RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14208
(778 letters)
>1ldj_A Cullin homolog 1, CUL-1; cullin, ROC1, HRT1, zinc ring finger,
ligase, ubiquitin, ubiquitination, SCF; 3.00A {Homo
sapiens} SCOP: a.4.5.34 a.118.17.1 e.40.1.1 PDB: 1u6g_A
1ldk_A 1ldk_B 3rtr_A
Length = 760
Score = 507 bits (1305), Expect = e-169
Identities = 229/799 (28%), Positives = 392/799 (49%), Gaps = 69/799 (8%)
Query: 10 FEDKWPSMRPIVLKLLQQEPVSQNEWQNLFYAVHVVCLW--------------------- 48
+ W +R + ++ ++ ++++ + L+ V+ C
Sbjct: 1 LDQIWDDLRAGIQQVYTRQSMAKSRYMELYTHVYNYCTSVHQSNQARGAGVPPSKSKKGQ 60
Query: 49 DEKGPSKIVDALKEDIMNFIRHAQQRVLAHEE---DQALLKAYIQEWSKFLAQCSYLPTP 105
G + L + + F+++ +L E D+++LK Y Q+W + L
Sbjct: 61 TPGGAQFVGLELYKRLKEFLKNYLTNLLKDGEDLMDESVLKFYTQQWEDYRFSSKVLNGI 120
Query: 106 FRQLETSLVNKSVSTSLTNNNNKQKISAEESTVRVLMLDSWNQSIFNDIKQRLQDSAMKL 165
L V + + L L +W +F + +++ ++ +KL
Sbjct: 121 CAYLNRHWVRRECDEGRKG----------IYEIYSLALVTWRDCLFRPLNKQVTNAVLKL 170
Query: 166 VQSERNGEAFDSQLVIGVRESYVNLCSNPED------KLQIYREHFEKAYIAATESFYTV 219
++ ERNGE +++L+ GV +SYV L N +D L +Y+E FE ++A TE FYT
Sbjct: 171 IEKERNGETINTRLISGVVQSYVELGLNEDDAFAKGPTLTVYKESFESQFLADTERFYTR 230
Query: 220 KAAEFLQNNGVESYMKYADAKLHEEELRACKYLESSSSVQLLTDCCVTVLVSSFKNTILA 279
++ EFLQ N V YMK A+A+L EE+ R YL S+ +L C VL+
Sbjct: 231 ESTEFLQQNPVTEYMKKAEARLLEEQRRVQVYLHESTQDELA-RKCEQVLIEKHLEIFHT 289
Query: 280 ECPKMIKMNETLKLELMMKLLDRIKDGITPMLQDLEAHIVNAGLADMIASADIITQDSEK 339
E ++ ++ L M L+ RI+DG+ + + LE HI N GLA + + D +
Sbjct: 290 EFQNLLDADKNEDLGRMYNLVSRIQDGLGELKKLLETHIHNQGLAAIEKCGEAALNDPKM 349
Query: 340 YVERLLELFNQFSKLVKDAFKDDPRFLTARDKAYKNVVNDTTVFKLELPTKQCTGIKTLP 399
YV+ +L++ +++ LV AF +D F+ A DKA +N+ V K+
Sbjct: 350 YVQTVLDVHKKYNALVMSAFNNDAGFVAALDKACGRFINNNAVTKMAQS----------- 398
Query: 400 ESKCPELLANYCDMLLRKTPLSKRLTADEIESKLRNVLLVLKYVQNKDVFMRFHKAHLTR 459
SK PELLA YCD LL+K+ SK E+E L V++V KY+++KDVF +F+ L +
Sbjct: 399 SSKSPELLARYCDSLLKKS--SKNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAK 456
Query: 460 RLILDTSADSEKEENMVEWLRDVGMPADYVNKLARMFQDIKVSQDLNYQFKQSYRGSKGS 519
RL+ SA + E +M+ L+ +Y +KL RMFQDI VS+DLN QFK+ + +
Sbjct: 457 RLVHQNSASDDAEASMISKLKQ-ACGFEYTSKLQRMFQDIGVSKDLNEQFKK-HLTNSEP 514
Query: 520 IGDSINIKILNAGAWARGSERVTVSLPLELEDYIPEVEDFYKKKHSGRKLQWYHHMSNGT 579
+ +I++L++G+W + T +LP ELE FY +HSGRKL W + +S G
Sbjct: 515 LDLDFSIQVLSSGSWPF-QQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGE 573
Query: 580 ITFSNEVGKYDLDVTTFQMAVLFAWNERPLDRLSFENLLLATELPDPELRRTLWSLVAFP 639
+ + +Y L +TFQMA+L +N D + + L +T++ L + L L+
Sbjct: 574 LVTNCFKNRYTLQASTFQMAILLQYNTE--DAYTVQQLTDSTQIKMDILAQVLQILL--- 628
Query: 640 KIKRQILLYSEEVQSPKDFTEHTSFWINQEFALVKMGKILKRGKINLIGRLQLSTEKSKE 699
K K +L + T + + K+ ++N+ ++ ++ +E
Sbjct: 629 KSKLLVLEDENANVDEVELKPDTLIKLYLGY-------KNKKLRVNINVPMKTEQKQEQE 681
Query: 700 EDNESIVQLRILRVQEAIIKILKMRKRISNAQLQTELVDILKNMFLPSKKMIKEQIEWLI 759
+++I + R L +Q AI++I+KMRK + + QL E++ L + F P +IK+ I+ LI
Sbjct: 682 TTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILI 741
Query: 760 EQKYMRRDDDDINVFVYLA 778
E++Y+ R D + + + YLA
Sbjct: 742 EKEYLERVDGEKDTYSYLA 760
>2hye_C Cullin-4A, CUL-4A; beta propeller, ring finger, zinc finger,
propeller cluster, helical repeats, cullin repeats,
protein binding; HET: DNA; 3.10A {Homo sapiens} SCOP:
a.4.5.34 a.118.17.1 e.40.1.1 PDB: 4a0k_A* 4a0c_C 4a0l_E*
Length = 759
Score = 456 bits (1174), Expect = e-150
Identities = 191/775 (24%), Positives = 339/775 (43%), Gaps = 76/775 (9%)
Query: 8 QTFEDKWPSMRPIVLKLLQQEPVSQNEWQNLFYAVHVVCLWDEKGPSKIVDALKEDIMNF 67
+D W + V + + N + L+ AV +C K + L++ +
Sbjct: 57 NYTQDTWRKLHEAVRAVQSSTSIRYN-LEELYQAVENLCSH--KVSPMLYKQLRQACEDH 113
Query: 68 IRHAQQRVLAHEEDQ-ALLKAYIQEWSKFLAQCSYLPTPFRQLETSLVNKSVSTSLTNNN 126
++ D LK W Q + + F L+ + V ++
Sbjct: 114 VQAQILPFREDSLDSVLFLKKINTCWQDHCRQMIMIRSIFLFLDRTYVLQN--------- 164
Query: 127 NKQKISAEESTVRVLMLDSWNQSIFND--IKQRLQDSAMKLVQSERNGEAFDSQLVIGVR 184
+ ++ + L+ + I +D ++ + D + L++ ER+GEA D L+ +
Sbjct: 165 ------STLPSIWDMGLELFRTHIISDKMVQSKTIDGILLLIERERSGEAVDRSLLRSLL 218
Query: 185 ESYVNLCSNPEDKLQIYREHFEKAYIAATESFYTVKAAEFLQNNGVESYMKYADAKLHEE 244
+L Q+Y++ FE ++ T Y + +Q V Y+ + +L EE
Sbjct: 219 GMLSDL--------QVYKDSFELKFLEETNCLYAAEGQRLMQEREVPEYLNHVSKRLEEE 270
Query: 245 ELRACKYLESSSSVQLLTDCCVTVLVSSFKNTIL-AECPKMIKMNETLKLELMMKLLDRI 303
R YL+ S+ + L C L+ IL ++ N L M +L R+
Sbjct: 271 GDRVITYLD-HSTQKPLIACVEKQLLGEHLTAILQKGLDHLLDENRVPDLAQMYQLFSRV 329
Query: 304 KDGITPMLQDLEAHIVNAGLADMIASADIITQDSEKYVERLLELFNQFSKLVKDAFKDDP 363
+ G +LQ +I G A I + + V+ LL+ ++ +++ F+ +
Sbjct: 330 RGGQQALLQHWSEYIKTFGTA-----IVINPEKDKDMVQDLLDFKDKVDHVIEVCFQKNE 384
Query: 364 RFLTARDKAYKNVVNDTTVFKLELPTKQCTGIKTLPESKCPELLANYCDMLLRKTPLSKR 423
RF+ ++++ +N +K EL+A + D LR K
Sbjct: 385 RFVNLMKESFETFINK-------------------RPNKPAELIAKHVDSKLRAGN--KE 423
Query: 424 LTADEIESKLRNVLLVLKYVQNKDVFMRFHKAHLTRRLILDTSADSEKEENMVEWLRDVG 483
T +E+E L ++++ +++ KDVF F+K L +RL++ SA + E++M+ L+
Sbjct: 424 ATDEELERTLDKIMILFRFIHGKDVFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLKHE- 482
Query: 484 MPADYVNKLARMFQDIKVSQDLNYQFKQSYRGSKGSIGDSINIKILNAGAWARGSERVTV 543
A + +KL MF+D+++S+D+ FKQ + S + + IL G W + + V
Sbjct: 483 CGAAFTSKLEGMFKDMELSKDIMVHFKQHMQNQSDSGPIDLTVNILTMGYWPTYTP-MEV 541
Query: 544 SLPLELEDYIPEVEDFYKKKHSGRKLQWYHHMSNGTITFSNEVGKYDLDVTTFQMAVLFA 603
L E+ + FY KHSGRKLQW + + + + GK + V+ FQ VL
Sbjct: 542 HLTPEMIKLQEVFKAFYLGKHSGRKLQWQTTLGHAVLKAEFKEGKKEFQVSLFQTLVLLM 601
Query: 604 WNERPLDRLSFENLLLATELPDPELRRTLWSLVAFPKIKRQILLYSEEVQSPKDFTEHTS 663
+NE D SFE + +AT + D ELRRTL SL K ++L+ S + K+ +
Sbjct: 602 FNEG--DGFSFEEIKMATGIEDSELRRTLQSLA---CGKARVLIKSPK---GKEVEDGDK 653
Query: 664 FWINQEFALVKMGKILKRGKINLIGRLQLSTEKSKEEDNESIVQLRILRVQEAIIKILKM 723
F N EF K +I + T + + E + Q R ++ AI++I+KM
Sbjct: 654 FIFNGEF-------KHKLFRIKINQIQMKETVEEQVSTTERVFQDRQYQIDAAIVRIMKM 706
Query: 724 RKRISNAQLQTELVDILKNMFLPSKKMIKEQIEWLIEQKYMRRDDDDINVFVYLA 778
RK + + L +EL + LK F +K++IE LI++ YM RD D+ N + Y+A
Sbjct: 707 RKTLGHNLLVSELYNQLK--FPVKPGDLKKRIESLIDRDYMERDKDNPNQYHYVA 759
>3dpl_C Cullin-5; ubiquitin, NEDD8, cullin, HOST-virus interaction,
receptor, UBL conjugation, UBL conjugation pathway,
acetylation, cytoplasm; 2.60A {Homo sapiens} PDB: 3dqv_C
Length = 382
Score = 352 bits (903), Expect = e-115
Identities = 294/380 (77%), Positives = 339/380 (89%), Gaps = 1/380 (0%)
Query: 400 ESKCPELLANYCDMLLRKTPLSKRLTADEIESKLRNVLLVLKYVQNKDVFMRFHKAHLTR 459
ESKCPE LANYCDMLLRKTPLSK+LT++EIE+KL+ VL LKYVQNKDVFMR+HKAHLTR
Sbjct: 3 ESKCPEELANYCDMLLRKTPLSKKLTSEEIEAKLKEVLKKLKYVQNKDVFMRYHKAHLTR 62
Query: 460 RLILDTSADSEKEENMVEWLRDVGMPADYVNKLARMFQDIKVSQDLNYQFKQSYRGSKGS 519
RLILD SADSE EENMVEWLR+VGMPADYVNKLARMFQDIKVS+DLN FK+ ++ +K +
Sbjct: 63 RLILDISADSEIEENMVEWLREVGMPADYVNKLARMFQDIKVSEDLNQAFKEMHKNNKLA 122
Query: 520 I-GDSINIKILNAGAWARGSERVTVSLPLELEDYIPEVEDFYKKKHSGRKLQWYHHMSNG 578
+ DS+NIKILNAGAW+R SE+V VSLP ELED IPEVE+FYKK HSGRKL W+H MSNG
Sbjct: 123 LPADSVNIKILNAGAWSRSSEKVFVSLPTELEDLIPEVEEFYKKNHSGRKLHWHHLMSNG 182
Query: 579 TITFSNEVGKYDLDVTTFQMAVLFAWNERPLDRLSFENLLLATELPDPELRRTLWSLVAF 638
ITF NEVG+YDL+VTTFQ+AVLFAWN+RP +++SFENL LATELPD ELRRTLWSLVAF
Sbjct: 183 IITFKNEVGQYDLEVTTFQLAVLFAWNQRPREKISFENLKLATELPDAELRRTLWSLVAF 242
Query: 639 PKIKRQILLYSEEVQSPKDFTEHTSFWINQEFALVKMGKILKRGKINLIGRLQLSTEKSK 698
PK+KRQ+LLY +V SPKDFTE T F +NQEF+L+K K+ KRGKINLIGRLQL+TE+ +
Sbjct: 243 PKLKRQVLLYEPQVNSPKDFTEGTLFSVNQEFSLIKNAKVQKRGKINLIGRLQLTTERMR 302
Query: 699 EEDNESIVQLRILRVQEAIIKILKMRKRISNAQLQTELVDILKNMFLPSKKMIKEQIEWL 758
EE+NE IVQLRILR QEAII+I+KMRK+ISNAQLQTELV+ILKNMFLP KKMIKEQIEWL
Sbjct: 303 EEENEGIVQLRILRTQEAIIQIMKMRKKISNAQLQTELVEILKNMFLPQKKMIKEQIEWL 362
Query: 759 IEQKYMRRDDDDINVFVYLA 778
IE KY+RRD+ DIN F+Y+A
Sbjct: 363 IEHKYIRRDESDINTFIYMA 382
>2wzk_A Cullin-5, CUL-5; UBL conjugation pathway, HIV, phosphoprotein,
isopeptide bond, protein binding; 2.05A {Mus musculus}
Length = 391
Score = 278 bits (711), Expect = 2e-86
Identities = 252/389 (64%), Positives = 307/389 (78%), Gaps = 11/389 (2%)
Query: 1 MLKDKGTQTFEDKWPSMRPIVLKLLQQEPVSQNEWQNLFYAVHVVCLWDEKGPSKIVDAL 60
+LK+KG+ FEDKW M PIVLKLL+QE V++ +W +LF VH VCLWD+KG SKI AL
Sbjct: 6 LLKNKGSLQFEDKWDFMHPIVLKLLRQESVTKQQWFDLFSDVHAVCLWDDKGSSKIHQAL 65
Query: 61 KEDIMNFIRHAQQRVLAHEEDQALLKAYIQEWSKFLAQCSYLPTPFRQLETSLVNKSVST 120
KEDI+ FI+ AQ RVL+H++D ALLKAYI EW KF QC LP PF QLE +L+ K
Sbjct: 66 KEDILEFIKQAQARVLSHQDDTALLKAYIVEWRKFFTQCDILPKPFCQLEVTLLGK---- 121
Query: 121 SLTNNNNKQKISAEESTVRVLMLDSWNQSIFNDIKQRLQDSAMKLVQSERNGEAFDSQLV 180
++ +K + E+S VR LMLD+WN+SIF++IK RLQDSAMKLV +ER GEAFDSQLV
Sbjct: 122 ----QSSNKKSNMEDSIVRKLMLDTWNESIFSNIKNRLQDSAMKLVHAERLGEAFDSQLV 177
Query: 181 IGVRESYVNLCSNPEDKLQIYREHFEKAYIAATESFYTVKAAEFLQNNGVESYMKYADAK 240
IGVRESYVNLCSNPEDKLQIYR++FEKAY+ +TE FY +A +LQ NGV++YMKYADAK
Sbjct: 178 IGVRESYVNLCSNPEDKLQIYRDNFEKAYLDSTERFYRTQAPSYLQQNGVQNYMKYADAK 237
Query: 241 LHEEELRACKYLESS---SSVQLLTDCCVTVLVSSFKNTILAECPKMIKMNETLKLELMM 297
L EEE RA +YLE+ +SV+ L +CCV LV+SFK TILAEC MIK NET KL LM
Sbjct: 238 LKEEEKRALRYLETRRECNSVEALMECCVNALVTSFKETILAECQGMIKRNETEKLHLMF 297
Query: 298 KLLDRIKDGITPMLQDLEAHIVNAGLADMIASADIITQDSEKYVERLLELFNQFSKLVKD 357
L+D++ +GI PML+DLE HI++AGLADM+A+A+ IT DSEKY E+L LFN+FSKLVK+
Sbjct: 298 SLMDKVPNGIEPMLKDLEEHIISAGLADMVAAAETITTDSEKYREQLDTLFNRFSKLVKE 357
Query: 358 AFKDDPRFLTARDKAYKNVVNDTTVFKLE 386
AF+DDPRFLTARDKAYK VVND T+FK E
Sbjct: 358 AFQDDPRFLTARDKAYKAVVNDATIFKAE 386
>4ap2_B Cullin-3, CUL-3; ubiquitination, E3 ligase, cell cycle; HET: EDO;
2.80A {Homo sapiens} PDB: 4apf_B
Length = 410
Score = 206 bits (524), Expect = 2e-59
Identities = 64/414 (15%), Positives = 155/414 (37%), Gaps = 49/414 (11%)
Query: 10 FEDKWPSMRPIVLKLLQQEPVSQNEWQNLFYAVHVVCLWDEKGPSKIVDALKEDIMNFIR 69
W ++ + ++ ++ + ++ L+ + + L K K+ L+E + +
Sbjct: 30 VNSIWDLLKNAIQEIQRKNNSGLS-FEELYRNAYTMVLH--KHGEKLYTGLREVVTEHLI 86
Query: 70 HAQQRVLAHEEDQALLKAYIQEWSKFLAQCSYLPTPFRQLETSLVNKSVSTSLTNNNNKQ 129
+ + + + + L+ Q W+ + ++ V ++ ++
Sbjct: 87 NKVREDVLNSLNNNFLQTLNQAWNDHQTAMVMIRDILMYMDRVYVQQNNVENVY------ 140
Query: 130 KISAEESTVRVLMLDSWNQSIFNDIKQRLQDSAMKLVQSERNGEAFDSQLVIGVRESYVN 189
L++ + I+ L+ + + ++ ER GE D + + +
Sbjct: 141 --------NLGLIIFRDQVVRYGCIRDHLRQTLLDMIARERKGEVVDRGAIRNACQMLMI 192
Query: 190 LCSNPEDKLQIYREHFEKAYIAATESFYTVKAAEFLQNNGVESYMKYADAKLHEEELRAC 249
L + +Y E FE ++ + F+ +++ +FL N Y+K +A+++EE R
Sbjct: 193 LG---LEGRSVYEEDFEAPFLEMSAEFFQMESQKFLAENSASVYIKKVEARINEEIERVM 249
Query: 250 KYLESSSSVQLLTDCCVTVLVSSFKNTIL----AECPKMIKMNETLKLELMMKLLDRIKD 305
S+ + + L+S TI+ + M+K +T L M KL R+ +
Sbjct: 250 HC-LDKSTEEPIVKVVERELISKHMKTIVEMENSGLVHMLKNGKTEDLGCMYKLFSRVPN 308
Query: 306 GITPMLQDLEAHIVNAGLADMIASADIITQDSEKYVERLLELFNQFSKLVKDAFKDDPRF 365
G+ M + + +++ G A + + ++ Y + L +L ++F + + ++F +D F
Sbjct: 309 GLKTMCECMSSYLREQGKALVSEEGE--GKNPVDYRQGLDDLKSRFDRFLLESFNNDRLF 366
Query: 366 LTARDKAYKNVVNDTTVFKLELPTKQCTGIKTLPESKCPELLANYC--DMLLRK 417
++ +N S+ PE LA
Sbjct: 367 KQTIAGDFEYFLNLN--------------------SRSPEYLAENLYFQSHHHH 400
>4eoz_B Cullin-3, CUL-3; E3 ubiquitin ligase, nucleus, protein binding;
2.40A {Homo sapiens} PDB: 4apf_B
Length = 364
Score = 197 bits (502), Expect = 8e-57
Identities = 61/376 (16%), Positives = 151/376 (40%), Gaps = 27/376 (7%)
Query: 7 TQTFEDKWPSMRPIVLKLLQQEPVSQNEWQNLFYAVHVVCLWDEKGPSKIVDALKEDIMN 66
+ W ++ + ++ ++ S ++ L+ + + L K K+ L+E +
Sbjct: 10 EKYVNSIWDLLKNAIQEIQRKNN-SGLSFEELYRNAYTMVLH--KHGEKLYTGLREVVTE 66
Query: 67 FIRHAQQRVLAHEEDQALLKAYIQEWSKFLAQCSYLPTPFRQLETSLVNKSVSTSLTNNN 126
+ + + + + + L+ Q W+ + ++ V ++ ++
Sbjct: 67 HLINKVREDVLNSLNNNFLQTLNQAWNDHQTAMVMIRDILMYMDRVYVQQNNVENVY--- 123
Query: 127 NKQKISAEESTVRVLMLDSWNQSIFNDIKQRLQDSAMKLVQSERNGEAFDSQLVIGVRES 186
L++ + I+ L+ + + ++ ER GE D + +
Sbjct: 124 -----------NLGLIIFRDQVVRYGCIRDHLRQTLLDMIARERKGEVVDRGAIRNACQM 172
Query: 187 YVNLCSNPEDKLQIYREHFEKAYIAATESFYTVKAAEFLQNNGVESYMKYADAKLHEEEL 246
+ L + +Y E FE ++ + F+ +++ +FL N Y+K +A+++EE
Sbjct: 173 LMILG---LEGRSVYEEDFEAPFLEMSAEFFQMESQKFLAENSASVYIKKVEARINEEIE 229
Query: 247 RACKYLESSSSVQLLTDCCVTVLVSSFKNTIL----AECPKMIKMNETLKLELMMKLLDR 302
R L+ S+ + L+S TI+ + M+K +T L M KL R
Sbjct: 230 RVMHCLDKSTEEP-IVKVVERELISKHMKTIVEMENSGLVHMLKNGKTEDLGCMYKLFSR 288
Query: 303 IKDGITPMLQDLEAHIVNAGLADMIASADIITQDSEKYVERLLELFNQFSKLVKDAFKDD 362
+ +G+ M + + +++ G A + + ++ Y + L +L ++F + + ++F +D
Sbjct: 289 VPNGLKTMCECMSSYLREQGKALVSEEGE--GKNPVDYRQGLDDLKSRFDRFLLESFNND 346
Query: 363 PRFLTARDKAYKNVVN 378
F ++ +N
Sbjct: 347 RLFKQTIAGDFEYFLN 362
>4a64_A Cullin-4B, CUL4B, CUL-4B; cell cycle; 2.57A {Homo sapiens}
Length = 354
Score = 184 bits (467), Expect = 5e-52
Identities = 69/371 (18%), Positives = 146/371 (39%), Gaps = 32/371 (8%)
Query: 10 FEDKWPSMRPIVLKLLQQEPVSQNEWQNLFYAVHVVCLWDEKGPSKIVDALKEDIMNFIR 69
++ W ++ V + + N + L+ AV +C + K + + L++ + I+
Sbjct: 10 TDETWQKLKEAVEAIQNSTSIKYN-LEELYQAVENLCSY--KISANLYKQLRQICEDHIK 66
Query: 70 HAQQRVLAH-EEDQALLKAYIQEWSKFLAQCSYLPTPFRQLETSLVNKSVSTSLTNNNNK 128
+ + LK + W Q + + F L+ + V + N+
Sbjct: 67 AQIHQFREDSLDSVLFLKKIDRCWQNHCRQMIMIRSIFLFLDRTYVLQ--------NSML 118
Query: 129 QKISAEESTVRVLMLDSWNQSIFNDIKQRLQDSAMKLVQSERNGEAFDSQLVIGVRESYV 188
I L L + ++ + D + L++ ERNGEA D L+ +
Sbjct: 119 PSIW-----DMGLELFRAHIISDQKVQNKTIDGILLLIERERNGEAIDRSLLRSLLSMLS 173
Query: 189 NLCSNPEDKLQIYREHFEKAYIAATESFYTVKAAEFLQNNGVESYMKYADAKLHEEELRA 248
+L QIY++ FE+ ++ T Y + + +Q V Y+ + + +L EE R
Sbjct: 174 DL--------QIYQDSFEQRFLEETNRLYAAEGQKLMQEREVPEYLHHVNKRLEEEADRL 225
Query: 249 CKYLESSSSVQLLTDCCVTVLVSSFKNTILAE-CPKMIKMNETLKLELMMKLLDRIKDGI 307
YL ++ + L L+ IL + ++ N L L+ +L R++ G+
Sbjct: 226 ITYL-DQTTQKSLIATVEKQLLGEHLTAILQKGLNNLLDENRIQDLSLLYQLFSRVRGGV 284
Query: 308 TPMLQDLEAHIVNAGLADMIASADIITQDSEKYVERLLELFNQFSKLVKDAFKDDPRFLT 367
+LQ +I G +I + + + L + ++ ++ F + +F+
Sbjct: 285 QVLLQQWIEYIKAFGSTIVIN-----PEKDKTMRQELDDFKDKVDHIIDICFLKNEKFIN 339
Query: 368 ARDKAYKNVVN 378
A +A++ +N
Sbjct: 340 AMKEAFETFIN 350
>1iuy_A Cullin-3 homologue; winged helix, structural genomics, riken
structural genomics/proteomics initiative, RSGI, unknown
function; NMR {Mus musculus} SCOP: a.4.5.34
Length = 92
Score = 103 bits (257), Expect = 1e-26
Identities = 30/92 (32%), Positives = 55/92 (59%)
Query: 687 IGRLQLSTEKSKEEDNESIVQLRILRVQEAIIKILKMRKRISNAQLQTELVDILKNMFLP 746
+ Q ++ ++E + + R ++ AI++I+K RK++ + L E+ LK FLP
Sbjct: 1 MAAKQGESDPERKETRQKVDDDRKHEIEAAIVRIMKSRKKMQHNVLVAEVTQQLKARFLP 60
Query: 747 SKKMIKEQIEWLIEQKYMRRDDDDINVFVYLA 778
S +IK++IE LIE++Y+ R +D V+ Y+A
Sbjct: 61 SPVVIKKRIEGLIEREYLARTPEDRKVYTYVA 92
>3tdu_C Cullin-1, CUL-1; E2:E3, ligase-protein binding complex; 1.50A {Homo
sapiens} PDB: 3tdz_C
Length = 77
Score = 92.6 bits (230), Expect = 4e-23
Identities = 29/75 (38%), Positives = 49/75 (65%)
Query: 704 SIVQLRILRVQEAIIKILKMRKRISNAQLQTELVDILKNMFLPSKKMIKEQIEWLIEQKY 763
+I + R L +Q AI++I+KMRK + + QL E++ L + F P +IK+ I+ LIE++Y
Sbjct: 3 NIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEY 62
Query: 764 MRRDDDDINVFVYLA 778
+ R D + + + YLA
Sbjct: 63 LERVDGEKDTYSYLA 77
>3o2p_E Cell division control protein 53; ligase, cell cycle; 2.23A
{Saccharomyces cerevisiae} PDB: 3o6b_B
Length = 88
Score = 89.6 bits (222), Expect = 7e-22
Identities = 20/85 (23%), Positives = 40/85 (47%), Gaps = 1/85 (1%)
Query: 694 TEKSKEEDNESIVQLRILRVQEAIIKILKMRKRISNAQLQTELVDILKNMFLPSKKMIKE 753
E + + R + ++ I++I+K ++ + + L E + F M+K
Sbjct: 5 RLTEDERIEKELNTERQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMVKR 64
Query: 754 QIEWLIEQKYMRRDDDDINVFVYLA 778
I+ LI++ Y++R DD + YLA
Sbjct: 65 AIDSLIQKGYLQR-GDDGESYAYLA 88
>2do7_A Cullin-4B, CUL-4B; helix-turn-helix motif, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 101
Score = 89.6 bits (222), Expect = 1e-21
Identities = 29/85 (34%), Positives = 51/85 (60%), Gaps = 2/85 (2%)
Query: 694 TEKSKEEDNESIVQLRILRVQEAIIKILKMRKRISNAQLQTELVDILKNMFLPSKKMIKE 753
T + + E + Q R ++ AI++I+KMRK +S+ L +E+ + LK F +K+
Sbjct: 13 TVEEQASTTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLK--FPVKPADLKK 70
Query: 754 QIEWLIEQKYMRRDDDDINVFVYLA 778
+IE LI++ YM RD ++ N + Y+A
Sbjct: 71 RIESLIDRDYMERDKENPNQYNYIA 95
>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 = 90.7 bits (224), Expect = 1e-18
Identities = 113/695 (16%), Positives = 211/695 (30%), Gaps = 176/695 (25%)
Query: 57 VDALKEDI-MNFIRHAQQRVLAHEEDQALLKAYIQEWSKFLAQCSYLPTPFRQLETSLVN 115
DA ++ ++ + +L+ EE ++ + ++ L + +V
Sbjct: 26 EDAFVDNFDCKDVQDMPKSILSKEEIDHIIMS-----KDAVSGTLRLFWTLLSKQEEMVQ 80
Query: 116 KSVSTSLTNNNN--KQKISAEESTVRVLMLDSWNQSIFNDIKQRLQDSAMKLVQSERNGE 173
K V L N I E+ S ++ + + RL + + +
Sbjct: 81 KFVEEVLRINYKFLMSPIKTEQRQ------PSMMTRMYIEQRDRLYNDNQVFAKYNVSRL 134
Query: 174 AFDSQLVIGVRESYVNLCSNPEDKLQIYREH----FEKAYIAATESFYTVKAAEFLQNNG 229
Q + +R++ + L P + I K T A + +
Sbjct: 135 ----QPYLKLRQALLEL--RPAKNVLI---DGVLGSGK----------TWVALDVCLSYK 175
Query: 230 VESYMKYADAKLHEEELRACKYLESSSSVQLLTDCCVTVLVSSFKNTILAECPKMIKMNE 289
V+ M D K+ +L L +C V ++M +
Sbjct: 176 VQCKM---DFKIF--------WLN-------LKNCNSPETV--------------LEMLQ 203
Query: 290 TLKLELMMKLLDRIKDGITPMLQDLEAHIVNAGLADMIASADIITQDSEKYVERLLELFN 349
L ++ R L H + A L ++ S+ Y LL L N
Sbjct: 204 KLLYQIDPNWTSRSDHSSNI---KLRIHSIQAELRRLLK--------SKPYENCLLVLLN 252
Query: 350 QFSKLVKDAFKDDPRFL-TARDKAYKNVVNDTTVFKLELP------TK--------QCTG 394
+ +AF + L T R K + ++ T + L T +
Sbjct: 253 VQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLD 312
Query: 395 IKT--LPESKC---PELL----ANYCDMLLRKTPLSKRLTADEIESKLRNVLLVLKYVQN 445
+ LP P L + D L K + D++ + + + L VL+ +
Sbjct: 313 CRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNW-KHVNCDKLTTIIESSLNVLEPAEY 371
Query: 446 KDVFMR---FHK-AHLTRRL--ILDTSADSEKEENMVEWLRDVGM----PADYVNKLARM 495
+ +F R F AH+ L ++ +V L + P + + +
Sbjct: 372 RKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSI 431
Query: 496 FQDIKVSQDLNYQFKQSYRGSKGSIGDSINIKILNAGAWARGSERVTVSLPLELEDYIPE 555
+ ++KV + Y ++ I+ + + + +D IP
Sbjct: 432 YLELKVKLENEYA---------------LHRSIV---------DHYNIPKTFDSDDLIPP 467
Query: 556 VEDFYKKKHSGRKLQWYHHMSNGTITFSNEVGKYDLDVTTFQMAVL-FAWNERPLDRLSF 614
D Y H G HH+ N + L F+M L F + E+ + R
Sbjct: 468 YLDQYFYSHIG------HHLKN-----IEHPERMTL----FRMVFLDFRFLEQKI-RHDS 511
Query: 615 ENLLLATELPDPELRRTLWSLVAFPK-IKRQILLYSEEVQSPKDFTEHTSFWINQEFALV 673
+ + + TL L + I Y V + DF L
Sbjct: 512 TAWNASGSILN-----TLQQLKFYKPYICDNDPKYERLVNAILDF-------------LP 553
Query: 674 KMGKILKRGKINLIGRLQLSTEKSK-EEDNESIVQ 707
K+ + L K + R+ L E E+ VQ
Sbjct: 554 KIEENLICSKYTDLLRIALMAEDEAIFEEAHKQVQ 588
Score = 65.3 bits (158), Expect = 6e-11
Identities = 91/609 (14%), Positives = 172/609 (28%), Gaps = 197/609 (32%)
Query: 270 VSSFKNTIL--AECPKMIKM--NETLKLELMMKLLDRIKDGITPMLQDLEAHIVNAG-LA 324
V +IL E +I + L L LL + ++ + ++++ +N L
Sbjct: 38 VQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLR--INYKFLM 95
Query: 325 DMIASADIITQ-DSEKYVERLLELFNQFSKLVKDAFKDDPRFLTARDKAYK--------- 374
I + + Y+E+ L+N K +L R +
Sbjct: 96 SPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLI 155
Query: 375 -------------NVVNDTT--------VFKLELPTKQCTGIKTLPE---SKCPELLANY 410
+V +F L L K C +T+ E ++ N+
Sbjct: 156 DGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNL--KNCNSPETVLEMLQKLLYQIDPNW 213
Query: 411 CDMLLRKTPLSKRLTADEIESKLR---------NVLLVLKYVQNKDVFMRFHKAHLTRRL 461
+ + +L I+++LR N LLVL VQN + F +L+ ++
Sbjct: 214 TSRSDHSSNI--KLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAF---NLSCKI 268
Query: 462 ILDTSADSEKEENMVEWLRDVGMPADYVNKLARMFQDIKVSQDLNYQFKQSYRGSKGSIG 521
+L T R + D+++ + K +
Sbjct: 269 LLTT--------------RFKQV-TDFLSAATTT---HISLDHHSMTLTPDE--VKSLLL 308
Query: 522 DSINIKILNAGAWARGSERVTVSLPLELEDYIPEVEDFYKKKHS--GRKLQWYHHMSNGT 579
++ + LP E+ P S ++ +G
Sbjct: 309 KYLDCRPQ--------------DLPREVLTTNPRR-------LSIIAESIR------DGL 341
Query: 580 ITFSNEVGKYDLDVTTFQMAVLFAWNERPLDRL------SFENLLLATELPDP-ELRRTL 632
T+ N W D+L S L +P E R+
Sbjct: 342 ATWDN-------------------WKHVNCDKLTTIIESSLNVL-------EPAEYRKMF 375
Query: 633 WSLVAFP---KIKRQIL--LYSE-EVQSPKDFTEHTSFWINQEFALVKMGKILKRGKINL 686
L FP I +L ++ + L K + K+ K +
Sbjct: 376 DRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNK----------LHKYSLVEKQPKEST 425
Query: 687 IGRLQLSTEKSKEEDNESIVQLRILRVQEAIIKILKMRKRI----------------SNA 730
I + E + +NE + I+ I K I N
Sbjct: 426 ISIPSIYLELKVKLENEYALHRSIVD-HYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNI 484
Query: 731 QLQTELVDILKNMFLP----SKKMIKEQIEW--------LIEQ-----KYMRRDD----- 768
+ E + + + +FL +K+ + W ++Q Y+ +D
Sbjct: 485 E-HPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYER 543
Query: 769 --DDINVFV 775
+ I F+
Sbjct: 544 LVNAILDFL 552
Score = 50.2 bits (119), Expect = 3e-06
Identities = 60/457 (13%), Positives = 136/457 (29%), Gaps = 153/457 (33%)
Query: 2 LKDKGTQT-FEDK--WPSMRPI-----VLKLLQQ------------------EPVSQNEW 35
Q + K W +++ VL++LQ+ + +
Sbjct: 171 CLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSI 230
Query: 36 QN-----LFYAVHVVCL------WDEKGPSKIVDALK-----------EDIMNFIRHAQQ 73
Q L + CL + +K +A + + +F+ A
Sbjct: 231 QAELRRLLKSKPYENCLLVLLNVQN----AKAWNAFNLSCKILLTTRFKQVTDFLSAATT 286
Query: 74 RV---------LAHEEDQALLKAYIQEWSKFLAQ--CSYLP-----------------TP 105
L +E ++LL Y+ + L + + P
Sbjct: 287 THISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDN 346
Query: 106 FRQLETSLVNKSVSTSLTN---NNNKQ------------KISAEESTVRVLMLDSWNQSI 150
++ + + + +SL ++ I +L L W I
Sbjct: 347 WKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTI-----LLSL-IWFDVI 400
Query: 151 FNDIKQRLQDSAMK-LVQSERNGEAF---DSQLVI------------GVRESY-VNLCSN 193
+D+ + LV+ + L + + + Y + +
Sbjct: 401 KSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFD 460
Query: 194 PEDKLQIYREHFEKAYIAATESFYTVKAAEFLQNNGVESYMKYADAKLHEEELRACKYL- 252
+D + Y + + ++I + +K E + + M + D + E+++R
Sbjct: 461 SDDLIPPYLDQYFYSHIG-----HHLKNIEHPERMTLFR-MVFLDFRFLEQKIRHDSTAW 514
Query: 253 -ESSSSVQLLTDCCVTVLVSSFKNTILAECPKMIKMNETLKLELMMKLLDRIKDGITPML 311
S S + L + +K I PK +R+ + I L
Sbjct: 515 NASGSILNTLQQ------LKFYKPYICDNDPK----------------YERLVNAILDFL 552
Query: 312 QDLEAHIVNAGLADMIASA-----DIITQDSEKYVER 343
+E +++ + D++ A + I +++ K V+R
Sbjct: 553 PKIEENLICSKYTDLLRIALMAEDEAIFEEAHKQVQR 589
>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 = 82.0 bits (202), Expect = 4e-16
Identities = 108/589 (18%), Positives = 177/589 (30%), Gaps = 192/589 (32%)
Query: 202 REHFEKAYIAATESFYTVKAAEFLQNNGVESYMKYADAKLHEEELRACKYL-----ESSS 256
+E F K TE F AA+ D EL K+L
Sbjct: 34 QEQFNKILPEPTEGF----AAD--------------DEPTTPAELVG-KFLGYVSSLVEP 74
Query: 257 SVQLLTDCCVTVLVSSFKNTIL---------AECP-----KMIKMNETLK--LELMMKLL 300
S D + + ++ F+N L A+ ++K E +K + +
Sbjct: 75 SKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAK 134
Query: 301 DRIKDGITPMLQDLEAHIVNAGLADMIASADIITQ-----DSEKYVERLLELFNQFSKLV 355
L A V G +A ++ +++ Y E L +L+ + LV
Sbjct: 135 RPFDKKSNSAL--FRA--VGEG------NAQLVAIFGGQGNTDDYFEELRDLYQTYHVLV 184
Query: 356 KDAFKDDPRFL-------TARDKAYKNVVNDTTVFK-LELPTKQ--CTGIKTLPESKCPE 405
D K L +K + +N + + LE P+ + ++P S CP
Sbjct: 185 GDLIKFSAETLSELIRTTLDAEKVFTQGLN---ILEWLENPSNTPDKDYLLSIPIS-CPL 240
Query: 406 L----LANYCDML--LRKTP--LSKRL-----------------TADEIESKLRNVLLVL 440
+ LA+Y L TP L L D ES +V +
Sbjct: 241 IGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAI 300
Query: 441 KYVQNKDVF---MRFHKAHLTRRLILDTSADSEKEEN-----MVEWLRDVGMPADYVNKL 492
+F +R ++A+ L DS + M L + + V
Sbjct: 301 TV-----LFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPM---LSISNLTQEQVQDY 352
Query: 493 ARMFQDIKVSQDLNYQFKQSYRGSKGSIGDSINIKILNAGAWARGSERVTVS-------- 544
N + I ++N G++ + VS
Sbjct: 353 VNKT---------NSHLPAG---------KQVEISLVN------GAKNLVVSGPPQSLYG 388
Query: 545 LPLELEDY-IPEVEDFYKKKHSGRKLQWYHHMSNGTITFSNEVGKYDLDVTT-FQMAVLF 602
L L L P D + S RKL FSN L V + F +L
Sbjct: 389 LNLTLRKAKAPSGLDQSRIPFSERKL-----------KFSNRF----LPVASPFHSHLLV 433
Query: 603 AWNERPLDRLSFENLLL-ATEL--P--DPE----LRRTLWSLVAFPKIKRQILLYSEEVQ 653
++ L N+ A ++ P D LR S+ +I I ++
Sbjct: 434 PASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSIS--ERIVDCI------IR 485
Query: 654 SPKDFTEHTSF---WINQEFALVKMGKILKRGKINLIGRLQLSTEKSKE 699
P + T F I + G G + +G L T ++K+
Sbjct: 486 LPVKWETTTQFKATHI------LDFG----PGGASGLGVL---THRNKD 521
Score = 76.2 bits (187), Expect = 2e-14
Identities = 106/594 (17%), Positives = 184/594 (30%), Gaps = 204/594 (34%)
Query: 16 SMRPIVLKLLQQE---PVSQNEWQNLFYAVHVVCLWDE--KGPSKIVDALKED------- 63
S RP+ L E V + F A L ++ K + + D
Sbjct: 5 STRPLTLSHGSLEHVLLVPTASF---FIASQ---LQEQFNKILPEPTEGFAADDEPTTPA 58
Query: 64 --IMNFIRHAQQRVLAHEEDQ--ALLKAYIQEWSKFLAQCSYLPTPFRQLET-SLVNKSV 118
+ F+ + V + Q +L + E F + YL + +L K +
Sbjct: 59 ELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTE---F--ENCYL----EGNDIHALAAKLL 109
Query: 119 STSLTNNNNKQKI-----SAEESTVRVLMLDSWNQSIFNDIKQRLQDSAMKLVQSERNGE 173
+ T +++ +A R + +SA L ++ G
Sbjct: 110 QENDTTLVKTKELIKNYITARIMAKRPF--------------DKKSNSA--LFRAVGEGN 153
Query: 174 A-----FDSQLVIGVRESYVNLCSNPEDKLQ-IYREHFEKAYIAATESFYTVKAAEFLQN 227
A F Q G + Y ++L+ +Y + Y +AE L
Sbjct: 154 AQLVAIFGGQ---GNTDDYF-------EELRDLY-----QTYHVLVGDLIKF-SAETLSE 197
Query: 228 NGVESYMKYADAKLHEEELRACKYLESSSS---VQLLTDCCVTVLVSSFKNTILAECPKM 284
K+ + L ++LE+ S+ L +++ +S CP +
Sbjct: 198 ---LIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYL----LSIPIS---------CP-L 240
Query: 285 IKMNETLKLELMMKLLDRIKDGITPMLQDLEAHI-----VNAGL--ADMIASADIITQDS 337
I + + + KLL G TP +L +++ + GL A IA D + +S
Sbjct: 241 IGVIQLAHYVVTAKLL-----GFTP--GELRSYLKGATGHSQGLVTAVAIAETD--SWES 291
Query: 338 -----EKYVERLL-------ELFNQFS---KLVKDAFKDD---PRF-LTARDKAYKNVVN 378
K + L E + S +++D+ +++ P L+ + + V +
Sbjct: 292 FFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQD 351
Query: 379 DTTVFKLELPTKQ--------------CTGIKTLPESKCPELLANYCDMLLRK------- 417
LP + +G P+S L + LRK
Sbjct: 352 YVNKTNSHLPAGKQVEISLVNGAKNLVVSG---PPQS-----LYGLN-LTLRKAKAPSGL 402
Query: 418 ----TPLSKRLTADEIESKLRNVLLVLKYVQNKDVFMRFHKAHLT--RRLILDTSADSEK 471
P S+R KL+ L V FH L LI D K
Sbjct: 403 DQSRIPFSER--------KLKFSNRFLP------VASPFHSHLLVPASDLINK---DLVK 445
Query: 472 EENMVEWL-RDVGMPADYVNKLARMFQDIKVSQDLNYQFKQSYRGSKGSIGDSI 524
V + +D+ +P V + D DL R GSI + I
Sbjct: 446 NN--VSFNAKDIQIP---V------Y-DTFDGSDL--------RVLSGSISERI 479
Score = 69.3 bits (169), Expect = 4e-12
Identities = 80/482 (16%), Positives = 149/482 (30%), Gaps = 135/482 (28%)
Query: 7 TQTFEDKWPSMRPIVLKLL----QQEPVSQNEWQNLFYAVHVVCLWDEKGPSKIVDALKE 62
+ E VL L + + N+ +H + + + KE
Sbjct: 69 SSLVEPSKVGQFDQVLNLCLTEFENCYLEGND-------IHALAAKLLQENDTTLVKTKE 121
Query: 63 DIMNFI--RHAQQRVLAHEEDQALLKAYIQEWSKFLAQC-------SYLP------TPFR 107
I N+I R +R + + AL +A + ++ +A Y +
Sbjct: 122 LIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYH 181
Query: 108 QLETSLVNKSVSTSLTNNNNKQKISAEESTVRVLMLDSWNQSIFNDIKQRLQDSAMKLVQ 167
L L+ K + +L ++ + + Q + +I + L++ +
Sbjct: 182 VLVGDLI-KFSAETL------SELIRTTLDAEKV----FTQGL--NILEWLENPS----- 223
Query: 168 SERNGEAFDSQLV----IGVRE--SYVNLCS----NPEDKLQIYREHFE------KAYIA 211
+ + + S + IGV + YV P + R + + + +
Sbjct: 224 NTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGE----LRSYLKGATGHSQGLVT 279
Query: 212 AT--------ESFY--TVKAAEFLQNNGVESYMKYADAKLHEEELRACKYLESSS----- 256
A ESF+ KA L GV Y Y + L L
Sbjct: 280 AVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPML 339
Query: 257 SVQLLTDCCVTVLVSSFKNTILAECPKMIKMNETLKLELMMKLLDRIKDG-----IT--P 309
S+ LT V V+ N+ L + +++ L +G ++ P
Sbjct: 340 SISNLTQEQVQDYVNKT-NSHLPA-------GKQVEISL--------VNGAKNLVVSGPP 383
Query: 310 MLQDLEAHIVNAGLADMIASADIITQDSEKYVERLLELFNQF--------SKLVKDAFKD 361
Q L +N L A + + Q + ER L+ N+F S L+
Sbjct: 384 --QSLYG--LNLTLRKAKAPSG-LDQSRIPFSERKLKFSNRFLPVASPFHSHLLVP---- 434
Query: 362 DPRFLTARDKAYKNVVNDTTVFK---LELP---TKQCTGIKTLPESKCPELLANYCDMLL 415
A D K++V + F +++P T G L + D ++
Sbjct: 435 ------ASDLINKDLVKNNVSFNAKDIQIPVYDTF--DG-SDLRVLS-GSISERIVDCII 484
Query: 416 RK 417
R
Sbjct: 485 RL 486
Score = 50.0 bits (119), Expect = 3e-06
Identities = 56/288 (19%), Positives = 91/288 (31%), Gaps = 91/288 (31%)
Query: 482 VGMPAD-YVN-KLAR-MFQDIKVSQDLNYQFKQSYRGSKGSIGDSI-----NIKILNAGA 533
GM D Y K A+ ++ Y F SI D + N+ I G
Sbjct: 1629 QGMGMDLYKTSKAAQDVWNRADNHFKDTYGF---------SILDIVINNPVNLTIHFGGE 1679
Query: 534 WARGSERVTVSLPLELEDYIP-EVEDFYKKKHSGRKLQWYHHMSNGTITFSNEVGKYDLD 592
+R+ E+Y E K K+ + + + TF +E G L
Sbjct: 1680 ---KGKRIR-------ENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGL--LS 1727
Query: 593 VTTF-Q-------MAVLFAWNER---PLDR-------------------LSFENL----- 617
T F Q A + P D +S E+L
Sbjct: 1728 ATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVF 1787
Query: 618 ----LLATELPDPELRRTLWSLVAFPKIKRQILLYSEEVQSPKDFTEHTSFWI------- 666
+ +P EL R+ + ++A + E +Q + + W+
Sbjct: 1788 YRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYN 1847
Query: 667 --NQEF-------ALVKMGKIL---KRGKINLIGRLQ--LSTEKSKEE 700
NQ++ AL + +L K KI++I LQ LS E+ +
Sbjct: 1848 VENQQYVAAGDLRALDTVTNVLNFIKLQKIDII-ELQKSLSLEEVEGH 1894
Score = 49.7 bits (118), Expect = 4e-06
Identities = 47/275 (17%), Positives = 85/275 (30%), Gaps = 89/275 (32%)
Query: 558 DFYKKKHSGRKLQW----YHHMSN-G--------------TITFSNEVGKY---DLDVTT 595
D YK + + + W H G TI F E GK +
Sbjct: 1634 DLYKTSKAAQDV-WNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMI 1692
Query: 596 FQMAVLFAWNERPLDRLSFENLLLAT-ELPDPELRRT--------LWSLVAFPKIKRQIL 646
F+ V + + E+ T L T L AF +K + L
Sbjct: 1693 FETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGL 1752
Query: 647 LYSEEVQSPKDFTEHTS--FWINQEF-ALVKMGKIL----------KRGKINLIGRLQLS 693
+ + F H S E+ AL + ++ RG +Q++
Sbjct: 1753 -----IPADATFAGH-SLG-----EYAALASLADVMSIESLVEVVFYRGMT-----MQVA 1796
Query: 694 TEKSKE-EDNESIVQLRILRV-----QEAIIKILKMRKR------------ISNAQ---- 731
+ + N ++ + RV QEA+ +++ + + N Q
Sbjct: 1797 VPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAA 1856
Query: 732 -----LQTELVDILKNMFLPSKKMIKEQIEWLIEQ 761
L T + ++L + L +I+ Q +E+
Sbjct: 1857 GDLRALDT-VTNVLNFIKLQKIDIIELQKSLSLEE 1890
Score = 48.9 bits (116), Expect = 6e-06
Identities = 67/359 (18%), Positives = 106/359 (29%), Gaps = 142/359 (39%)
Query: 12 DKWPSMRPIVLKLLQQEPVSQNEWQNLFY-------AVHVVCLWDEKGPSKIVDALKEDI 64
D W S V K + LF+ A L PS + D+L+ +
Sbjct: 287 DSWESFFVSVRKAI--------TV--LFFIGVRCYEAYPNTSLP----PSILEDSLENNE 332
Query: 65 -----MNFIRHAQQRVLAHEEDQALLKAYIQEWSKFLAQCSYLPTPFRQLETSLVNKS-- 117
M I + Q ++ Y+ + S+LP +Q+E SLVN +
Sbjct: 333 GVPSPMLSISNL---------TQEQVQDYVNK------TNSHLPAG-KQVEISLVNGAKN 376
Query: 118 --VS---TSLTN-NNNKQKISAEESTVRVLMLDSWNQSIFNDIKQRLQDSAMKLVQSERN 171
VS SL N +K A +QS R+ S KL S R
Sbjct: 377 LVVSGPPQSLYGLNLTLRKAKAPSGL---------DQS-------RIPFSERKLKFSNR- 419
Query: 172 GEAFDSQLVIGVRESYVNLCSNPEDKLQIYREHFEKAYIAATESFYTVKAAEFLQNNGVE 231
F L + P + H S V A++ + + V+
Sbjct: 420 ---F---LPVAS----------P------F--H----------SHLLVPASDLINKDLVK 445
Query: 232 SYMKYADAKLHE--------EELRACKYLESSSSVQLLTDCCVTVLVSSFKNTILAEC-- 281
+ + + + +LR S S + + DC I+
Sbjct: 446 NNVSFNAKDIQIPVYDTFDGSDLRV----LSGSISERIVDC------------IIRLPVK 489
Query: 282 -PKMIKMNETLKLEL-------MMKLLDRIKDGITPMLQDLEAHIVNAGLADMIASADI 332
+ T L+ + L R KDG ++ AG D+ D
Sbjct: 490 WETTTQFKATHILDFGPGGASGLGVLTHRNKDG-------TGVRVIVAGTLDINPDDDY 541
>2q88_A EHUB, putative ABC transporter amino acid-binding prote;
substrate-binding protein, compatible solues,
ABC-transporte osmoprotection; HET: 4CS; 1.90A
{Sinorhizobium meliloti} PDB: 2q89_A*
Length = 257
Score = 32.7 bits (75), Expect = 0.40
Identities = 13/82 (15%), Positives = 29/82 (35%), Gaps = 1/82 (1%)
Query: 305 DGITPMLQDLEAHIVNAGLADMIASADIITQDSEKYVERLLELFNQFSKLVKDAF-KDDP 363
L+ L+ ++ +++ D++++ ++ VE L + AF K D
Sbjct: 153 PDGQSGLKMLQDGRIDVYSLPVLSINDLVSKANDPNVEVLAPVEGAPVYCDGAAFRKGDE 212
Query: 364 RFLTARDKAYKNVVNDTTVFKL 385
A D + K+
Sbjct: 213 ALRDAFDVELAKLKESGEFAKI 234
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 32.5 bits (74), Expect = 0.63
Identities = 15/57 (26%), Positives = 24/57 (42%), Gaps = 17/57 (29%)
Query: 516 SKGSIGDSINIKILNAGAWARGSERV--TVSLPLELEDYIPEVEDFYKK---KHSGR 567
KGSIG + +L GA +V T S + +V D+Y+ K+ +
Sbjct: 485 GKGSIGAEVLQGLLQGGA------KVVVTTS------RFSKQVTDYYQSIYAKYGAK 529
>4eq9_A ABC transporter substrate-binding protein-amino A transport;
structural genomics, niaid; HET: GSH; 1.40A
{Streptococcus pneumoniae}
Length = 246
Score = 31.1 bits (71), Expect = 0.98
Identities = 12/81 (14%), Positives = 26/81 (32%)
Query: 305 DGITPMLQDLEAHIVNAGLADMIASADIITQDSEKYVERLLELFNQFSKLVKDAFKDDPR 364
++ L + + D I +I ++ + +Q + +
Sbjct: 149 ADFQQIMVRLSDGQFDYKIFDKIGVETVIKNQGLDNLKVIELPSDQQPYVYPLLAQGQDE 208
Query: 365 FLTARDKAYKNVVNDTTVFKL 385
+ DK K + D T+ KL
Sbjct: 209 LKSFVDKRIKELYKDGTLEKL 229
>3dcl_A TM1086; SAD, structural genomics, PSI-2, protein structure
initiative, midwest center for structural genomics,
MCSG, U function; 2.25A {Thermotoga maritima} PDB:
3n99_A
Length = 284
Score = 29.8 bits (67), Expect = 3.1
Identities = 16/68 (23%), Positives = 34/68 (50%), Gaps = 7/68 (10%)
Query: 278 LAECPKMIKMNETLKLELMMKLLDRIKDG--ITPMLQDLEAHIVNAGLADMIASA---DI 332
L + P + MN + +L KL + K+G P++ + AH++ +G+ +++ DI
Sbjct: 143 LLDHPDVKVMN--IDPDLFEKLGIQEKNGKIHVPVVAKIPAHMMGSGIGASSSASTDYDI 200
Query: 333 ITQDSEKY 340
+ + E
Sbjct: 201 MASNPEDL 208
>3tql_A Arginine-binding protein; transport and binding proteins, transport
protein; HET: MSE ARG; 1.59A {Coxiella burnetii}
Length = 227
Score = 29.1 bits (66), Expect = 4.7
Identities = 14/85 (16%), Positives = 28/85 (32%), Gaps = 4/85 (4%)
Query: 305 DGITPMLQDLEAHIVNAGLADMIASADIITQDSEKYVERLLELFNQFSKLVKD---AF-K 360
L DL + V+A + D + Q+ + + + N + K A K
Sbjct: 138 PSEEDALMDLTSGRVDAVVGDTPLIKQWLKQNGRREYVLIGKPVNDPNYFGKGVGIAVKK 197
Query: 361 DDPRFLTARDKAYKNVVNDTTVFKL 385
+ L +KA + + +
Sbjct: 198 GNQALLLKLNKALAAIKANGVYAAI 222
>4f9k_A CAMP-dependent protein kinase type I-beta regulat subunit;
structural genomics, PSI-biology; 2.80A {Homo sapiens}
PDB: 2ezw_A 3im3_A 3im4_A
Length = 95
Score = 27.4 bits (60), Expect = 6.4
Identities = 12/26 (46%), Positives = 18/26 (69%), Gaps = 1/26 (3%)
Query: 183 VRESYVNLC-SNPEDKLQIYREHFEK 207
+++ V+LC S PE ++ REHFEK
Sbjct: 53 LKDCIVHLCISKPERPMKFLREHFEK 78
>3i6v_A Periplasmic His/Glu/Gln/Arg/opine family-binding; structural
genomics, transporter, PSI-2, protein structure
initiative; HET: LYS; 2.00A {Silicibacter pomeroyi}
Length = 232
Score = 28.3 bits (64), Expect = 8.1
Identities = 10/82 (12%), Positives = 24/82 (29%), Gaps = 3/82 (3%)
Query: 305 DGITPMLQDLEAHIVNAGLADMIASADIITQDSEKYVERLLELFNQFSKLVKDAF-KDDP 363
+ + +A AD I+ + + + ++ V + D
Sbjct: 132 ATPEETIAAVRNGEADAVFADRDYLVPIVAESGGELMFVGDDVP--LGGGVGMGLRESDG 189
Query: 364 RFLTARDKAYKNVVNDTTVFKL 385
D A ++ D T+ +
Sbjct: 190 ELRGKFDAAITSMKEDGTLNTM 211
>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding
motif, ATP- binding, nucleotide-binding, transferase;
HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB:
3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*
Length = 260
Score = 28.3 bits (63), Expect = 8.8
Identities = 12/45 (26%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 696 KSKEEDNESIVQLRILRVQEAIIKILKMRKRISNAQLQTELVDIL 740
KSK+ D + I ++ LR + +K +K + + ++ E D+L
Sbjct: 207 KSKKLDKDKIKEVVELRKE--FLKKIKKMEEVDADRVLKEFKDLL 249
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
0.318 0.133 0.380
Gapped
Lambda K H
0.267 0.0517 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 11,633,472
Number of extensions: 703185
Number of successful extensions: 1889
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1819
Number of HSP's successfully gapped: 44
Length of query: 778
Length of database: 6,701,793
Length adjustment: 101
Effective length of query: 677
Effective length of database: 3,881,772
Effective search space: 2627959644
Effective search space used: 2627959644
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 61 (27.8 bits)