPGQAPG 47
P G PG GPPG PG P P PG
Sbjct: 7 PPGPPGPGPPGPPGPPGPPGPPG 29
>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 = 35.1 bits (80), Expect = 0.091
Identities = 12/69 (17%), Positives = 28/69 (40%)
Query: 127 KRMEGVPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQGHISSQIKQS 186
++ +P+ Q +++ P + P Q + +P+ + P + I++
Sbjct: 23 HQVIELPAPAQPISVTMVTPADLEPPQAVQPPPEPVVEPEPEPEPIPEPPKEAPVVIEKP 82
Query: 187 KLTNIPKPE 195
K PKP+
Sbjct: 83 KPKPKPKPK 91
Score = 30.1 bits (67), Expect = 4.3
Identities = 13/57 (22%), Positives = 20/57 (35%), Gaps = 3/57 (5%)
Query: 8 PNPPPPQQQQPPLN---VGQLPMGAPGSGPPGSPGPSPGQAPGQNPQENLTALQRAI 61
P P Q+QP + V P + P S A P ++ + RA+
Sbjct: 90 PKPVKKVQEQPKRDVKPVESRPASPFENTAPARLTSSTATAATSKPVTSVASGPRAL 146
Score = 28.9 bits (64), Expect = 9.7
Identities = 12/79 (15%), Positives = 22/79 (27%)
Query: 117 TPQLAMGVQGKRMEGVPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQ 176
+L Q + V PP ++ P + P P ++ P +
Sbjct: 25 VIELPAPAQPISVTMVTPADLEPPQAVQPPPEPVVEPEPEPEPIPEPPKEAPVVIEKPKP 84
Query: 177 GHISSQIKQSKLTNIPKPE 195
K+ PK +
Sbjct: 85 KPKPKPKPVKKVQEQPKRD 103
>1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea,
helicase; 2.7A {Archaeoglobus fulgidus} SCOP: c.37.1.16
c.37.1.16 e.10.1.1 PDB: 1gl9_B*
Length = 1054
Score = 35.8 bits (83), Expect = 0.10
Identities = 22/108 (20%), Positives = 40/108 (37%), Gaps = 14/108 (12%)
Query: 585 GLGKTIQTIALITYLMEK-KKVNGPFLIIVPLSTLSNWSLE-------FERWAPSVNVVA 636
G+GKT +A+ +L K K+ +I P S L + E +
Sbjct: 81 GVGKTSFGLAMSLFLALKGKRC----YVIFPTSLLVIQAAETIRKYAEKAGVGTENLIGY 136
Query: 637 YKGSPHLRKTLQAQMKASKFNVLLTTYEYVIKDKGPLAKLHWKYMIID 684
Y G R+ F +++TT +++ K L ++ +D
Sbjct: 137 YHGRIPKREKENFMQNLRNFKIVITTTQFLSKHYRELGHF--DFIFVD 182
>3sp7_A BCL-2-like protein 1; apoptosis regulator-inhibitor complex; HET:
03B; 1.40A {Homo sapiens} PDB: 2lp8_A* 2lpc_A 1ysg_A*
1ysi_A* 1ysn_A* 2o1y_A* 2yxj_A* 3pl7_A 3qkd_A* 1g5j_A
4ehr_A* 3spf_A* 2pon_B 3r85_A 2p1l_A 4a1u_A* 2yj1_A
3fdm_A 3inq_A* 3io8_A ...
Length = 172
Score = 34.4 bits (78), Expect = 0.11
Identities = 12/36 (33%), Positives = 20/36 (55%)
Query: 471 LAAHLKQWIQDHPGWEVVADSDEENEDEDSEKSKEK 506
L HL+ WIQ++ GW+ + N +S K +E+
Sbjct: 137 LNDHLEPWIQENGGWDTFVELYGNNAAAESRKGQER 172
>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 = 34.2 bits (77), Expect = 0.12
Identities = 8/30 (26%), Positives = 16/30 (53%), Gaps = 4/30 (13%)
Query: 215 ERR-IEELNGSLTSTLPEH---LRVKAEIE 240
E++ +++L SL + L +KA +E
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKATME 47
Score = 30.7 bits (68), Expect = 2.0
Identities = 8/34 (23%), Positives = 11/34 (32%), Gaps = 14/34 (41%)
Query: 933 KAEDRGDLLKKFNAPDSEYFIFVLSTRAGGLGLN 966
K + LK + A DS A L +
Sbjct: 24 KLQAS---LKLY-ADDS----------APALAIK 43
Score = 29.5 bits (65), Expect = 4.4
Identities = 12/42 (28%), Positives = 17/42 (40%), Gaps = 13/42 (30%)
Query: 1212 EKDQ-AKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKE 1252
EK KL+ +LK Y D D S P + + + E
Sbjct: 18 EKQALKKLQASLK-------LYAD-D----SAPALAIKATME 47
>1rh1_A Colicin B; FEPA, cytotoxic bacterial protein, TONB, antibiotic;
2.50A {Escherichia coli} SCOP: b.110.1.1 f.1.1.1
Length = 511
Score = 35.5 bits (80), Expect = 0.13
Identities = 41/263 (15%), Positives = 81/263 (30%), Gaps = 18/263 (6%)
Query: 115 PLTPQLAMGVQGKRMEGVPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQ 174
P+ + G K + P P +P + L P + P + + +
Sbjct: 199 PVPDRSRPGTNIKDVYSAPVSPNLPDLVLSVGQMNTPVRSNPEIQEDGVISETGNYVE-- 256
Query: 175 QQGHISSQIKQSKLTNIPKPEGLDPLIILQERENRVALNIERRIEELNGSLTSTLPEHLR 234
G+ S + P+ G+ PL I E + ++ +R E N + + +
Sbjct: 257 -AGYTMSSNNHDVIVRFPEGSGVSPLYI-SAVEILDSNSLSQRQEAENNAKDDFRVKKEQ 314
Query: 235 VKAEIELRALKVLNFQRQLRAEVIACARRDTTL---ETAVNVKAYKRTKRQGLKEARATE 291
E + K + +V E A N+ ++ + +A ++
Sbjct: 315 ENDEKTV-LTKTSEVIISVGDKVGEYLGDKYKALSREIAENINNFQGKTIRSYDDAMSS- 372
Query: 292 KLEKQQKVEAERKKRQKHQEYITTVLQHCKDFKEYHRNNQARIMRLNKA--VMNYHANAE 349
+ K K +E I + + ++ L K +Y A
Sbjct: 373 -INKLMAN-PSLKINATDKEAIVNAWKAF-NAEDMGNK----FAALGKTFKAADYAIKAN 425
Query: 350 KEQKKEQERIEKERMRRLMAEDE 372
++K E + LM E E
Sbjct: 426 NIREKSIEGYQTGNWGPLMLEVE 448
>3i2d_A E3 SUMO-protein ligase SIZ1; signal transduction, replication, ring
E3, PIAS, ubiquitin, UBC9, metal-binding, nucleus; 2.60A
{Saccharomyces cerevisiae}
Length = 371
Score = 34.9 bits (79), Expect = 0.19
Identities = 22/119 (18%), Positives = 35/119 (29%), Gaps = 17/119 (14%)
Query: 2 SNSSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQENLTALQRAI 61
+ + S PP QQQ P + Q P + S +P + + I
Sbjct: 7 AITVRSMEGPPTVQQQSPSVIRQSPTQRRKTSTTSSTSRAPPPTNPDASSSSSSFAVPTI 66
Query: 62 DSMKEQGLEEDPRYQ---------KLIEMKANRTEIKHAF--TSAQVQQLRFQIMAYRL 109
+E P Y+ +E+ R F + A L +RL
Sbjct: 67 H------FKESPFYKIQRLIPELVMNVEVTGGRGMCSAKFKLSKADYNLLSNPNSKHRL 119
Score = 34.5 bits (78), Expect = 0.20
Identities = 13/76 (17%), Positives = 21/76 (27%), Gaps = 4/76 (5%)
Query: 117 TPQLAMGVQGKRMEGVPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQ 176
+ + + MEG P+ Q P + P+Q + PP P
Sbjct: 1 SLTPLSAITVRSMEGPPTVQQQSPS----VIRQSPTQRRKTSTTSSTSRAPPPTNPDASS 56
Query: 177 GHISSQIKQSKLTNIP 192
S + P
Sbjct: 57 SSSSFAVPTIHFKESP 72
Score = 33.0 bits (74), Expect = 0.63
Identities = 9/73 (12%), Positives = 20/73 (27%), Gaps = 3/73 (4%)
Query: 136 PQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQGHISSQIKQSKLTNIPKPE 195
M PP+ Q P ++Q P + +S+ +
Sbjct: 2 LTPLSAITVRSMEGPPT---VQQQSPSVIRQSPTQRRKTSTTSSTSRAPPPTNPDASSSS 58
Query: 196 GLDPLIILQEREN 208
+ + +E+
Sbjct: 59 SSFAVPTIHFKES 71
Score = 31.8 bits (71), Expect = 1.4
Identities = 10/63 (15%), Positives = 16/63 (25%)
Query: 132 VPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQGHISSQIKQSKLTNI 191
V S P + P + S + + PP + SS +
Sbjct: 10 VRSMEGPPTVQQQSPSVIRQSPTQRRKTSTTSSTSRAPPPTNPDASSSSSSFAVPTIHFK 69
Query: 192 PKP 194
P
Sbjct: 70 ESP 72
>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H
RNA-binding helicase, innate immunity, IFIH1, S
genomics; 1.60A {Homo sapiens}
Length = 216
Score = 34.0 bits (78), Expect = 0.21
Identities = 28/152 (18%), Positives = 58/152 (38%), Gaps = 20/152 (13%)
Query: 556 KLKEYQIKGLEWMVSLFNNNLNGILADEMGLGKTIQTIALITYLMEKKKVNGPF---LII 612
+L+ YQ++ + +L N+ I+ G GKT + + ++KKK +++
Sbjct: 33 QLRPYQMEVAQ--PALEGKNI--IICLPTGSGKTRVAVYIAKDHLDKKKKASEPGKVIVL 88
Query: 613 VPLSTLSN--WSLEFERW-APSVNVVAYKGSPHLRKTLQAQMKASKFNVLLTTYEYVIKD 669
V L + EF+ + V+ G L+ + +K +++++T + +
Sbjct: 89 VNKVLLVEQLFRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVK--SCDIIISTAQILENS 146
Query: 670 KGPLAKLHWKY--------MIIDEGHRMKNHH 693
L +IIDE H
Sbjct: 147 LLNLENGEDAGVQLSDFSLIIIDECHHTNKEA 178
>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 = 34.7 bits (79), Expect = 0.21
Identities = 10/49 (20%), Positives = 13/49 (26%), Gaps = 5/49 (10%)
Query: 7 SPNPPPPQQQQPPLNVGQL-----PMGAPGSGPPGSPGPSPGQAPGQNP 50
+ P L P+ P PP P P+ G P
Sbjct: 18 GSHMVIPSASVTSAASDFLAALHPPVTVPDPAPPPPPAPAAGNPPDTVT 66
Score = 31.3 bits (70), Expect = 2.5
Identities = 7/54 (12%), Positives = 12/54 (22%), Gaps = 5/54 (9%)
Query: 2 SNSSTSPNPPPPQQQQPPLN-----VGQLPMGAPGSGPPGSPGPSPGQAPGQNP 50
S+ + + + V + P P P P P
Sbjct: 3 SSHHHHHHSSGLVPRGSHMVIPSASVTSAASDFLAALHPPVTVPDPAPPPPPAP 56
Score = 30.9 bits (69), Expect = 3.1
Identities = 7/41 (17%), Positives = 11/41 (26%), Gaps = 1/41 (2%)
Query: 133 PSGPQMPPMSLHGPMPMPPSQPMPNQAQP-MPLQQQPPPQP 172
PP+++ P P PP P +
Sbjct: 35 FLAALHPPVTVPDPAPPPPPAPAAGNPPDTVTGDSVLQRIL 75
Score = 29.7 bits (66), Expect = 6.4
Identities = 10/46 (21%), Positives = 14/46 (30%)
Query: 5 STSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNP 50
S P + + P + P +P P P A G P
Sbjct: 17 RGSHMVIPSASVTSAASDFLAALHPPVTVPDPAPPPPPAPAAGNPP 62
>1y8q_B Anthracycline-, ubiquitin-like 2 activating enzyme E1B; SUMO,
heterodimer, UBL, ligase; HET: ATP; 2.25A {Homo sapiens}
PDB: 1y8r_B* 3kyc_B* 3kyd_B* 2px9_A
Length = 640
Score = 34.7 bits (79), Expect = 0.22
Identities = 11/49 (22%), Positives = 27/49 (55%)
Query: 1162 DDGVEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKD 1210
D V D +EE+ + +R +K + D++E ++K+ + E++++
Sbjct: 584 QDDVLIVDSDEEDSSNNADVSEEERSRKRKLDEKENLSAKRSRIEQKEE 632
Score = 33.5 bits (76), Expect = 0.50
Identities = 13/49 (26%), Positives = 24/49 (48%)
Query: 1162 DDGVEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKD 1210
DD + D +EE+ + + RK+ D+ E S + R ++KE+
Sbjct: 585 DDVLIVDSDEEDSSNNADVSEEERSRKRKLDEKENLSAKRSRIEQKEEL 633
>4dmu_A Collagen III derived triple-helical peptide; dinucleotide binding
fold, collagen binding, platelet activa hemostasis,
plasma, structural protein-protein binding COMP; 2.80A
{Synthetic}
Length = 87
Score = 31.9 bits (73), Expect = 0.23
Identities = 19/43 (44%), Positives = 19/43 (44%), Gaps = 2/43 (4%)
Query: 8 PNPPPPQQQQPPLNVG-QLPMGAPGS-GPPGSPGPSPGQAPGQ 48
P PP P PP G P G PG G PG PGP PG
Sbjct: 22 PGPPGPPXXGPPGPPGPPGPRGQPGVMGFPGPPGPPXXGPPGP 64
Score = 31.1 bits (71), Expect = 0.38
Identities = 17/38 (44%), Positives = 17/38 (44%), Gaps = 4/38 (10%)
Query: 8 PNPPPPQQQQPPLNVGQLPMGAPGS-GPPGSPGPSPGQ 44
P PP P PP G P G G G G PGP PG
Sbjct: 51 PGPPGPPXXGPPGPPG--PPGPRGQPGVMGFPGP-PGP 85
>2y9y_A Imitation switch protein 1 (DEL_ATPase); transcription, nuclear
protein complex, chromatin remodeling nucleosome
remodeling; 3.25A {Saccharomyces cerevisiae} PDB: 2y9z_A
Length = 374
Score = 34.0 bits (77), Expect = 0.36
Identities = 17/82 (20%), Positives = 34/82 (41%), Gaps = 1/82 (1%)
Query: 1144 KQVDYTDSLTEKEWLKAID-DGVEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKK 1202
++ + EKE+ I D D ++E+E R + + + E ++ + SKK
Sbjct: 283 RRGNTLLQCLEKEFNAGIVLDDATKDRMKKEDENGKRIREEFADQTANEKENVDGVESKK 342
Query: 1203 RKKEKEKDREKDQAKLKKTLKK 1224
K E + +Q +K +
Sbjct: 343 AKIEDTSNVGTEQLVAEKIPEN 364
Score = 33.2 bits (75), Expect = 0.50
Identities = 19/116 (16%), Positives = 43/116 (37%), Gaps = 5/116 (4%)
Query: 1166 EYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDREKDQAKLKKT-LKK 1224
D + + + ++K K + +++ +K K + K +K
Sbjct: 74 MDDVKAAYGKISDQEEQKEKLELLKLSVNNSQPLTEEEEKMKADWESEGFTNWNKLEFRK 133
Query: 1225 IMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEV----IDRPMDIKKILGRIEDG 1276
+ V KY + + ++ + +E+ Y + I+R D +K L IE+
Sbjct: 134 FITVSGKYGRNSIQAIARELAPGKTLEEVRAYAKAFWSNIERIEDYEKYLKIIENE 189
>2y6w_A BCL-2-like protein 2; apoptosis; HET: PGE; 2.00A {Homo sapiens}
PDB: 1mk3_A 1zy3_A
Length = 177
Score = 32.8 bits (74), Expect = 0.37
Identities = 8/35 (22%), Positives = 13/35 (37%)
Query: 471 LAAHLKQWIQDHPGWEVVADSDEENEDEDSEKSKE 505
L L WI GW + E++ + +E
Sbjct: 143 LETRLADWIHSSGGWAEFTALYGDGALEEARRLRE 177
>2w00_A HSDR, R.ECOR124I; ATP-binding, DNA-binding, restriction system,
helicase, HYDR R.ECOR124I, nucleotide-binding; HET: ATP;
2.6A {Escherichia coli} PDB: 2y3t_A* 2w74_B*
Length = 1038
Score = 34.1 bits (78), Expect = 0.42
Identities = 21/182 (11%), Positives = 71/182 (39%), Gaps = 27/182 (14%)
Query: 272 NVKAYKRTKRQGLKEARATEKLEKQQKVEAERKKRQK-HQEYITTVLQHCKDFKEYHRNN 330
+++ ++R +++ K+ ++T + E + K Q+ + +YI E++R N
Sbjct: 852 DIRDWQRREKEAEKKEKSTTDWD-DVVFEVDLLKSQEINLDYIL------GLIFEHNRQN 904
Query: 331 QARIMRLNKAVMNYHANAEKEQKKE--QERIEKERMRRLMAEDE--EGYRKLIDQKKDKR 386
+ + + + ++ K+ + I++ + L + + + +++ +
Sbjct: 905 KGKGEMIEEVKRLIRSSLGNRAKEGLVVDFIQQTNLDDLPDKASIIDAFFTFAQREQQRE 964
Query: 387 LAFLLSQTDEYISNLTQMVKEHK---------------MEQKKKQDEESKKRKQSVKQKL 431
L+ + + + ++ + + + + K +KQ+V QK+
Sbjct: 965 AEALIKEENLNEDAAKRYIRTSLKREYATENGTELNETLPKLSPLNPQYKTKKQAVFQKI 1024
Query: 432 MD 433
+
Sbjct: 1025 VS 1026
Score = 33.7 bits (77), Expect = 0.45
Identities = 32/248 (12%), Positives = 86/248 (34%), Gaps = 14/248 (5%)
Query: 981 NPHQDLQAQDRAHRIGQKNEVRVLRLMTVNSVEERILAAARYKLNMDEKVIQAGMFDQKS 1040
+ + +I + V V + + V++ A + ++ IQ D +S
Sbjct: 793 QNYDEFATLKALQQIDLSDPVAVEKFKAEHYVDDEKFAELQTIRLPADRKIQ----DYRS 848
Query: 1041 TGSERHQFLQTILHQDDEEDEEENAVPDDETVNQMLARSEEEFQTY--QRIDAERRKEQG 1098
++ + ++ E+ E+ DD L +S+E Y I R+ +G
Sbjct: 849 AYNDIRDWQ--RREKEAEKKEKSTTDWDDVVFEVDLLKSQEINLDYILGLIFEHNRQNKG 906
Query: 1099 KKSRLIEVSELPDWLIKEDEEIEQWAFEAKEEEKALHMGRGSRQRKQVDYTDSLTEKEWL 1158
K + EV L I+ + + ++ + +D + ++E
Sbjct: 907 KGEMIEEVKRL----IRSSLGNRAKEGLVVDFIQQTNLDDLPDKASIIDAFFTFAQREQQ 962
Query: 1159 KAIDDGVEYDDEEEEEEEEV--RSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDREKDQA 1216
+ + ++ ++ E+ + S ++ + + +E + + ++
Sbjct: 963 REAEALIKEENLNEDAAKRYIRTSLKREYATENGTELNETLPKLSPLNPQYKTKKQAVFQ 1022
Query: 1217 KLKKTLKK 1224
K+ ++K
Sbjct: 1023 KIVSFIEK 1030
>1qy5_A Endoplasmin; GRP94, NECA, HSP90, chaperone; HET: NEC; 1.75A {Canis
lupus familiaris} SCOP: d.122.1.1 PDB: 1qy8_A* 1qye_A*
1u0y_A* 1yt2_A*
Length = 269
Score = 33.3 bits (77), Expect = 0.43
Identities = 8/44 (18%), Positives = 18/44 (40%)
Query: 1159 KAIDDGVEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKK 1202
K ++EE +EE+ S + ++ E+ + +K
Sbjct: 217 KTETVEEPMEEEEAAKEEKEDSDDEAAVEEEEEEKKPKTKKVEK 260
>2y94_A 5'-AMP-activated protein kinase catalytic subunit; transferase,
nucleotide-binding, staurosporine-binding,
serine/threonine-protein kinase; HET: TPO STU AMP; 3.24A
{Rattus norvegicus}
Length = 476
Score = 33.6 bits (77), Expect = 0.47
Identities = 26/149 (17%), Positives = 44/149 (29%), Gaps = 19/149 (12%)
Query: 105 MAYRLLARNQPLTPQLAMGVQGKRMEGVPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPL 164
+AY L+ N+ + + K S P H P P P P
Sbjct: 324 VAYHLIIDNRRIMN------EAKDFYLATSPPDSFLDDHHLTRPHPERVPFLVAETPRAR 377
Query: 165 QQQPPPQPHQQQGHISSQIKQSKLTNIPKPEGLDPLIILQERENRVALNIERRIEELNGS 224
P + + + I Q R N + + R I++L+
Sbjct: 378 HTLDELNPQKSKHQ------------GVRKAKWHLGIRSQSRPNDIMAEVCRAIKQLDYE 425
Query: 225 LTSTLPEHLRVKAEIELRALKVLNFQRQL 253
P +LRV+ + + + QL
Sbjct: 426 WKVVNPYYLRVRRKNPVTS-TFSKMSLQL 453
>2zjr_S 50S ribosomal protein L25; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: b.53.1.1 PDB: 1njm_T* 1nwx_T* 1njp_T*
1xbp_T* 2zjp_S* 2zjq_S 1nwy_T 3cf5_S* 3dll_S* 3pio_S*
3pip_S* 1nkw_T 1sm1_T* 1yl3_V 2b66_Z 2b9n_Z 2b9p_Z 1pnu_T
1pny_T 1vor_W ...
Length = 237
Score = 33.2 bits (76), Expect = 0.48
Identities = 3/61 (4%), Positives = 13/61 (21%)
Query: 1160 AIDDGVEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDREKDQAKLK 1219
++ + + + + + D K E + +
Sbjct: 177 TAEELEAEVQAAQVAGLVAAGELSEEAAEAVLEGDASLEEVKAEASEDNAGTDSEDNSDA 236
Query: 1220 K 1220
+
Sbjct: 237 Q 237
Score = 32.8 bits (75), Expect = 0.55
Identities = 6/60 (10%), Positives = 18/60 (30%)
Query: 1165 VEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDREKDQAKLKKTLKK 1224
E + E + + G+ ++ + E S + K + + + +
Sbjct: 178 AEELEAEVQAAQVAGLVAAGELSEEAAEAVLEGDASLEEVKAEASEDNAGTDSEDNSDAQ 237
Score = 31.6 bits (72), Expect = 1.3
Identities = 7/65 (10%), Positives = 24/65 (36%), Gaps = 2/65 (3%)
Query: 1159 KAIDDGVEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDREKDQAKL 1218
+ + +E + + + V + + + E E ++ ++ K E +D ++
Sbjct: 175 RLTAEELEAEVQAAQVAGLVAAGELSE--EAAEAVLEGDASLEEVKAEASEDNAGTDSED 232
Query: 1219 KKTLK 1223
+
Sbjct: 233 NSDAQ 237
Score = 31.6 bits (72), Expect = 1.3
Identities = 5/60 (8%), Positives = 16/60 (26%)
Query: 1165 VEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDREKDQAKLKKTLKK 1224
+ ++ E E + + E + ++ K + E + +
Sbjct: 176 LTAEELEAEVQAAQVAGLVAAGELSEEAAEAVLEGDASLEEVKAEASEDNAGTDSEDNSD 235
Score = 30.1 bits (68), Expect = 3.6
Identities = 8/61 (13%), Positives = 18/61 (29%), Gaps = 2/61 (3%)
Query: 1164 GVEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDREKDQAKLKKTLK 1223
+ E E + +V + +E+ E +E + + +D A
Sbjct: 176 LTAEELEAEVQAAQVAGLVAAG--ELSEEAAEAVLEGDASLEEVKAEASEDNAGTDSEDN 233
Query: 1224 K 1224
Sbjct: 234 S 234
>3h1t_A Type I site-specific restriction-modification system, R
(restriction) subunit; hydrolase, restriction enzyme
HSDR, ATP-binding; 2.30A {Vibrio vulnificus}
Length = 590
Score = 33.6 bits (77), Expect = 0.49
Identities = 29/199 (14%), Positives = 48/199 (24%), Gaps = 29/199 (14%)
Query: 534 YYSIAHTVHEIVTEQASILVNGKLKEYQIKGLEWMVSLFNNNLNGILADEM--GLGKTIQ 591
I + + + + YQ + V L M G GKT+
Sbjct: 156 DEGIKDEDLDTLLSPYHHVSGYSPRYYQQIAINRAVQSVLQGKKRSLI-TMATGTGKTVV 214
Query: 592 TIALITYLMEKKKVNGP------FLIIVPLSTLSNWSL-EFERWAPSVNVVAYKGSPHLR 644
+ L + L + + L + + G
Sbjct: 215 AFQISWKLWSARWNRTGDYRKPRILFLADRNVLVDDPKDKTFTPFGDARHKIEGGK---- 270
Query: 645 KTLQAQMKASKFNVLLTTY------EYVIKDKGPLAKLHWKYMIIDEGHR-MKNHHCKLT 697
+ Y E + + +IIDE HR +
Sbjct: 271 -------VVKSREIYFAIYQSIASDERRPGLYKEFPQDFFDLIIIDECHRGSARDNSNWR 323
Query: 698 HILNTFYVAPHRLLLTGTP 716
IL F A + +T TP
Sbjct: 324 EILEYFEPAFQ-IGMTATP 341
>2kpy_A Major pollen allergen ART V 1; defensin-like, poly-proline; NMR
{Artemisia vulgaris}
Length = 108
Score = 31.3 bits (70), Expect = 0.57
Identities = 14/46 (30%), Positives = 15/46 (32%), Gaps = 4/46 (8%)
Query: 10 PPPPQQQQPPLNVGQLPMGAPGSGPP----GSPGPSPGQAPGQNPQ 51
P PP PP G A G PP G P G +P
Sbjct: 62 PAPPGAAPPPAAGGSPSPPADGGSPPPPADGGSPPVDGGSPPPPST 107
>3dzy_A Retinoic acid receptor RXR-alpha; DNA-binding, HOST-virus
interaction, metal-binding, nucleus, receptor,
transcription, transcription regulation, zinc-FIN
activator; HET: DNA REA BRL; 3.10A {Homo sapiens} PDB:
3dzu_A* 3e00_A*
Length = 467
Score = 33.2 bits (75), Expect = 0.58
Identities = 17/75 (22%), Positives = 28/75 (37%), Gaps = 2/75 (2%)
Query: 1 MSNSSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSP--GPSPGQAPGQNPQENLTALQ 58
+S S P PP +V PMG P +P G S G +P +++ +
Sbjct: 51 QLHSPISTLSSPINGMGPPFSVISSPMGPHSMSVPTTPTLGFSTGSPQLSSPMNPVSSSE 110
Query: 59 RAIDSMKEQGLEEDP 73
+ G+ + P
Sbjct: 111 DIKPPLGLNGVLKVP 125
Score = 30.8 bits (69), Expect = 3.1
Identities = 13/49 (26%), Positives = 18/49 (36%), Gaps = 2/49 (4%)
Query: 2 SNSSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNP 50
+ S P P Q P++ P+ G GPP S SP +
Sbjct: 38 LHPSLGPGIGSPGQLHSPISTLSSPI--NGMGPPFSVISSPMGPHSMSV 84
>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC
repeat; 2.70A {Saccharomyces cerevisiae}
Length = 963
Score = 33.6 bits (76), Expect = 0.61
Identities = 13/63 (20%), Positives = 24/63 (38%)
Query: 1151 SLTEKEWLKAIDDGVEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKD 1210
S T + +A E EEE+++E K K + K + + + + K +
Sbjct: 816 STTARAKARAKKTKKEKGPNEEEKKKEHEEKEKERETNKKGIKETKENDEEFYKNKYSSK 875
Query: 1211 REK 1213
K
Sbjct: 876 PYK 878
>2yew_A Capsid protein, coat protein; alphavirus, molecular dynamics; 5.00A
{Barmah forest virus}
Length = 253
Score = 32.7 bits (74), Expect = 0.69
Identities = 8/39 (20%), Positives = 13/39 (33%)
Query: 138 MPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQ 176
P P + +P P P +++ P QQ
Sbjct: 6 TQTFYGRRWRPAPVQRYIPQPQPPAPPRRRRGPSQLQQL 44
Score = 31.9 bits (72), Expect = 1.2
Identities = 13/67 (19%), Positives = 22/67 (32%), Gaps = 7/67 (10%)
Query: 136 PQMPPMSLHGPMPMPPSQPMPNQAQPM-------PLQQQPPPQPHQQQGHISSQIKQSKL 188
P + P P + P+Q Q + LQ + + Q++ + K K
Sbjct: 18 PVQRYIPQPQPPAPPRRRRGPSQLQQLVAALGALALQPKQKQKRAQKKPKKTPPPKPKKT 77
Query: 189 TNIPKPE 195
KP
Sbjct: 78 QKPKKPT 84
Score = 30.0 bits (67), Expect = 4.7
Identities = 6/49 (12%), Positives = 14/49 (28%)
Query: 146 PMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQGHISSQIKQSKLTNIPKP 194
P P+ P P P ++ P + ++ + +
Sbjct: 16 PAPVQRYIPQPQPPAPPRRRRGPSQLQQLVAALGALALQPKQKQKRAQK 64
>2sas_A Sarcoplasmic calcium-binding protein; 2.40A {Branchiostoma
lanceolatum} SCOP: a.39.1.5
Length = 185
Score = 32.2 bits (73), Expect = 0.72
Identities = 13/100 (13%), Positives = 37/100 (37%), Gaps = 9/100 (9%)
Query: 360 EKERMRRLMAEDEEGYRKLIDQKKDKRLAFLLSQTDEYISNLTQMVKEHKMEQKKKQDEE 419
+ + M+ + ++ + D KD +++ +EY++ + + K +
Sbjct: 50 DYKSMQASLEDEWRDLKGRADINKDDVVSW-----EEYLAMWEKTIATCKSVADLPAWCQ 104
Query: 420 SKKRKQSVKQKLMDTDGKVTLDQDETSQ-LTDMHISVREI 458
++ K MD G +D +E + + ++
Sbjct: 105 NRIPFL---FKGMDVSGDGIVDLEEFQNYCKNFQLQCADV 141
>1pk8_A RAT synapsin I; ATP binding, ATP grAsp, calcium (II) ION,
membrane protein; HET: ATP; 2.10A {Rattus norvegicus}
SCOP: c.30.1.5 d.142.1.3 PDB: 1px2_A*
Length = 422
Score = 32.9 bits (74), Expect = 0.81
Identities = 5/51 (9%), Positives = 9/51 (17%)
Query: 1 MSNSSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQ 51
+ P PP + P + +P
Sbjct: 26 LQRPQPPPPPPSAASPGATPGSAAASAERASTAAPVASPAAPSPGSSGGGG 76
Score = 32.5 bits (73), Expect = 0.91
Identities = 8/54 (14%), Positives = 13/54 (24%)
Query: 2 SNSSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQENLT 55
P P + + PSPG + G +L+
Sbjct: 29 PQPPPPPPSAASPGATPGSAAASAERASTAAPVASPAAPSPGSSGGGGFFSSLS 82
Score = 32.1 bits (72), Expect = 1.4
Identities = 12/51 (23%), Positives = 15/51 (29%), Gaps = 3/51 (5%)
Query: 1 MSNSSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQ 51
M++ PPPP P G P A S S +P
Sbjct: 23 MTDLQRPQPPPPPPSAASP---GATPGSAAASAERASTAAPVASPAAPSPG 70
Score = 31.4 bits (70), Expect = 2.1
Identities = 13/62 (20%), Positives = 15/62 (24%), Gaps = 2/62 (3%)
Query: 133 PSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQGHISSQIKQSKLTNIP 192
P PP S P P S + P P S L+N
Sbjct: 28 RPQPPPPPPSAASPGATPGSAAASAERASTAAPVASPAAPSPGSSGGGGFF--SSLSNAV 85
Query: 193 KP 194
K
Sbjct: 86 KQ 87
Score = 29.8 bits (66), Expect = 7.2
Identities = 10/55 (18%), Positives = 15/55 (27%), Gaps = 1/55 (1%)
Query: 132 VPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQGHISSQIKQS 186
+P+G M + P P PPS P ++ S
Sbjct: 18 LPNGY-MTDLQRPQPPPPPPSAASPGATPGSAAASAERASTAAPVASPAAPSPGS 71
>1r2d_A Apoptosis regulator BCL-X; monomeric, alpha-helical; 1.95A {Homo
sapiens} SCOP: f.1.4.1 PDB: 2b48_A 1r2i_A 1r2h_A 1r2g_A
1r2e_A 1bxl_A 1lxl_A 1maz_A 3cva_X 1ysg_A* 1ysi_A*
1ysn_A* 2o1y_A* 2yxj_A* 3pl7_A 3qkd_A* 1g5j_A 2lp8_A*
2lpc_A
Length = 218
Score = 32.2 bits (72), Expect = 0.84
Identities = 12/43 (27%), Positives = 23/43 (53%)
Query: 471 LAAHLKQWIQDHPGWEVVADSDEENEDEDSEKSKEKTSGENEN 513
L HL+ WIQ++ GW+ + N +S K +E+ + + +
Sbjct: 174 LNDHLEPWIQENGGWDTFVELYGNNAAAESRKGQERFNEHHHH 216
>2qag_C Septin-7; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 418
Score = 32.5 bits (73), Expect = 0.88
Identities = 18/103 (17%), Positives = 44/103 (42%), Gaps = 5/103 (4%)
Query: 285 KEARATEKLEKQQKVEAERKKRQKHQEYITTVLQHCKDFKEYHRNNQARIMRLNKAVMNY 344
E E + K +K+E E ++ + + V + + K+ Q R ++ K +
Sbjct: 320 MEEERREHVAKMKKMEMEMEQVFEMK-----VKEKVQKLKDSEAELQRRHEQMKKNLEAQ 374
Query: 345 HANAEKEQKKEQERIEKERMRRLMAEDEEGYRKLIDQKKDKRL 387
H E+++++ ++ ++ + E + R L KK ++
Sbjct: 375 HKELEEKRRQFEDEKANWEAQQRILEQQNSSRTLEKNKKKGKI 417
>3d2f_A Heat shock protein homolog SSE1; nucleotide exchange factor, protein
folding, ATP-binding, Ca binding, chaperone,
nucleotide-binding, phosphoprotein; HET: ATP; 2.30A
{Saccharomyces cerevisiae} PDB: 3d2e_A* 3c7n_A* 2qxl_A*
Length = 675
Score = 32.7 bits (75), Expect = 0.90
Identities = 26/162 (16%), Positives = 54/162 (33%), Gaps = 26/162 (16%)
Query: 1059 EDEEENAVPDDETVNQMLARSEEE---FQTYQRID---AERRKEQGKKSRLIEVSELPDW 1112
E E E D ++ E + +++ A + K +++ +W
Sbjct: 534 EKENEMLAQDKLVAETEDRKNTLEEYIYTLRGKLEEEYAPFASDAEKTKLQGMLNKAEEW 593
Query: 1113 LIKEDEEIEQWAFEAKEEEKALHMGRGSRQRKQVDYTDSLTEKEWLKAIDDGVEYDDEEE 1172
L E + + + AK EE A + + + K + ++E
Sbjct: 594 LYDEGFDSIKAKYIAKYEELA-------------SLGNIIRGRYLAKEEEKKQAIRSKQE 640
Query: 1173 EEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDREKD 1214
+ +++ +RK + EE KK+ E D + D
Sbjct: 641 ASQMAAMAEKLAAQRKAEAEKKEE-------KKDTEGDVDMD 675
>1o0l_A Apoptosis regulator BCL-W; helical bundle, binding groove, BH3; NMR
{Homo sapiens} SCOP: f.1.4.1
Length = 188
Score = 31.7 bits (71), Expect = 0.98
Identities = 8/37 (21%), Positives = 13/37 (35%)
Query: 471 LAAHLKQWIQDHPGWEVVADSDEENEDEDSEKSKEKT 507
L L WI GW + E++ + +E
Sbjct: 135 LETRLADWIHSSGGWAEFTALYGDGALEEARRLREGN 171
>1y0f_A Collagen I alpha 1; native, in SITU, triple-helix, supermolecular,
packing structure; 5.16A {Rattus norvegicus} SCOP:
i.25.1.1 PDB: 1ygv_A 3hqv_A 3hr2_A
Length = 1054
Score = 32.4 bits (74), Expect = 1.1
Identities = 15/42 (35%), Positives = 18/42 (42%), Gaps = 3/42 (7%)
Query: 8 PNPPPPQQQQPPLNVGQLPMGAPGS-GPPGSPGPSPGQAPGQ 48
PP Q P G+PG G PG GP PG+ G+
Sbjct: 456 AQGPPGPAGPAGERGEQGPAGSPGFQGLPGPAGP-PGE-AGK 495
>1mv3_A MYC box dependent interacting protein 1; tumor suppressor,
endocytosis/exocytosis complex; NMR {Homo sapiens} SCOP:
b.34.2.1
Length = 213
Score = 31.6 bits (70), Expect = 1.3
Identities = 12/65 (18%), Positives = 28/65 (43%), Gaps = 1/65 (1%)
Query: 130 EGVPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQGHISSQIKQSKLT 189
+G P+ ++ H P P + P + ++ PP P + S ++KQ ++
Sbjct: 1 DGSPAATPEIRVN-HEPEPAGGATPGATLPKSPSQLRKGPPVPPPPKHTPSKEVKQEQIL 59
Query: 190 NIPKP 194
++ +
Sbjct: 60 SLFED 64
>3ead_A Na/Ca exchange protein; CBD1, calcium regulation, membrane,
transmembrane, membrane; 2.25A {Drosophila melanogaster}
Length = 137
Score = 30.8 bits (70), Expect = 1.3
Identities = 10/35 (28%), Positives = 15/35 (42%)
Query: 948 DSEYFIFVLSTRAGGLGLNLQTADTVIIFDSDWNP 982
+ E F L + G+ L + TV+I D D
Sbjct: 84 EDECFYIRLFNPSEGVKLAVPMIATVMILDDDHAG 118
>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus} PDB: 3lvh_A
Length = 624
Score = 32.3 bits (73), Expect = 1.4
Identities = 12/46 (26%), Positives = 13/46 (28%), Gaps = 1/46 (2%)
Query: 127 KRMEGVPSGPQMPP-MSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQ 171
+ E P P M GP P Q P QP P
Sbjct: 574 QATETQPIVYGQPQLMLTAGPSVAVPPQAPFGYGYTAPAYGQPQPG 619
Score = 30.0 bits (67), Expect = 7.2
Identities = 9/42 (21%), Positives = 11/42 (26%)
Query: 10 PPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQ 51
P QP L + P A P G + P
Sbjct: 578 TQPIVYGQPQLMLTAGPSVAVPPQAPFGYGYTAPAYGQPQPG 619
>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 = 32.3 bits (72), Expect = 1.5
Identities = 13/78 (16%), Positives = 29/78 (37%), Gaps = 6/78 (7%)
Query: 133 PSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQGHISSQIKQSKLTNIP 192
P P + + GP P++P+ + + Q Q P +++ + + LT +
Sbjct: 61 PFAPDVTAAAGAGPRVRQPARPLGSAWRD---QAQRPAVASRRR---PTTAGAAPLTAVA 114
Query: 193 KPEGLDPLIILQERENRV 210
P+ + R +
Sbjct: 115 PAHDTPPVPDVDSRGAIL 132
>2y3a_B Phosphatidylinositol 3-kinase regulatory subunit; transferase,
phosphoinositide 3-kinase, RTK; HET: GD9; 3.30A {Mus
musculus}
Length = 302
Score = 31.6 bits (71), Expect = 1.6
Identities = 31/145 (21%), Positives = 62/145 (42%), Gaps = 8/145 (5%)
Query: 291 EKLEKQQKVEAERKK-RQKHQEYITTVLQHCKDFKEYHRNNQ-ARIMRLNKAVMNYHANA 348
+++ K+ VEA + + HQ+Y ++ + ++EY R +Q ++ R N
Sbjct: 5 DQVVKEDSVEAVGAQLKVYHQQYQDKSREYDQLYEEYTRTSQELQMKRTAIEAFNETIKI 64
Query: 349 EKEQKKEQERIEKERMRRLMAEDEEGYRKLIDQKKDKRLAFLLSQTDEYISNLTQMVKEH 408
+EQ + QE+ KE + R E E + I ++ + + + ++ E
Sbjct: 65 FEEQGQTQEKCSKEYLERFRREGNEKEMQRILLNSERLKSRIAEIHE------SRTKLEQ 118
Query: 409 KMEQKKKQDEESKKRKQSVKQKLMD 433
+ + + E KR S+K LM
Sbjct: 119 DLRAQASDNREIDKRMNSLKPDLMQ 143
>2b9s_A Topoisomerase I-like protein; vanadate complex, isomerase/DNA
complex; HET: DNA; 2.27A {Leishmania donovani}
Length = 432
Score = 31.9 bits (72), Expect = 1.6
Identities = 12/62 (19%), Positives = 26/62 (41%), Gaps = 3/62 (4%)
Query: 321 KDFKEYHRNNQARIMRLNK---AVMNYHANAEKEQKKEQERIEKERMRRLMAEDEEGYRK 377
+ ++E Q I RL + ++E+K + + EK+ ++ + E YR
Sbjct: 83 ESWREILDKRQHPIRRLELCDFEPIYQWHLVQREKKLSRTKEEKKAIKEKQDAEAEPYRY 142
Query: 378 LI 379
+
Sbjct: 143 CV 144
>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon,
coiled post-transcriptional, gene regulation, chaperone;
HET: EPE; 2.20A {Helicobacter pylori}
Length = 256
Score = 31.2 bits (70), Expect = 1.7
Identities = 18/136 (13%), Positives = 48/136 (35%), Gaps = 2/136 (1%)
Query: 291 EKLEKQQKVEAERKKRQKHQEYITTVLQHCKDFKEYHRNNQARIMRLNKAVMNYHANAEK 350
+ + EA+ K +E + ++ ++ A+I + K + +E+
Sbjct: 33 DLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNAKIASIQKKMSE--IKSER 90
Query: 351 EQKKEQERIEKERMRRLMAEDEEGYRKLIDQKKDKRLAFLLSQTDEYISNLTQMVKEHKM 410
E + + + R A E + ++K ++ L + E ++ +
Sbjct: 91 ELRSLNIEEDIAKERSNQANREIENLQNEIKRKSEKQEDLKKEMLELEKLALELESLVEN 150
Query: 411 EQKKKQDEESKKRKQS 426
E K ++ + K+
Sbjct: 151 EVKNIKETQQIIFKKK 166
>4eoz_B Cullin-3, CUL-3; E3 ubiquitin ligase, nucleus, protein binding;
2.40A {Homo sapiens} PDB: 4apf_B
Length = 364
Score = 31.8 bits (71), Expect = 1.8
Identities = 19/112 (16%), Positives = 41/112 (36%), Gaps = 5/112 (4%)
Query: 322 DFKEYHRNNQARIMRLNKAVMNY--HANAEKEQKKEQERIEKERMRRLMAEDEEGYRKLI 379
Y + +ARI + VM+ + E K + + + M+ ++ + G ++
Sbjct: 212 SASVYIKKVEARINEEIERVMHCLDKSTEEPIVKVVERELISKHMKTIVEMENSGLVHML 271
Query: 380 DQKKD---KRLAFLLSQTDEYISNLTQMVKEHKMEQKKKQDEESKKRKQSVK 428
K + L S+ + + + + + EQ K E + K V
Sbjct: 272 KNGKTEDLGCMYKLFSRVPNGLKTMCECMSSYLREQGKALVSEEGEGKNPVD 323
>1ri9_A FYN-binding protein; SH3-like, helically extended, signaling protein;
NMR {Homo sapiens} SCOP: b.34.2.1
Length = 102
Score = 29.6 bits (66), Expect = 1.8
Identities = 22/89 (24%), Positives = 37/89 (41%), Gaps = 8/89 (8%)
Query: 1197 PSTSKKRKKEKEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELP-- 1254
+K K +EK++ +K K + + Y+ +V + K ++L
Sbjct: 5 HHHHHHSSGKKLKKQEKEEKDFRKKFKYDGEIRVLYS---TKVTTSITSKKWGTRDLQVK 61
Query: 1255 --DYYEVIDRPMDIKKILGRIEDGKYSSV 1281
+ EVI D K+L R E+GKY V
Sbjct: 62 PGESLEVIQT-TDDTKVLCRNEEGKYGYV 89
>3oun_A Putative uncharacterized protein TB39.8; peptidoglycan, Ser/Thr
kinase, pseudokinase, FHA domain, REG phosphorylation;
HET: TPO; 2.71A {Mycobacterium tuberculosis}
Length = 157
Score = 30.6 bits (69), Expect = 1.9
Identities = 8/44 (18%), Positives = 10/44 (22%)
Query: 7 SPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNP 50
+ P G G+ G P P GQ
Sbjct: 17 RGSHMPQGGGYAEPAGRDYDYGQSGAPDYGQPAPGGYSGYGQGG 60
Score = 29.5 bits (66), Expect = 4.7
Identities = 10/51 (19%), Positives = 12/51 (23%)
Query: 2 SNSSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQE 52
+S P Q SG P P+PG G
Sbjct: 10 HSSGLVPRGSHMPQGGGYAEPAGRDYDYGQSGAPDYGQPAPGGYSGYGQGG 60
>1jad_A PLC-beta, phospholipase C beta; alpha helical coiled coil,
hydrolase; 2.40A {Meleagris gallopavo} SCOP: h.4.10.1
Length = 251
Score = 31.3 bits (70), Expect = 2.0
Identities = 18/155 (11%), Positives = 55/155 (35%), Gaps = 3/155 (1%)
Query: 277 KRTKRQGLKEARATEKLEKQQKVEAERKKRQKHQEYITTVLQHCKDFKEYHRNNQARIMR 336
+ ++ + +V E K+R + + H + ++ + +
Sbjct: 54 ELLQKYSVLFLEPVYPRGLDSQVV-ELKERLEMELIHLGEEYHDGIRRRKEQHATEQTAK 112
Query: 337 LNKAVMNYHANAEKEQKKEQERIEKERMRRLMAEDEEGYRKLIDQKKDKRLA--FLLSQT 394
+ + K K+ E K+ ++L A+ + + ++ DK
Sbjct: 113 ITELAREKQIAELKALKESSESNIKDIKKKLEAKRLDRIQVMMRSTSDKAAQERLKKEIN 172
Query: 395 DEYISNLTQMVKEHKMEQKKKQDEESKKRKQSVKQ 429
+ +I + Q +K + + Q + +K+ ++++
Sbjct: 173 NSHIQEVVQTIKLLTEKTARYQQKLEEKQAENLRA 207
>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 = 31.0 bits (69), Expect = 2.7
Identities = 10/47 (21%), Positives = 15/47 (31%)
Query: 5 STSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPGQAPGQNPQ 51
+T P P Q+ P + GS P+P + P
Sbjct: 332 ATEAAPEAPAQEVPAAEAVPAAAEPGAAEAAGSVEPAPVEEVAPAPA 378
>1ois_A DNA topoisomerase I; DNA-binding protein; HET: DNA; 1.90A
{Saccharomyces cerevisiae} SCOP: e.15.1.1
Length = 223
Score = 30.6 bits (69), Expect = 2.8
Identities = 17/71 (23%), Positives = 33/71 (46%), Gaps = 5/71 (7%)
Query: 320 CKDFKEYHRN-NQARIMRLNKA---VMNYHANAEKEQKKEQERIEKERMRRLMAEDEEGY 375
+ KE N I ++ M + +KEQKK+ EK+++R + EE Y
Sbjct: 71 LQVLKESGGPLNGIEIKEFSRCDFTKMFDYFQLQKEQKKQLTSQEKKQIRLEREKFEEDY 130
Query: 376 RK-LIDQKKDK 385
+ +D ++++
Sbjct: 131 KFCELDGRREQ 141
>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP
hydrolysis, GDP, GMP, dynamin related, large GTPase
family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens}
SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A*
2bc9_A* 2d4h_A*
Length = 592
Score = 31.1 bits (69), Expect = 2.9
Identities = 29/192 (15%), Positives = 74/192 (38%), Gaps = 9/192 (4%)
Query: 203 LQERENRVALNIERRIEELNGSLTSTLPEHLRVKAEIELRA-LKVLNFQRQLRAEVIACA 261
L + + + ++ +E + S L + + E E++A + +L + +
Sbjct: 384 LAAQLEKKRDDFCKQNQEASSDRCSGLLQVIFSPLEEEVKAGIYSKPGGYRLFVQKLQDL 443
Query: 262 RRDTTLETAVNVKAYKRTKRQGLKEARATEKL--------EKQQKVEAERKKRQKHQEYI 313
++ E ++A + + + T+ + EK++++E ER K + Q
Sbjct: 444 KKKYYEEPRKGIQAEEILQTYLKSKESMTDAILQTDQTLTEKEKEIEVERVKAESAQASA 503
Query: 314 TTVLQHCKDFKEYHRNNQARIMRLNKAVMNYHANAEKEQKKEQERIEKERMRRLMAEDEE 373
+ + + ++ + K + N + KEQER +++ +E
Sbjct: 504 KMLHEMQRKNEQMMEQKERSYQEHLKQLTEKMENDRVQLLKEQERTLALKLQEQEQLLKE 563
Query: 374 GYRKLIDQKKDK 385
G++K K++
Sbjct: 564 GFQKESRIMKNE 575
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 30.5 bits (68), Expect = 3.3
Identities = 25/133 (18%), Positives = 38/133 (28%), Gaps = 48/133 (36%)
Query: 1165 VEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKK-----EKEKDREKDQAKLK 1219
V Y E +E + + P + E ++K K
Sbjct: 122 VNYSSEVKENSVDS-----------DDKAKVPP-----LIRIVSGLELSDTKQKG----K 161
Query: 1220 KTLKKIMRVVIKYTDSDGRVLSEPF----IKLPSRKELPDYYEVIDRPMDIKKILGRIED 1275
K L VI Y EPF I+LP + L + MD +
Sbjct: 162 KFL------VIAY---------EPFENIAIELPPNEILFSE----NNDMDNNNDGVDELN 202
Query: 1276 GKYSSVDELQKDF 1288
K + D + K +
Sbjct: 203 KKCTFWDAISKLY 215
>3itf_A Periplasmic adaptor protein CPXP; CPXR, CPXA, cpxrap, CPX-pathway,
envelope stress, transduction; HET: MSE; 1.45A
{Escherichia coli str} PDB: 3qzc_A
Length = 145
Score = 29.6 bits (66), Expect = 3.6
Identities = 14/92 (15%), Positives = 35/92 (38%), Gaps = 19/92 (20%)
Query: 348 AEKEQKKEQERIEKERMRRLMAE---DEEGYRKLIDQKKDKRLAFLLSQTDEYISNLTQM 404
+ ++ E E M RL+ DE R ++ ++++A +
Sbjct: 60 QARHEQPPVNVSELETMHRLVTAENFDENAVRAQAEKMANEQIARQVEM----------A 109
Query: 405 VKEHKM------EQKKKQDEESKKRKQSVKQK 430
++M EQ+ +E+ ++R + ++
Sbjct: 110 KVRNQMYRLLTPEQQAVLNEKHQQRMEQLRDV 141
>4f6o_A Metacaspase-1; rossmann fold, hydrolase; HET: DFH; 1.68A
{Saccharomyces cerevisiae}
Length = 350
Score = 30.3 bits (67), Expect = 3.9
Identities = 8/45 (17%), Positives = 13/45 (28%)
Query: 133 PSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQG 177
+G P ++ P + +P P Q Q G
Sbjct: 8 SNGYNNPNVNASNMYGPPQNMSLPPPQTQTIQGTDQPYQYSQCTG 52
Score = 29.6 bits (65), Expect = 7.1
Identities = 9/29 (31%), Positives = 10/29 (34%)
Query: 150 PPSQPMPNQAQPMPLQQQPPPQPHQQQGH 178
P+ N P PPPQ QG
Sbjct: 13 NPNVNASNMYGPPQNMSLPPPQTQTIQGT 41
>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP,
translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A
Length = 504
Score = 30.7 bits (70), Expect = 4.0
Identities = 32/154 (20%), Positives = 56/154 (36%), Gaps = 24/154 (15%)
Query: 38 PGPSPGQAPGQNPQENLTALQRA---IDSMKEQGLEEDPRYQKLIEMKANRTE-I-KHAF 92
PG N QE++ L++ +DSM +Q L+ K+ + R + + + +
Sbjct: 353 PGFGTDFMSKGNEQESMARLKKLMTIMDSMNDQELD-STDGAKVFSKQPGRIQRVARGSG 411
Query: 93 TSAQ-VQQL-----RFQIMAYRLLARNQPLTPQLAMGVQGKRMEGVPSGPQMPPMSLHGP 146
S + VQ+L +F M ++ + +G M S QM ++
Sbjct: 412 VSTRDVQELLTQYTKFAQMVKKM--------GGIKGLFKGGDMSKNVSQSQMAKLNQQMA 463
Query: 147 MPMPPS--QPMPNQA--QPMPLQQQPPPQPHQQQ 176
M P M A Q M Q Q + +
Sbjct: 464 KMMDPRVLHHMGGMAGLQSMMRQFQQGAAGNMKG 497
>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein
complex, translation regulation; 2.74A
{Schizosaccharomyces pombe}
Length = 592
Score = 30.5 bits (69), Expect = 4.2
Identities = 31/198 (15%), Positives = 69/198 (34%), Gaps = 19/198 (9%)
Query: 1045 RHQFLQTILHQDDEEDEEENAVPDDETVNQMLARSEEEFQTYQRIDAERRKEQGKKSRLI 1104
RH+ ++ + D E DEE P +E + E+E + + R G I
Sbjct: 3 RHRDVKNLDLDDYELDEE----PGEEELT-----EEQEEEFRSAVATVRETLLGVP---I 50
Query: 1105 EVSELPDWLIKEDEEIEQWAFEAKEEEKALHMGRGSR-----QRKQVDYTDSLTEKEWLK 1159
E+ D + ++E+ ++ + + + + K+ + +
Sbjct: 51 SEKEIADTVWYYYFDVEKSVNYLLQKASSKAGAKEKQNTDSQKEKKQNKSKEALADAKDP 110
Query: 1160 AIDDGVEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDREKDQAKLK 1219
+ + + +E + G+ + K + + KK KK+ D +
Sbjct: 111 LDESSNGIKNLSLNKNDEPAFQTNGEVKMKNSSESDNQPEKKKIKKQNPTDLVSVPEIFE 170
Query: 1220 KTLKK--IMRVVIKYTDS 1235
++ K + VV + DS
Sbjct: 171 QSNPKPVVHLVVTGHVDS 188
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor,
microtubles, motor protein; HET: ADP SPM; 2.81A
{Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C*
Length = 3245
Score = 30.6 bits (69), Expect = 4.3
Identities = 25/222 (11%), Positives = 72/222 (32%), Gaps = 16/222 (7%)
Query: 1081 EEFQTYQRIDAERRKE-QGKKSRLIEVSELPDWLIKEDEEIEQWAFEAKEEEKALHMGRG 1139
+ + E+R + + ++ L + L + +++ ++ + L
Sbjct: 1899 DFINQVVLLINEKRDQLEEEQLHLNIGLKK---LRDTEAQVKDLQVSLAQKNREL----- 1950
Query: 1140 SRQRKQVDYTDSLTEKEWLKAIDDGVEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPST 1199
K L + + + + D E + + +VR+K ++ K D E+
Sbjct: 1951 --DVKNEQANQKLKQMVQDQQAAEIKQKDARELQVQLDVRNKEIAVQKVKAYADLEKAEP 2008
Query: 1200 SKKRKKEKEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDYYEV 1259
+ +E+ + E +LK +I+ + S E + +++
Sbjct: 2009 TGP-LREEVEQLENAANELKLKQDEIVATITALEKSIATYKEEYATLIRETEQIKTESSK 2067
Query: 1260 IDRPMD-IKKILGRIEDGKY---SSVDELQKDFKTLCRNAQI 1297
+ +D +L + + + T+ + +
Sbjct: 2068 VKNKVDRSIALLDNLNSERGRWEQQSENFNTQMSTVVGDVVL 2109
>3e4c_A Caspase-1; zymogen, inflammasome, ICE, IL-1B, innate immunity,
apoptosis, hydrolase, protease protease; 2.05A {Homo
sapiens}
Length = 302
Score = 30.1 bits (67), Expect = 4.5
Identities = 13/102 (12%), Positives = 27/102 (26%), Gaps = 14/102 (13%)
Query: 1169 DEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKK-----------EKEKDR---EKD 1214
E ++ S + +R K + + P K + + R E D
Sbjct: 24 SSGSEGNVKLCSLEEAQRIWKQKSAEIYPIMDKSSRTRLALIICNEEFDSIPRRTGAEVD 83
Query: 1215 QAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPSRKELPDY 1256
+ L+ + V + ++ R E
Sbjct: 84 ITGMTMLLQNLGYSVDVKKNLTASDMTTELEAFAHRPEHKTS 125
>2gag_A Heterotetrameric sarcosine oxidase alpha-subunit; flavoenzyme,
electron transfer, folate-ME enzyme, oxidoreductase;
HET: NAD FAD FMN; 1.85A {Stenotrophomonas maltophilia}
PDB: 2gah_A* 1x31_A* 1vrq_A* 3ad7_A* 3ad8_A* 3ad9_A*
3ada_A*
Length = 965
Score = 30.7 bits (69), Expect = 4.5
Identities = 9/56 (16%), Positives = 17/56 (30%)
Query: 126 GKRMEGVPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQGHISS 181
G R + L +P+ S +P A + +G ++S
Sbjct: 855 GNRSYSRADNAREDRKQLVSVLPVDKSLRLPEGAALVASDALASEGITPMEGWVTS 910
>1trb_A Thioredoxin reductase; oxidoreductase(flavoenzyme); HET: FAD; 2.00A
{Escherichia coli} SCOP: c.3.1.5 c.3.1.5 PDB: 1cl0_A*
1f6m_A* 1tdf_A* 1tde_A*
Length = 320
Score = 30.2 bits (69), Expect = 4.7
Identities = 19/64 (29%), Positives = 29/64 (45%), Gaps = 8/64 (12%)
Query: 528 AMEEATYYS-IAHTVHEIV---TEQAS-ILVNGKLKEYQIKGLEWMVSLFNNNLNGILAD 582
A+EEA Y S IA VH I +A IL+ + + + + N L + D
Sbjct: 157 AVEEALYLSNIASEVHLIHRRDGFRAEKILIKRLMDKVENGNIIL---HTNRTLEEVTGD 213
Query: 583 EMGL 586
+MG+
Sbjct: 214 QMGV 217
>2xs1_A Programmed cell death 6-interacting protein; protein transport-viral
protein complex, cell cycle; 2.30A {Homo sapiens} PDB:
2xs8_A 2oev_A 2r05_A 2r02_A 2r03_A 2oex_A 2ojq_A
Length = 704
Score = 30.3 bits (67), Expect = 4.8
Identities = 36/252 (14%), Positives = 73/252 (28%), Gaps = 10/252 (3%)
Query: 1019 AARYKLNMDEKVIQAGMFDQKSTGSERHQFLQTILHQDDEEDEEENAVPDDETVNQMLAR 1078
+ ++ + + + + L ++ ED + VP
Sbjct: 372 SLAAYNQRKADLVNRSIAQMREATTLANGVLASLNLPAAIEDVSGDTVPQSILTKSRSVI 431
Query: 1079 SEEEFQTYQRIDAERRKEQGK-KSRLIEVSELPDWLIKEDEEI-----EQWAFEAKEEEK 1132
+ QT ++ E + + + L E L D D ++ E+W E
Sbjct: 432 EQGGIQTVDQLIKELPELLQRNREILDESLRLLDEEEATDNDLRAKFKERWQRTPSNELY 491
Query: 1133 ALHMGRGSRQRKQVD---YTDSLTEKEWLKAIDDGVEYDDEEEEEEEEVRSKRKGKRRKK 1189
G+ R +D D ++ + D V E E + S K +
Sbjct: 492 KPLRAEGTNFRTVLDKAVQADGQVKECYQSHRDTIVLLCKPEPELNAAIPSANPAKTMQG 551
Query: 1190 TEDDDEEPSTSKKRKKEKEKDREKDQAKLKKTLKKIMRVVIKYTDSDGRVLSEPFIKLPS 1249
+E + + E +K+RE + LK + + DG + E
Sbjct: 552 SEVVNVL-KSLLSNLDEVKKEREGLENDLKSVNFDMTSKFLTALAQDGVINEEALSVTEL 610
Query: 1250 RKELPDYYEVID 1261
+ +
Sbjct: 611 DRVYGGLTTKVQ 622
>1sig_A Sigma70, RNA polymerase primary sigma factor; RNA polymerase sigma
factor, transcription regulation; 2.60A {Escherichia
coli} SCOP: a.177.1.1
Length = 339
Score = 30.3 bits (68), Expect = 4.8
Identities = 14/88 (15%), Positives = 29/88 (32%), Gaps = 1/88 (1%)
Query: 1148 YTDSLTEKEWLKAIDDGVEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEK 1207
Y E+ L + G D EE+ + + ++ DDDE+
Sbjct: 39 YNRVEAEEARLSDLITGFV-DPNAEEDLAPTATHVGSELSQEDLDDDEDEDEEDGDDDSA 97
Query: 1208 EKDREKDQAKLKKTLKKIMRVVIKYTDS 1235
+ D D ++ ++ + D+
Sbjct: 98 DDDNSIDPELAREKFAELRAQYVVTRDT 125
>3izx_B Capsid protein VP1; cytoplasmic polyhedrosis virus, 3D
reconstruction, cryoem, F model; 3.10A {Bombyx mori
cypovirus 1} PDB: 3cnf_A 3iz3_B 3j17_B*
Length = 1333
Score = 30.4 bits (67), Expect = 5.0
Identities = 9/64 (14%), Positives = 18/64 (28%), Gaps = 1/64 (1%)
Query: 1159 KAIDDGVEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKDR-EKDQAK 1217
+ E + E + + R +T D + + + R + D
Sbjct: 8 SNKRNNEEKHKQPEIDSSANNGEGTSGTRAQTVGDTATEAGVRNETEAGASTRRQTDGTG 67
Query: 1218 LKKT 1221
L T
Sbjct: 68 LSGT 71
>4ap2_B Cullin-3, CUL-3; ubiquitination, E3 ligase, cell cycle; HET: EDO;
2.80A {Homo sapiens} PDB: 4apf_B
Length = 410
Score = 30.2 bits (67), Expect = 5.1
Identities = 21/112 (18%), Positives = 42/112 (37%), Gaps = 5/112 (4%)
Query: 322 DFKEYHRNNQARIMRLNKAVMNY-HANAEKEQKKEQERIE-KERMRRLMAEDEEGYRKLI 379
Y + +ARI + VM+ + E+ K ER + M+ ++ + G ++
Sbjct: 229 SASVYIKKVEARINEEIERVMHCLDKSTEEPIVKVVERELISKHMKTIVEMENSGLVHML 288
Query: 380 DQKKD---KRLAFLLSQTDEYISNLTQMVKEHKMEQKKKQDEESKKRKQSVK 428
K + L S+ + + + + + EQ K E + K V
Sbjct: 289 KNGKTEDLGCMYKLFSRVPNGLKTMCECMSSYLREQGKALVSEEGEGKNPVD 340
>3ugo_A RNA polymerase sigma factor; protein-DNA complex, bacterial promoter
opening, G-quartet, quadruplex, DNA binding; 2.10A
{Thermus aquaticus} PDB: 3ugp_A 1ku2_A 3lev_A* 3les_A*
Length = 245
Score = 29.9 bits (67), Expect = 5.1
Identities = 14/111 (12%), Positives = 40/111 (36%), Gaps = 7/111 (6%)
Query: 1127 AKEEEKALHMGRGSRQRKQVDYTDSLTEKEWLKAIDDGVEYDDEEEEEEEEVRSKRKGKR 1186
+EE + + + ++E ++ + ++ ++ K K
Sbjct: 24 LEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKILGTARIQKIPGLKEKPDPKT 83
Query: 1187 RKKTEDDDEEPSTSKKRKKEKEKDREKDQAKLKKTLKKIMRVVI----KYT 1233
++ + + KR ++ E A+ + ++ +R+V+ KYT
Sbjct: 84 VEEVDGKLKSLPKELKRYLHIAREGEA--AR-QHLIEANLRLVVSIAKKYT 131
>2aml_A SIS domain protein; 46906266, LMO0035 protein, structural genomics,
joint center structural genomics, JCSG, protein structure
initiative; HET: MSE; 1.50A {Listeria monocytogenes}
Length = 373
Score = 30.2 bits (69), Expect = 5.3
Identities = 11/56 (19%), Positives = 19/56 (33%), Gaps = 9/56 (16%)
Query: 1088 RIDAERRKEQGKKSRLIEVSELPDW----LIKEDEEIEQWAFEAKEEEKALHMGRG 1139
+ID R + + S D + + + E+W E K +G G
Sbjct: 183 QIDETRFNNE-----ISAFSRAIDAIPATIAETEAFYERWQEEFATAPKFTAIGYG 233
>2a3n_A Putative glucosamine-fructose-6-phosphate aminotr; structural
genomics, joint center for structural genomics; HET: MSE;
1.23A {Salmonella typhimurium}
Length = 355
Score = 29.9 bits (68), Expect = 5.3
Identities = 11/68 (16%), Positives = 21/68 (30%), Gaps = 17/68 (25%)
Query: 1076 LARSEEEFQTYQRIDAERRKEQGKKSRLIEVSELPDWLIKE----DEEIEQWAFEAKEEE 1131
+ EF +Y R ++ LP L+K D + + A +
Sbjct: 173 VLSRNNEFASYDRF-------------ASQLEILPANLLKAKQKFDPQADAIASRYHNSD 219
Query: 1132 KALHMGRG 1139
+ +G
Sbjct: 220 YMMWVGGA 227
>2qxf_A Exodeoxyribonuclease I; alpha-beta domain, DNAQ superfamily,
SH3-like domain, produc structure, DNA damage, DNA
repair, exonuclease; HET: TMP; 1.50A {Escherichia coli}
SCOP: c.55.3.5 PDB: 1fxx_A* 3c94_A 3c95_A 3hl8_A*
3hp9_A*
Length = 482
Score = 30.0 bits (66), Expect = 5.5
Identities = 17/75 (22%), Positives = 27/75 (36%), Gaps = 7/75 (9%)
Query: 336 RLNKAVMNYHANAEKEQ--KKEQERIEKERMRRLMAEDEEGYRKLIDQ-----KKDKRLA 388
R+ K + NY A EQ+R + R + E +GY + DK
Sbjct: 402 RIEKLLFNYRARNFPGTLDYAEQQRWLEHRRQVFTPEFLQGYADELQMLVQQYADDKEKV 461
Query: 389 FLLSQTDEYISNLTQ 403
LL +Y + +
Sbjct: 462 ALLKALWQYADEIVE 476
>3c3j_A Putative tagatose-6-phosphate ketose/aldose isome;
tagatose-6-phosphate ketose/aldose isomerase, structural
GEN PSI, MCSG; 1.80A {Escherichia coli}
Length = 384
Score = 29.9 bits (68), Expect = 5.6
Identities = 5/47 (10%), Positives = 17/47 (36%)
Query: 1094 RKEQGKKSRLIEVSELPDWLIKEDEEIEQWAFEAKEEEKALHMGRGS 1140
E +V++ ++ + + F ++ +++G G
Sbjct: 188 APETINSQTFRDVADRCQAILTSLGDFSEGVFGYAPWKRIVYLGSGG 234
>3psi_A Transcription elongation factor SPT6; nucleus; 3.30A {Saccharomyces
cerevisiae}
Length = 1219
Score = 30.2 bits (68), Expect = 5.8
Identities = 14/48 (29%), Positives = 23/48 (47%)
Query: 1163 DGVEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKD 1210
DG +YD E E EE+ + ++ E D+E + +KK +D
Sbjct: 19 DGHDYDWALEIENEELENGNDNNEAEEEEIDEETGAIKSTKKKISLQD 66
>2vg3_A Undecaprenyl pyrophosphate synthetase; transferase, cell WALL
biogenesis/degradation, cell cycle, P transferase; HET:
GPP; 1.8A {Mycobacterium tuberculosis} PDB: 2vg2_A*
2vg4_A
Length = 284
Score = 29.9 bits (68), Expect = 6.1
Identities = 12/59 (20%), Positives = 17/59 (28%), Gaps = 4/59 (6%)
Query: 136 PQMPPMSLHGPMPMPPSQ-PMPNQAQPMPLQQQPPPQPHQQQGHISSQIKQSKLTNIPK 193
PQ+PP P S P+ P P P + +I +P
Sbjct: 2 PQLPPAPDDYPTFPDTSTWPVVFPELPAAPYGGPCRPPQHTSKAAAPRIPAD---RLPN 57
>2yiz_A Dodecin; flavoprotein, flavin binding protein, protein-engineering,
P storage protein; HET: COA FMN GOL; 1.70A
{Mycobacterium tuberculosis} PDB: 3oqt_A 2yj0_A*
Length = 69
Score = 27.2 bits (61), Expect = 6.3
Identities = 8/42 (19%), Positives = 16/42 (38%), Gaps = 9/42 (21%)
Query: 526 KNAMEEATYYSIAHTVHEI----VTEQASILVNGKLKEYQIK 563
+ + A A T+ + V LV+G + +Q+
Sbjct: 23 QGGLARA-----AQTMRALDWFEVQSIRGHLVDGAVAHFQVT 59
>3a58_A Exocyst complex component SEC3; protein complex, PH domain, GTPase,
membrane traffic, coiled coil, exocytosis,
phosphoprotein; HET: GNP; 2.60A {Saccharomyces
cerevisiae}
Length = 320
Score = 29.5 bits (65), Expect = 6.8
Identities = 7/80 (8%), Positives = 20/80 (25%)
Query: 102 FQIMAYRLLARNQPLTPQLAMGVQGKRMEGVPSGPQMPPMSLHGPMPMPPSQPMPNQAQP 161
+ + + L R+ ++ S G +P +++
Sbjct: 231 WDLSLFYLDERSYQRAVITNRPGSVSPIKSPTSNFTTNTTQSVGSVPFSAPTERTRRSET 290
Query: 162 MPLQQQPPPQPHQQQGHISS 181
+ P + + S
Sbjct: 291 ESVNPVSTPASVEYHAGMKS 310
Score = 29.5 bits (65), Expect = 8.1
Identities = 5/42 (11%), Positives = 10/42 (23%)
Query: 2 SNSSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGSPGPSPG 43
S P ++ +V + A G +
Sbjct: 273 VGSVPFSAPTERTRRSETESVNPVSTPASVEYHAGMKSLNKA 314
>1pcx_A Protein transport protein SEC24; 2.50A {Saccharomyces cerevisiae}
SCOP: a.71.2.1 b.2.8.1 c.62.1.2 d.109.2.1 g.41.10.1 PDB:
1pd0_A 1pd1_A
Length = 810
Score = 30.0 bits (66), Expect = 6.8
Identities = 9/63 (14%), Positives = 16/63 (25%), Gaps = 4/63 (6%)
Query: 134 SGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQPHQQQGHISSQIKQSKLTNIPK 193
+ P M + NQ P+ L + PP + + +P
Sbjct: 1 AAPAYGQP----SAAMGQNMRPMNQLYPIDLLTELPPPITDLTLPPPPLVIPPERMLVPS 56
Query: 194 PEG 196
Sbjct: 57 ELS 59
Score = 30.0 bits (66), Expect = 7.0
Identities = 9/59 (15%), Positives = 18/59 (30%)
Query: 150 PPSQPMPNQAQPMPLQQQPPPQPHQQQGHISSQIKQSKLTNIPKPEGLDPLIILQEREN 208
P+ P+ A ++ P + I L P + +++ E N
Sbjct: 2 APAYGQPSAAMGQNMRPMNQLYPIDLLTELPPPITDLTLPPPPLVIPPERMLVPSELSN 60
>2ipc_A Preprotein translocase SECA subunit; nucleotide binding fold,
ATPase, parallel dimer; 2.80A {Thermus thermophilus}
Length = 997
Score = 30.2 bits (68), Expect = 7.0
Identities = 28/204 (13%), Positives = 67/204 (32%), Gaps = 4/204 (1%)
Query: 219 EELNGSLTSTLPEHLRVKAEIELRALKVLNFQRQLRAEVIACARRDTTLETAVNVKAYKR 278
E L+ L R++ +EL Q+ E + ++ ++
Sbjct: 457 ERLSQMLKEPRLYLPRLEMRLELFKKASQK-QQGPEWERLRKLLERPAQLKDEDLAPFEG 515
Query: 279 TKRQGLKEARATEKLEKQQKVEAERKKRQKHQEYITTVLQHCKDFKEYHRNNQARIMRLN 338
A E L++ A ++ HQ + ++ + N
Sbjct: 516 LIPPKGNLRTAWEGLKRAVHTLAVLRQGIPHQVLNAKHHAREAEIVAQAGRSKTVTIATN 575
Query: 339 KAVMNYHAN-AEKEQKKEQERIEKERMRRLMAEDEEGYRKLI--DQKKDKRLAFLLSQTD 395
A + +EKE R + E +K++ +++ + LA L +
Sbjct: 576 MAGRGTDIKLGGNPEYLAAALLEKEGFDRYEWKVELFIKKMVAGKEEEARALAQELGIRE 635
Query: 396 EYISNLTQMVKEHKMEQKKKQDEE 419
E + + ++ +E K ++++ +
Sbjct: 636 ELLERIREIREECKQDEERVRALG 659
>2axn_A 6-phosphofructo-2-kinase/fructose-2,6- biphosphatase 3
(6PF-2-K/FRU- 2,6-P2ASE brain/placenta-type...;
bifunctional enzyme, EDTA complex; HET: F6P EDT ADP;
2.10A {Homo sapiens} PDB: 2dwo_A* 2dwp_A* 2i1v_B*
3qpu_A* 3qpv_A* 3qpw_A*
Length = 520
Score = 29.7 bits (66), Expect = 7.0
Identities = 13/47 (27%), Positives = 22/47 (46%), Gaps = 1/47 (2%)
Query: 4 SSTSPNPPPPQQQQPPLNVGQLPMGAPGSGPPGS-PGPSPGQAPGQN 49
+S +P P ++P +N + + + + P P P Q PGQN
Sbjct: 460 NSVTPLASPEPTKKPRINSFEEHVASTSAALPSCLPPEVPTQLPGQN 506
>2vxa_A Dodecin; flavoprotein, flavin, riboflavin, lumichrome, archaea;
HET: RBF; 2.60A {Halorhodospira halophila}
Length = 72
Score = 27.3 bits (61), Expect = 7.4
Identities = 7/42 (16%), Positives = 16/42 (38%), Gaps = 9/42 (21%)
Query: 526 KNAMEEATYYSIAHTVHEI----VTEQASILVNGKLKEYQIK 563
NA+ A T+ + V + + G++ +Q+
Sbjct: 24 NNAIARA-----GETLRHLRWFEVVDTRGHIEGGRVNHWQVT 60
>3gmj_D Protein mothers against DPP; MH2,SMAD,MAD, cytoplasm, developmental
protein, nucleus, phosphoprotein, transcription; 2.80A
{Drosophila melanogaster}
Length = 245
Score = 29.3 bits (65), Expect = 7.4
Identities = 8/49 (16%), Positives = 12/49 (24%)
Query: 123 GVQGKRMEGVPSGPQMPPMSLHGPMPMPPSQPMPNQAQPMPLQQQPPPQ 171
G + G P P + P Q + Q + P
Sbjct: 1 GPHMDSLAGTPPPAYSPSEDGNSNNPNDGGQLLDAQMGDVAQVSYSEPA 49
>2ux9_A Dodecin; flavoprotein; HET: FMN COA; 1.4A {Thermus thermophilus}
SCOP: d.230.2.1 PDB: 2cz8_A* 2deg_A 2deh_A 2dev_A
2v21_A* 2v18_A* 2vyx_A* 2v19_A*
Length = 69
Score = 27.2 bits (61), Expect = 7.4
Identities = 9/42 (21%), Positives = 16/42 (38%), Gaps = 9/42 (21%)
Query: 526 KNAMEEATYYSIAHTVHEI----VTEQASILVNGKLKEYQIK 563
+ A+ A T+ + V E + +KEYQ+
Sbjct: 23 QAALARA-----RKTLRHLDWFEVKEIRGTIGEAGVKEYQVV 59
>3kyh_C MRNA-capping enzyme subunit alpha; 5' modification, triphosphatase,
guanylyltransferase, complex, hydrolase, mRNA processing,
nucleus; 3.00A {Saccharomyces cerevisiae}
Length = 461
Score = 29.8 bits (65), Expect = 8.0
Identities = 13/106 (12%), Positives = 31/106 (29%)
Query: 895 KSTGHRVLLFCQMTQLMNILEDYFSYRGFKYMRLDGTTKAEDRGDLLKKFNAPDSEYFIF 954
K+ G RVL+F + + + R Y ++G ++ + +
Sbjct: 72 KTDGLRVLMFIVINPVTGEQGCFMIDRENNYYLVNGFRFPRLPQKKKEELLETLQDGTLL 131
Query: 955 VLSTRAGGLGLNLQTADTVIIFDSDWNPHQDLQAQDRAHRIGQKNE 1000
+ ++FD + L + R+ +
Sbjct: 132 DGELVIQTNPMTKLQELRYLMFDCLAINGRCLTQSPTSSRLAHLGK 177
>2b5l_C Nonstructural protein V; DDB1, SV5-V, beta propeller, propeller
cluster, zinc finger, protein binding/viral protein
complex; 2.85A {Simian virus 5} PDB: 2hye_B*
Length = 222
Score = 29.2 bits (64), Expect = 8.5
Identities = 13/100 (13%), Positives = 20/100 (20%), Gaps = 9/100 (9%)
Query: 2 SNSSTSPNPPPPQQQQPPLNVGQLPMGAPGS--GPPGSPGPSPGQAPGQNPQENLTALQR 59
ST+ P P PG P P+P P
Sbjct: 59 IQESTNHQKGSVGGGAKPKKPRPKIAIVPADDKTVPGKPIPNPLLGLDSTP-------ST 111
Query: 60 AIDSMKEQGLEEDPRYQKLIEMKANRTEIKHAFTSAQVQQ 99
Y+ + K + + F +
Sbjct: 112 QTVLDLSGKTLPSGSYKGVKLAKFGKENLMTRFIEEPREN 151
>3psf_A Transcription elongation factor SPT6; nucleus; 2.59A {Saccharomyces
cerevisiae}
Length = 1030
Score = 29.5 bits (66), Expect = 9.5
Identities = 14/48 (29%), Positives = 23/48 (47%)
Query: 1163 DGVEYDDEEEEEEEEVRSKRKGKRRKKTEDDDEEPSTSKKRKKEKEKD 1210
DG +YD E E EE+ + ++ E D+E + +KK +D
Sbjct: 22 DGHDYDWALEIENEELENGNDNNEAEEEEIDEETGAIKSTKKKISLQD 69
>2w3l_A BCL2-XL, apoptosis regulator BCL-2; HET: DRO; 2.10A {Homo sapiens}
PDB: 2o2f_A*
Length = 144
Score = 28.5 bits (63), Expect = 9.8
Identities = 9/16 (56%), Positives = 11/16 (68%)
Query: 471 LAAHLKQWIQDHPGWE 486
L HL WIQD+ GW+
Sbjct: 119 LNRHLHTWIQDNGGWD 134
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
0.313 0.131 0.370
Gapped
Lambda K H
0.267 0.0437 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 20,279,202
Number of extensions: 1288870
Number of successful extensions: 5194
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4558
Number of HSP's successfully gapped: 462
Length of query: 1331
Length of database: 6,701,793
Length adjustment: 105
Effective length of query: 1226
Effective length of database: 3,770,088
Effective search space: 4622127888
Effective search space used: 4622127888
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 63 (28.8 bits)