RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16234
(609 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 = 491 bits (1264), Expect = e-166
Identities = 234/554 (42%), Positives = 331/554 (59%), Gaps = 17/554 (3%)
Query: 69 LYVDIFETQFLEMSGEWYKSEASKLLQTCNVSQYMERVLQVLHEETNRSVRFLHVSSYPK 128
+Y + FE+QFL + +Y E+++ LQ V++YM++ L EE R +LH S+ +
Sbjct: 211 VYKESFESQFLADTERFYTRESTEFLQQNPVTEYMKKAEARLLEEQRRVQVYLHESTQDE 270
Query: 129 VKAKCEQHMVADHLNFLQGECVPMVAEERRHDLANMYPLLRSVREGINILIDAVRDHICK 188
+ KCEQ ++ HL E ++ ++ DL MY L+ +++G+ L + HI
Sbjct: 271 LARKCEQVLIEKHLEIFHTEFQNLLDADKNEDLGRMYNLVSRIQDGLGELKKLLETHIHN 330
Query: 189 QGLEAISGLS--GDNISTQFVENMLAVHKKYKAFVKELFSGDQSFMGALDKACSSVINHK 246
QGL AI N +V+ +L VHKKY A V F+ D F+ ALDKAC IN+
Sbjct: 331 QGLAAIEKCGEAALNDPKMYVQTVLDVHKKYNALVMSAFNNDAGFVAALDKACGRFINNN 390
Query: 247 FD---PKMPSKSPEYLAKYCDMLLKKSSKGLSESEMDDKLSQSITVFKYIDDKDVFHKFY 303
+ SKSPE LA+YCD LLKKSSK E+E++D L+Q + VFKYI+DKDVF KFY
Sbjct: 391 AVTKMAQSSSKSPELLARYCDSLLKKSSKNPEEAELEDTLNQVMVVFKYIEDKDVFQKFY 450
Query: 304 AKMLAKRLIHQQSTSMDGEEAMINKLKQACGYEFTNKFHRMLTDIKISGGLNEKFHSEFV 363
AKMLAKRL+HQ S S D E +MI+KLKQACG+E+T+K RM DI +S LNE+F
Sbjct: 451 AKMLAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLT 510
Query: 364 KTNEIDLGIHFSINILQAGSWPLGPTVISSFSVPQELEKCIHMFEKFYHGQFNGRKLSWL 423
+ + + FSI +L +GSWP + +F++P ELE+ F FY + +GRKL+WL
Sbjct: 511 NSEPL--DLDFSIQVLSSGSWPFQQS--CTFALPSELERSYQRFTAFYASRHSGRKLTWL 566
Query: 424 HNISQVELKLSYLKRPYFVTMQTFQMAILLLFEKNDAMTCGDIQTVLSLSQDQIGRHIAS 483
+ +S+ EL + K Y + TFQMAILL + DA T + + D + + +
Sbjct: 567 YQLSKGELVTNCFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQI 626
Query: 484 LVECKLLTSNKE-------ELTEDTEIRLNLGYNNKRTKLKISGAVQKETPQEIERTVSS 536
L++ KLL E EL DT I+L LGY NK+ ++ I+ ++ E QE E T +
Sbjct: 627 LLKSKLLVLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKN 686
Query: 537 VDEDRKLYLQAAIVRIMKSRKQIRHNALIQEVLSQSKS-FAPSISMIKKCIESLIDKNYV 595
++EDRKL +QAAIVRIMK RK ++H L+ EVL+Q S F P + +IKKCI+ LI+K Y+
Sbjct: 687 IEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYL 746
Query: 596 ERTANSTDEYSYVA 609
ER D YSY+A
Sbjct: 747 ERVDGEKDTYSYLA 760
Score = 42.9 bits (100), Expect = 3e-04
Identities = 32/215 (14%), Positives = 72/215 (33%), Gaps = 46/215 (21%)
Query: 10 FNKTWGSLQETIQGVITLGNVRRATWNDRFSDIYSLCVA--------------------- 48
++ W L+ IQ V T ++ ++ + + ++ +Y+ C +
Sbjct: 1 LDQIWDDLRAGIQQVYTRQSMAKSRYMELYTHVYNYCTSVHQSNQARGAGVPPSKSKKGQ 60
Query: 49 ---YPEPLADRLYQETKLFLDQHL------YVDIFETQFL-EMSGEWYK-SEASKLLQTC 97
+ + LY+ K FL +L D+ + L + +W +SK+L
Sbjct: 61 TPGGAQFVGLELYKRLKEFLKNYLTNLLKDGEDLMDESVLKFYTQQWEDYRFSSKVLN-- 118
Query: 98 NVSQYMERVLQVLHEETNR----SVRFLHVSSYPKVKAKCEQHMVADHLNFLQGECVPMV 153
+ Y+ R + R + L + ++ + + + ++
Sbjct: 119 GICAYLNRHWVRRECDEGRKGIYEIYSLALVTW-------RDCLFRPLNKQVTNAVLKLI 171
Query: 154 AEERRHDLANMYPLLRSVREGINILIDAVRDHICK 188
+ER + N L+ V + L D K
Sbjct: 172 EKERNGETINT-RLISGVVQSYVELGLNEDDAFAK 205
>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 = 460 bits (1185), Expect = e-154
Identities = 169/558 (30%), Positives = 281/558 (50%), Gaps = 17/558 (3%)
Query: 57 LYQETKLFLDQHLYVDIFETQFLEMSGEWYKSEASKLLQTCNVSQYMERVLQVLHEETNR 116
L + D +Y D FE +FLE + Y +E +L+Q V +Y+ V + L EE +R
Sbjct: 214 LRSLLGMLSDLQVYKDSFELKFLEETNCLYAAEGQRLMQEREVPEYLNHVSKRLEEEGDR 273
Query: 117 SVRFLHVSSYPKVKAKCEQHMVADHLN-FLQGECVPMVAEERRHDLANMYPLLRSVREGI 175
+ +L S+ + A E+ ++ +HL LQ ++ E R DLA MY L VR G
Sbjct: 274 VITYLDHSTQKPLIACVEKQLLGEHLTAILQKGLDHLLDENRVPDLAQMYQLFSRVRGGQ 333
Query: 176 NILIDAVRDHICKQGLEAISGLSGDNISTQFVENMLAVHKKYKAFVKELFSGDQSFMGAL 235
L+ ++I G + D V+++L K ++ F ++ F+ +
Sbjct: 334 QALLQHWSEYIKTFGTAIVINPEKDK---DMVQDLLDFKDKVDHVIEVCFQKNERFVNLM 390
Query: 236 DKACSSVINHKFDPKMPSKSPEYLAKYCDMLLKKSSKGLSESEMDDKLSQSITVFKYIDD 295
++ + IN K P+K E +AK+ D L+ +K ++ E++ L + + +F++I
Sbjct: 391 KESFETFIN-----KRPNKPAELIAKHVDSKLRAGNKEATDEELERTLDKIMILFRFIHG 445
Query: 296 KDVFHKFYAKMLAKRLIHQQSTSMDGEEAMINKLKQACGYEFTNKFHRMLTDIKISGGLN 355
KDVF FY K LAKRL+ +S S+D E++M++KLK CG FT+K M D+++S +
Sbjct: 446 KDVFEAFYKKDLAKRLLVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIM 505
Query: 356 EKFHSEFVKTNEIDLGIHFSINILQAGSWPLGPTVISSFSVPQELEKCIHMFEKFYHGQF 415
F + ++ I ++NIL G WP + E+ K +F+ FY G+
Sbjct: 506 VHFK-QHMQNQSDSGPIDLTVNILTMGYWPTYTP--MEVHLTPEMIKLQEVFKAFYLGKH 562
Query: 416 NGRKLSWLHNISQVELKLSYLKRPYFVTMQTFQMAILLLFEKNDAMTCGDIQTVLSLSQD 475
+GRKL W + LK + + + FQ +LL+F + D + +I+ +
Sbjct: 563 SGRKLQWQTTLGHAVLKAEFKEGKKEFQVSLFQTLVLLMFNEGDGFSFEEIKMATGIEDS 622
Query: 476 QIGRHIASLVECKLLTSNKE----ELTEDTEIRLNLGYNNKRTKLKISGAVQKETPQEIE 531
++ R + SL K K E+ + + N + +K ++KI+ KET +E
Sbjct: 623 ELRRTLQSLACGKARVLIKSPKGKEVEDGDKFIFNGEFKHKLFRIKINQIQMKETVEEQV 682
Query: 532 RTVSSVDEDRKLYLQAAIVRIMKSRKQIRHNALIQEVLSQSKSFAPSISMIKKCIESLID 591
T V +DR+ + AAIVRIMK RK + HN L+ E+ +Q K F +KK IESLID
Sbjct: 683 STTERVFQDRQYQIDAAIVRIMKMRKTLGHNLLVSELYNQLK-FPVKPGDLKKRIESLID 741
Query: 592 KNYVERTANSTDEYSYVA 609
++Y+ER ++ ++Y YVA
Sbjct: 742 RDYMERDKDNPNQYHYVA 759
Score = 44.4 bits (104), Expect = 9e-05
Identities = 23/144 (15%), Positives = 53/144 (36%), Gaps = 20/144 (13%)
Query: 9 DFNKTWGSLQETIQGVITLGNVRRATWNDRFSDIYSLCVAYPEPLADRLYQETKLFLDQH 68
TW L E ++ V + R + + + +LC + LY++ + + H
Sbjct: 58 YTQDTWRKLHEAVRAVQS-STSIRYNLEELYQAVENLCSHKV---SPMLYKQLRQACEDH 113
Query: 69 LYVDIF--------ETQFLEMSGEWYKSEASKLLQTCNVSQYMERVLQVLHEETNRSVRF 120
+ I FL+ ++ +++ ++ +++R VL T S+
Sbjct: 114 VQAQILPFREDSLDSVLFLKKINTCWQDHCRQMIMIRSIFLFLDRTY-VLQNSTLPSIWD 172
Query: 121 L-------HVSSYPKVKAKCEQHM 137
+ H+ S V++K +
Sbjct: 173 MGLELFRTHIISDKMVQSKTIDGI 196
>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 = 328 bits (841), Expect = e-107
Identities = 117/380 (30%), Positives = 187/380 (49%), Gaps = 24/380 (6%)
Query: 253 SKSPEYLAKYCDMLLKKS--SKGLSESEMDDKLSQSITVFKYIDDKDVFHKFYAKMLAKR 310
SK PE LA YCDMLL+K+ SK L+ E++ KL + + KY+ +KDVF +++ L +R
Sbjct: 4 SKCPEELANYCDMLLRKTPLSKKLTSEEIEAKLKEVLKKLKYVQNKDVFMRYHKAHLTRR 63
Query: 311 LIHQQSTSMDGEEAMINKLKQ-ACGYEFTNKFHRMLTDIKISGGLNEKFHSEFVKTNEID 369
LI S + EE M+ L++ ++ NK RM DIK+S LN+ F
Sbjct: 64 LILDISADSEIEENMVEWLREVGMPADYVNKLARMFQDIKVSEDLNQAFKEMHKNNKLAL 123
Query: 370 LGIHFSINILQAGSWPLGPTVISSFSVPQELEKCIHMFEKFYHGQFNGRKLSWLHNISQV 429
+I IL AG+W S+P ELE I E+FY +GRKL W H +S
Sbjct: 124 PADSVNIKILNAGAWSRSSEK-VFVSLPTELEDLIPEVEEFYKKNHSGRKLHWHHLMSNG 182
Query: 430 ELKLSYLKRPYFVTMQTFQMAILLLFEK--NDAMTCGDIQTVLSLSQDQIGRHIASLVEC 487
+ Y + + TFQ+A+L + + + ++ +++ L ++ R + SLV
Sbjct: 183 IITFKNEVGQYDLEVTTFQLAVLFAWNQRPREKISFENLKLATELPDAELRRTLWSLVAF 242
Query: 488 KLL----------TSNKEELTEDTEIRLNLGYN-------NKRTKLKISGAVQKETPQEI 530
L ++ ++ TE T +N ++ KR K+ + G +Q T +
Sbjct: 243 PKLKRQVLLYEPQVNSPKDFTEGTLFSVNQEFSLIKNAKVQKRGKINLIGRLQLTTERMR 302
Query: 531 ERTVSSVDEDRKLYLQAAIVRIMKSRKQIRHNALIQEVLSQSKS-FAPSISMIKKCIESL 589
E + + R L Q AI++IMK RK+I + L E++ K+ F P MIK+ IE L
Sbjct: 303 EEENEGIVQLRILRTQEAIIQIMKMRKKISNAQLQTELVEILKNMFLPQKKMIKEQIEWL 362
Query: 590 IDKNYVERTANSTDEYSYVA 609
I+ Y+ R + + + Y+A
Sbjct: 363 IEHKYIRRDESDINTFIYMA 382
>4ap2_B Cullin-3, CUL-3; ubiquitination, E3 ligase, cell cycle; HET: EDO;
2.80A {Homo sapiens} PDB: 4apf_B
Length = 410
Score = 161 bits (407), Expect = 5e-44
Identities = 47/219 (21%), Positives = 94/219 (42%), Gaps = 12/219 (5%)
Query: 66 DQHLYVDIFETQFLEMSGEWYKSEASKLLQTCNVSQYMERVLQVLHEETNRSVRFLHVSS 125
+ +Y + FE FLEMS E+++ E+ K L + S Y+++V ++EE R + L S+
Sbjct: 197 GRSVYEEDFEAPFLEMSAEFFQMESQKFLAENSASVYIKKVEARINEEIERVMHCLDKST 256
Query: 126 YPKVKAKCEQHMVADHLNFL----QGECVPMVAEERRHDLANMYPLLRSVREGINILIDA 181
+ E+ +++ H+ + V M+ + DL MY L V G+ + +
Sbjct: 257 EEPIVKVVERELISKHMKTIVEMENSGLVHMLKNGKTEDLGCMYKLFSRVPNGLKTMCEC 316
Query: 182 VRDHICKQGLEAISGLSGDNISTQFVENMLAVHKKYKAFVKELFSGDQSFMGALDKACSS 241
+ ++ +QG +S + + + + ++ F+ E F+ D+ F +
Sbjct: 317 MSSYLREQGKALVSEEGEGKNPVDYRQGLDDLKSRFDRFLLESFNNDRLFKQTIAGDFEY 376
Query: 242 VINHKFDPKMPSKSPEYLAKYC--DMLLKKSSKGLSESE 278
+N S+SPEYLA+ + +
Sbjct: 377 FLNLN------SRSPEYLAENLYFQSHHHHHHDYKDDDD 409
Score = 46.8 bits (110), Expect = 1e-05
Identities = 21/173 (12%), Positives = 63/173 (36%), Gaps = 5/173 (2%)
Query: 1 MSLKPKQVDFNKTWGSLQETIQGVITLGNVRRATWNDRFSDIYSLCVAYPEPLADRLYQE 60
+ + N W L+ IQ I N ++ + + + Y++ + ++LY
Sbjct: 21 FPMTMDEKYVNSIWDLLKNAIQE-IQRKNNSGLSFEELYRNAYTMVLH---KHGEKLYTG 76
Query: 61 TKLFLDQHLYVDIFETQFLEMSGEWYKSEASKLLQTCNVSQYMERVLQVLHEETNRSVRF 120
+ + +HL + E ++ + ++ + +L + +
Sbjct: 77 LREVVTEHLINKVREDVLNSLNNNFLQTLNQAWNDHQTAMVMIRDILMYMDRVYVQQNNV 136
Query: 121 LHVSSYPKVKAKCEQHMVADHLNFLQGECVPMVAEERRHDLANMYPLLRSVRE 173
+V + + + + + L+ + M+A ER+ ++ + +R+ +
Sbjct: 137 ENVYNLGLIIFRDQVVRYGCIRDHLRQTLLDMIARERKGEVVDR-GAIRNACQ 188
>2wzk_A Cullin-5, CUL-5; UBL conjugation pathway, HIV, phosphoprotein,
isopeptide bond, protein binding; 2.05A {Mus musculus}
Length = 391
Score = 137 bits (345), Expect = 1e-35
Identities = 48/196 (24%), Positives = 82/196 (41%), Gaps = 6/196 (3%)
Query: 68 HLYVDIFETQFLEMSGEWYKSEASKLLQTCNVSQYMERVLQVLHEETNRSVRFLHVSSYP 127
+Y D FE +L+ + +Y+++A LQ V YM+ L EE R++R+L
Sbjct: 196 QIYRDNFEKAYLDSTERFYRTQAPSYLQQNGVQNYMKYADAKLKEEEKRALRYLETRREC 255
Query: 128 KVKAK----CEQHMVADHLNFLQGECVPMVAEERRHDLANMYPLLRSVREGINILIDAVR 183
C +V + EC M+ L M+ L+ V GI ++ +
Sbjct: 256 NSVEALMECCVNALVTSFKETILAECQGMIKRNETEKLHLMFSLMDKVPNGIEPMLKDLE 315
Query: 184 DHICKQGLEAISGLSGDNI--STQFVENMLAVHKKYKAFVKELFSGDQSFMGALDKACSS 241
+HI GL + + S ++ E + + ++ VKE F D F+ A DKA +
Sbjct: 316 EHIISAGLADMVAAAETITTDSEKYREQLDTLFNRFSKLVKEAFQDDPRFLTARDKAYKA 375
Query: 242 VINHKFDPKMPSKSPE 257
V+N K + +
Sbjct: 376 VVNDATIFKAENLYFQ 391
Score = 63.0 bits (152), Expect = 1e-10
Identities = 28/194 (14%), Positives = 68/194 (35%), Gaps = 14/194 (7%)
Query: 1 MSLKPKQVDFNKTWGSLQETIQGVITLGNVRRATWNDRFSDIYSLCVAYPEPLADRLYQE 60
+ + F W + + ++ +V + W D FSD++++C+ + + + +++Q
Sbjct: 6 LLKNKGSLQFEDKWDFMHPIVLKLLRQESVTKQQWFDLFSDVHAVCL-WDDKGSSKIHQA 64
Query: 61 TKLFLDQHLYVDIFETQFLEMSGEWYKSEA---------SKLLQTCNVSQYMERVLQVLH 111
K + + + + + L + +A ++ +E L
Sbjct: 65 LKEDILEFI--KQAQARVLSHQDDTALLKAYIVEWRKFFTQCDILPKPFCQLEVTLLGKQ 122
Query: 112 EETNRSVRFLHVSSYPKVKAKCEQHMVADHLNFLQGECVPMVAEERRHDLANMYPLLRSV 171
+S + + + ++ N LQ + +V ER + + L+ V
Sbjct: 123 SSNKKSNMED-SIVRKLMLDTWNESIFSNIKNRLQDSAMKLVHAERLGEAFDS-QLVIGV 180
Query: 172 REGINILIDAVRDH 185
RE L D
Sbjct: 181 RESYVNLCSNPEDK 194
>4eoz_B Cullin-3, CUL-3; E3 ubiquitin ligase, nucleus, protein binding;
2.40A {Homo sapiens} PDB: 4apf_B
Length = 364
Score = 135 bits (341), Expect = 2e-35
Identities = 40/183 (21%), Positives = 83/183 (45%), Gaps = 4/183 (2%)
Query: 66 DQHLYVDIFETQFLEMSGEWYKSEASKLLQTCNVSQYMERVLQVLHEETNRSVRFLHVSS 125
+ +Y + FE FLEMS E+++ E+ K L + S Y+++V ++EE R + L S+
Sbjct: 180 GRSVYEEDFEAPFLEMSAEFFQMESQKFLAENSASVYIKKVEARINEEIERVMHCLDKST 239
Query: 126 YPKVKAKCEQHMVADHLNFL----QGECVPMVAEERRHDLANMYPLLRSVREGINILIDA 181
+ E+ +++ H+ + V M+ + DL MY L V G+ + +
Sbjct: 240 EEPIVKVVERELISKHMKTIVEMENSGLVHMLKNGKTEDLGCMYKLFSRVPNGLKTMCEC 299
Query: 182 VRDHICKQGLEAISGLSGDNISTQFVENMLAVHKKYKAFVKELFSGDQSFMGALDKACSS 241
+ ++ +QG +S + + + + ++ F+ E F+ D+ F +
Sbjct: 300 MSSYLREQGKALVSEEGEGKNPVDYRQGLDDLKSRFDRFLLESFNNDRLFKQTIAGDFEY 359
Query: 242 VIN 244
+N
Sbjct: 360 FLN 362
Score = 43.7 bits (102), Expect = 1e-04
Identities = 21/169 (12%), Positives = 62/169 (36%), Gaps = 5/169 (2%)
Query: 5 PKQVDFNKTWGSLQETIQGVITLGNVRRATWNDRFSDIYSLCVAYPEPLADRLYQETKLF 64
+ N W L+ IQ I N ++ + + + Y++ + ++LY +
Sbjct: 8 MDEKYVNSIWDLLKNAIQE-IQRKNNSGLSFEELYRNAYTMVL---HKHGEKLYTGLREV 63
Query: 65 LDQHLYVDIFETQFLEMSGEWYKSEASKLLQTCNVSQYMERVLQVLHEETNRSVRFLHVS 124
+ +HL + E ++ + ++ + +L + + +V
Sbjct: 64 VTEHLINKVREDVLNSLNNNFLQTLNQAWNDHQTAMVMIRDILMYMDRVYVQQNNVENVY 123
Query: 125 SYPKVKAKCEQHMVADHLNFLQGECVPMVAEERRHDLANMYPLLRSVRE 173
+ + + + + L+ + M+A ER+ ++ + +R+ +
Sbjct: 124 NLGLIIFRDQVVRYGCIRDHLRQTLLDMIARERKGEVVDR-GAIRNACQ 171
>4a64_A Cullin-4B, CUL4B, CUL-4B; cell cycle; 2.57A {Homo sapiens}
Length = 354
Score = 130 bits (327), Expect = 2e-33
Identities = 47/187 (25%), Positives = 86/187 (45%), Gaps = 4/187 (2%)
Query: 61 TKLFLDQHLYVDIFETQFLEMSGEWYKSEASKLLQTCNVSQYMERVLQVLHEETNRSVRF 120
+ D +Y D FE +FLE + Y +E KL+Q V +Y+ V + L EE +R + +
Sbjct: 169 LSMLSDLQIYQDSFEQRFLEETNRLYAAEGQKLMQEREVPEYLHHVNKRLEEEADRLITY 228
Query: 121 LHVSSYPKVKAKCEQHMVADHLN-FLQGECVPMVAEERRHDLANMYPLLRSVREGINILI 179
L ++ + A E+ ++ +HL LQ ++ E R DL+ +Y L VR G+ +L+
Sbjct: 229 LDQTTQKSLIATVEKQLLGEHLTAILQKGLNNLLDENRIQDLSLLYQLFSRVRGGVQVLL 288
Query: 180 DAVRDHICKQGLEAISGLSGDNISTQFVENMLAVHKKYKAFVKELFSGDQSFMGALDKAC 239
++I G + D + + K + F ++ F+ A+ +A
Sbjct: 289 QQWIEYIKAFGSTIVINPEKDK---TMRQELDDFKDKVDHIIDICFLKNEKFINAMKEAF 345
Query: 240 SSVINHK 246
+ IN +
Sbjct: 346 ETFINKR 352
Score = 44.5 bits (104), Expect = 7e-05
Identities = 38/364 (10%), Positives = 119/364 (32%), Gaps = 43/364 (11%)
Query: 4 KPKQVDFNKTWGSLQETIQGVITLGNVRRATWNDRFSDIYSLCVAYPEPLADRLYQETKL 63
K + ++TW L+E ++ + + + + + +LC ++ LY++ +
Sbjct: 4 KLPENYTDETWQKLKEAVEAIQN-STSIKYNLEELYQAVENLCSY---KISANLYKQLRQ 59
Query: 64 FLDQHLY--------VDIFETQFLEMSGEWYKSEASKLLQTCNVSQYMERVLQVLHEETN 115
+ H+ + FL+ +++ +++ ++ +++R + N
Sbjct: 60 ICEDHIKAQIHQFREDSLDSVLFLKKIDRCWQNHCRQMIMIRSIFLFLDRT----YVLQN 115
Query: 116 RSVRFLHVSSYPKVKAKCEQHMVADHLNFLQGECVPMVAEERR---------HDLANMYP 166
+ + +A N + ++ ER L +M
Sbjct: 116 SMLPSIWDMGLELFRAHIISDQ--KVQNKTIDGILLLIERERNGEAIDRSLLRSLLSMLS 173
Query: 167 LLRSVREGI-NILIDAVRDHICKQGLEAISGLSGDNISTQFVENMLAVHKKYKAFVKELF 225
L+ ++ ++ +G + + + + + ++ +
Sbjct: 174 DLQIYQDSFEQRFLEETNRLYAAEGQKLMQEREVPEYLHHVNKRLEEEADRLITYLDQ-- 231
Query: 226 SGDQSFMGALDKAC-----SSVINHKFDPKMPSKSPEYLAKYCDMLLKKSSKGLSESEMD 280
+ +S + ++K ++++ + + + L+ L + G+ +
Sbjct: 232 TTQKSLIATVEKQLLGEHLTAILQKGLNNLLDENRIQDLSLLYQ-LFSRVRGGV--QVLL 288
Query: 281 DKLSQSITVF--KYIDDKDVFHKFYAKMLA--KRLIHQQSTSMDGEEAMINKLKQACGYE 336
+ + I F + + + ++ ++ H E IN +K+A
Sbjct: 289 QQWIEYIKAFGSTIVINPEKDKTMRQELDDFKDKVDHIIDICFLKNEKFINAMKEAFET- 347
Query: 337 FTNK 340
F NK
Sbjct: 348 FINK 351
>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 = 117 bits (294), Expect = 9e-32
Identities = 45/91 (49%), Positives = 60/91 (65%), Gaps = 1/91 (1%)
Query: 520 GAVQKETPQEIERTVSSVDEDRKLYLQAAIVRIMKSRKQIRHNALIQEVLSQSKS-FAPS 578
A Q E+ E + T VD+DRK ++AAIVRIMKSRK+++HN L+ EV Q K+ F PS
Sbjct: 2 AAKQGESDPERKETRQKVDDDRKHEIEAAIVRIMKSRKKMQHNVLVAEVTQQLKARFLPS 61
Query: 579 ISMIKKCIESLIDKNYVERTANSTDEYSYVA 609
+IKK IE LI++ Y+ RT Y+YVA
Sbjct: 62 PVVIKKRIEGLIEREYLARTPEDRKVYTYVA 92
>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 = 113 bits (283), Expect = 4e-30
Identities = 42/91 (46%), Positives = 59/91 (64%), Gaps = 1/91 (1%)
Query: 519 SGAVQKETPQEIERTVSSVDEDRKLYLQAAIVRIMKSRKQIRHNALIQEVLSQSKSFAPS 578
SG KET +E T V +DR+ + AAIVRIMK RK + HN L+ EV +Q K F
Sbjct: 6 SGIQMKETVEEQASTTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLK-FPVK 64
Query: 579 ISMIKKCIESLIDKNYVERTANSTDEYSYVA 609
+ +KK IESLID++Y+ER + ++Y+Y+A
Sbjct: 65 PADLKKRIESLIDRDYMERDKENPNQYNYIA 95
>3tdu_C Cullin-1, CUL-1; E2:E3, ligase-protein binding complex; 1.50A {Homo
sapiens} PDB: 3tdz_C
Length = 77
Score = 106 bits (266), Expect = 5e-28
Identities = 42/76 (55%), Positives = 56/76 (73%), Gaps = 1/76 (1%)
Query: 535 SSVDEDRKLYLQAAIVRIMKSRKQIRHNALIQEVLSQSKS-FAPSISMIKKCIESLIDKN 593
S+++EDRKL +QAAIVRIMK RK ++H L+ EVL+Q S F P + +IKKCI+ LI+K
Sbjct: 2 SNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKE 61
Query: 594 YVERTANSTDEYSYVA 609
Y+ER D YSY+A
Sbjct: 62 YLERVDGEKDTYSYLA 77
>3o2p_E Cell division control protein 53; ligase, cell cycle; 2.23A
{Saccharomyces cerevisiae} PDB: 3o6b_B
Length = 88
Score = 103 bits (259), Expect = 5e-27
Identities = 31/87 (35%), Positives = 56/87 (64%), Gaps = 2/87 (2%)
Query: 524 KETPQEIERTVSSVDEDRKLYLQAAIVRIMKSRKQIRHNALIQEVLSQSKS-FAPSISMI 582
+ E ER ++ +R+++L+A IVRIMK+++ + H L+ E ++QS F +SM+
Sbjct: 3 NKRLTEDERIEKELNTERQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMV 62
Query: 583 KKCIESLIDKNYVERTANSTDEYSYVA 609
K+ I+SLI K Y++R + + Y+Y+A
Sbjct: 63 KRAIDSLIQKGYLQRGDDG-ESYAYLA 88
>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 = 79.7 bits (196), Expect = 2e-15
Identities = 111/694 (15%), Positives = 204/694 (29%), Gaps = 243/694 (35%)
Query: 2 SLKPKQVDFNKTWGSLQETIQGVITLGNVRRATW------NDRFSDIYSLCVAYPEPLAD 55
S +P + GSL+ + V A++ ++F+ I PEP +
Sbjct: 5 STRP----LTLSHGSLEHVL-------LVPTASFFIASQLQEQFNKIL------PEP-TE 46
Query: 56 RLYQETKLFLDQHLYVDIFETQFLEMSGEWYKSEASKLLQTCNVSQYMERVLQVLHEETN 115
+ + L +FL S L++ V Q+ ++VL + E
Sbjct: 47 GFAADDEPTTPAELV-----GKFLGY--------VSSLVEPSKVGQF-DQVLNLCLTEFE 92
Query: 116 RSVRFLHVSSYPKVKAKCEQHMVADHL----------------NFLQGECVPMVAEERRH 159
+L + + H +A L N++ + +++
Sbjct: 93 N--CYLEGN---------DIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKS 141
Query: 160 DLANMYPLLRSVREGINILIDAVRDHICKQGLEAISGLSGDNISTQFVENMLAVHKKYKA 219
+ A L R+V EG L+ AI G G N F E + +++ Y
Sbjct: 142 NSA----LFRAVGEGNAQLV-------------AIFGGQG-NTDDYFEE-LRDLYQTYHV 182
Query: 220 FVKELFSGDQSFMGALDKA---CSSVINHKFDP----KMPSKSP--EYL----------- 259
V +L + L + V + + PS +P +YL
Sbjct: 183 LVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIG 242
Query: 260 ----AKYCDMLLKKSSKGLSESEMDDKLSQSITVFKYI---------DDKDVFHKFYAKM 306
A Y + K G + E+ L + + + D + F K
Sbjct: 243 VIQLAHYV-VTAKLL--GFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKA 299
Query: 307 LAKRLIH-----QQSTS-MDGEEAMINK-LKQACGYEFTNKFHRMLTDIKISGGLNEKFH 359
+ L ++ +++ L+ G ML+ I L ++
Sbjct: 300 I-TVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVP-----SPMLS-IS---NLTQEQV 349
Query: 360 SEFV-KTNEI---DLGIHFS-INILQAGSWPLGPT--VISSFSVPQELEKCIHMFEKFYH 412
++V KTN + S +N G V+S PQ L Y
Sbjct: 350 QDYVNKTNSHLPAGKQVEISLVN---------GAKNLVVSGP--PQSL----------YG 388
Query: 413 GQFNGRKLSWLHNISQVELKLSYLKR-PYFVTMQTFQMAILLLFEKNDAMTCGDIQTVLS 471
RK + Q + S +R F F + + F
Sbjct: 389 LNLTLRKAKAPSGLDQSRIPFS--ERKLKFSN--RF-LPVASPF---------------- 427
Query: 472 LSQDQIGRHIASLVECKLLTSNKEELTEDTEIRLNLGYNNKRTKLKI------SGAVQKE 525
H LL + + +D + N+ +N K ++I G+ +
Sbjct: 428 --------H------SHLLVPASDLINKDLV-KNNVSFNAK--DIQIPVYDTFDGSDLRV 470
Query: 526 TPQEI-ERTVSSVDEDRKLYLQAAIVRIMKSRKQIRHNALIQEVLSQSKSFAPSISMIKK 584
I ER V + + + ++ + H +L F P +
Sbjct: 471 LSGSISERIVDCIIRLP-VKWETT------TQFKATH------IL----DFGPGGA---S 510
Query: 585 CIESLIDKNYVERT-----------ANSTDEYSY 607
+ L +N + T N D+Y +
Sbjct: 511 GLGVLTHRN-KDGTGVRVIVAGTLDINPDDDYGF 543
Score = 36.2 bits (83), Expect = 0.039
Identities = 62/325 (19%), Positives = 110/325 (33%), Gaps = 110/325 (33%)
Query: 15 GSLQETIQGVITLG-------NVRRATWN--DR-------FS--DIY-----SLCVAYPE 51
GS QE QG +G + WN D FS DI +L + +
Sbjct: 1625 GS-QE--QG---MGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGG 1678
Query: 52 PLADRLYQ-----ETKLFLDQHLYVD-IFETQFLEMSGEWYKSEASKLLQTCNVSQ---- 101
R+ + + +D L + IF+ + ++SE L T +Q
Sbjct: 1679 EKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQF-TQPALT 1737
Query: 102 YMER-VLQVLHEETNRSVRFLHVSSYPKVKAKCEQHMVADH-LNFLQGECVPMVAEERRH 159
ME+ + L + P A H L GE + +
Sbjct: 1738 LMEKAAFEDLKSKGLI----------PADAT------FAGHSL----GEYAALAS----- 1772
Query: 160 DLANMYPL---LRSVRE-GINILIDAVRDHICKQGLEAISGLSGDNISTQFVENML---- 211
LA++ + + V G+ + + RD + + + ++ ++ F + L
Sbjct: 1773 -LADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNY-GMIAINPGRVAASFSQEALQYVV 1830
Query: 212 -AVHKKYKAFVKEL--F---------SGDQSFMGALDKACSSVINHKFDPKMPSKSPEYL 259
V K+ V E+ + +GD + ALD +V+N K+
Sbjct: 1831 ERVGKRTGWLV-EIVNYNVENQQYVAAGD---LRALDTVT-NVLNFI---KLQK------ 1876
Query: 260 AKYCDML-LKKSSKGLSESEMDDKL 283
D++ L+KS LS E++ L
Sbjct: 1877 ---IDIIELQKS---LSLEEVEGHL 1895
Score = 34.3 bits (78), Expect = 0.16
Identities = 57/326 (17%), Positives = 94/326 (28%), Gaps = 124/326 (38%)
Query: 314 Q--QSTSMDGEE-----AMINKL-KQACGYEFTNKFHRMLTDIKISGGLNEKFHSEFVKT 365
Q Q M G + + +A + F + + + DI V
Sbjct: 1624 QGSQEQGM-GMDLYKTSKAAQDVWNRADNH-FKDTYGFSILDI--------------VIN 1667
Query: 366 NEIDLGIHFSINILQAGSWPLGPTVISSFSVPQELEKCIHMFEKFYHGQFNGRKLSWLHN 425
N ++L IHF G G + ++S +FE G+ K+
Sbjct: 1668 NPVNLTIHFG------G--EKGKRIRENYSA--------MIFETIVDGKLKTEKI--FKE 1709
Query: 426 ISQVELKLSY------LKRPYFVTMQTFQMAILL----LFE--------KNDAMTCG--- 464
I++ ++ L F T Q A+ L FE DA G
Sbjct: 1710 INEHSTSYTFRSEKGLLSATQF-T----QPALTLMEKAAFEDLKSKGLIPADATFAGHSL 1764
Query: 465 ----------DIQTVLSLSQDQI------GRHIASLVECKLLTSNKEELTEDTEIRLNLG 508
D V+S+ + G + V D R N G
Sbjct: 1765 GEYAALASLAD---VMSIE-SLVEVVFYRGMTMQVAVP------------RDELGRSNYG 1808
Query: 509 YNNKRTKLKIS-GAVQKETPQE-IERTVSSVDEDRKLYLQAA---IVRIMKSRKQI---- 559
+ I+ G V QE ++ V V + ++ + +Q
Sbjct: 1809 M------IAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNV-----ENQQYVAAG 1857
Query: 560 RHNAL--IQEVLSQSKSFAPSISMIK 583
AL + VL+ K I +I+
Sbjct: 1858 DLRALDTVTNVLNFIK--LQKIDIIE 1881
>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 = 55.6 bits (133), Expect = 4e-08
Identities = 77/534 (14%), Positives = 164/534 (30%), Gaps = 180/534 (33%)
Query: 136 HMVADHLNFLQGE-------CVPMVAEERRHDLANMYPLLRSVREGINILIDAVRDHICK 188
H H++F GE + + + + + + + +IL DHI
Sbjct: 1 HHHHHHMDFETGEHQYQYKDILSVFEDAFVDNF-DCKDVQDMPK---SILSKEEIDHIIM 56
Query: 189 QGLEAISGL---------SGDNISTQFVENMLAVHKKYKAFVKELFSGD--------QSF 231
+A+SG + + +FVE +L YK F+ + + +
Sbjct: 57 SK-DAVSGTLRLFWTLLSKQEEMVQKFVEEVLR--INYK-FLMSPIKTEQRQPSMMTRMY 112
Query: 232 MGALDKACSSVINHKFDPKMPSKSPEYLAKYCDMLLKKSSKGLSESEMDDKLSQSITVFK 291
+ D+ + N F K + K L+++ L + K
Sbjct: 113 IEQRDRLYND--NQVF-AKYNVSRLQPYLK-----LRQALLELRPA-------------K 151
Query: 292 YIDDKDVFHKFYAKMLAKRLIHQQSTSMDGEEAMINKLKQACGYEFTNKFHRMLTDIKIS 351
+ LI + G G K T + +
Sbjct: 152 NV-----------------LID----GVLG-----------SG-----K-----TWVALD 169
Query: 352 GGLNEKFHSEFVKTNEIDLGIHFSINILQAGSWPLGPTVISSFSVPQELEKCIHMFEKFY 411
L+ K + D I W ++ E + M +K
Sbjct: 170 VCLSYKVQCKM------DFKIF----------W------LN-LKNCNSPETVLEMLQKLL 206
Query: 412 HGQFNGRKLSWLHNISQVELKL----SYLKRPYFVTMQTFQMAILLL---FEKN--DAMT 462
+ Q + S + S ++L++ + L+R + + ++ +L+L +A
Sbjct: 207 Y-QIDPNWTSRSDHSSNIKLRIHSIQAELRR--LLKSKPYENCLLVLLNVQNAKAWNAF- 262
Query: 463 CGDIQ-TVLSLSQD-QIGRHIASLVECKL-LTSNKEELTEDTEIRLNLGYNNKRTK---- 515
++ +L ++ Q+ +++ + L + LT D L L Y + R +
Sbjct: 263 --NLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR 320
Query: 516 -------LKIS--GAVQKETP-----------QEIERTV-SSVD-----EDRKLYLQAAI 549
++S ++ ++ + SS++ E RK++ + ++
Sbjct: 321 EVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV 380
Query: 550 VRIMKSRKQIRHNALI-QEVLS----QSKSFAPSISMIKKCIESLIDKNYVERT 598
+A I +LS + + K SL++K E T
Sbjct: 381 ---------FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKEST 425
Score = 51.8 bits (123), Expect = 5e-07
Identities = 68/512 (13%), Positives = 139/512 (27%), Gaps = 168/512 (32%)
Query: 7 QVDFNKTWGSLQ-ETIQ---GVITLGNVRRATWND--RFSDIYSLCVAYPEP---LADRL 57
++++ ++ E Q R +ND F+ Y+ V+ +P L L
Sbjct: 88 RINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAK-YN--VSRLQPYLKLRQAL 144
Query: 58 YQETKLFLDQHLYVDIF-----------------ETQFLEMSGE--W-----YKSEASKL 93
+ L V I +M + W S + L
Sbjct: 145 LE-----LRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVL 199
Query: 94 --LQT---------CNVSQYMERVLQVLHEETNRSVRFLHVSSYPK-------------V 129
LQ + S + + +H R L Y
Sbjct: 200 EMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAW 259
Query: 130 KA---KC-------------------EQHMVADHLN--FLQGE-------CVPMVAEERR 158
A C H+ DH + E + ++
Sbjct: 260 NAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP 319
Query: 159 HDLANMYPLL-----RSVREGINILIDAVRDHICKQGLEAISGLSGDNISTQFVENMLAV 213
++ P S+R+G+ D + C + L I S + + M
Sbjct: 320 REVLTTNPRRLSIIAESIRDGLA-TWDNWKHVNCDK-LTTIIESSLNVLEPAEYRKM--- 374
Query: 214 HKKYKAFVKELFSGD--------QSFMGALDKACSSVINHKFDPK-MPSKSP-EYLAKYC 263
+ +F + K+ V+ +K + K P E
Sbjct: 375 ---FDRLS--VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIP 429
Query: 264 DMLLKKSSKGLSESEMDDKLSQSITV------------------FKYI----------DD 295
+ L+ K +E + + + + +I +
Sbjct: 430 SIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPER 489
Query: 296 KDVFHKFYA--KMLAKRLIHQQSTSMDGEEAMINKLKQACGYE--FT---NKFHRMLTDI 348
+F + + L +++ H ST+ + +++N L+Q Y+ K+ R++ I
Sbjct: 490 MTLFRMVFLDFRFLEQKIRH-DSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAI 548
Query: 349 KISGGLNEKFHSEFVKTNEIDLGIHFSINILQ 380
+F+ E +L ++L+
Sbjct: 549 L-----------DFLPKIEENLICSKYTDLLR 569
>3lmm_A Uncharacterized protein; multi-domained alpha-beta protein,
structural genomics, PSI- 2, protein structure
initiative; 3.00A {Corynebacterium diphtheriae}
Length = 583
Score = 41.5 bits (97), Expect = 7e-04
Identities = 17/180 (9%), Positives = 46/180 (25%), Gaps = 19/180 (10%)
Query: 422 WLHNISQVELKLSYLKRPYFVTMQTFQMAILLLFEKNDAMTCGDIQTVLSLSQDQIGRHI 481
L+L P +L L + +T + L ++ +
Sbjct: 406 VGGRPVLPVLELVSSIVPEARQDDYRIAIVLYLLFQRPFITIDVVARGLQSGKEAARNAL 465
Query: 482 ASLVECKLLTSNKEELTEDTEIRLNLGYNNKRTKLKISGAVQKETPQEIERTVSSVDEDR 541
+ + + L + ++ L + + +
Sbjct: 466 EAARQTTVA-----------GAPLIIAHDGVWL-LGNACREILRKVEPSPFSPVRYLSTD 513
Query: 542 KLYLQAAIVRIMKSRKQIRHNALIQEVLSQSKSFAPSISMIKKCIESLIDKNYVERTANS 601
+ L A + + + + + + S+ K C++ L+D+ V
Sbjct: 514 QAELTNAAMLWLSEVGDLATSD-LMAMCGVSR------GTAKACVDGLVDEERVVAVGGG 566
>1uly_A Hypothetical protein PH1932; helix-turn-helix, structural genomics,
DNA binding protein; 2.50A {Pyrococcus horikoshii} SCOP:
a.4.5.58 PDB: 2cwe_A
Length = 192
Score = 35.9 bits (82), Expect = 0.020
Identities = 21/157 (13%), Positives = 51/157 (32%), Gaps = 7/157 (4%)
Query: 449 MAILLLFEKNDAMTCGDIQTVLSLSQDQIGRHIASLVECKLLTSNKEELTEDTEIRLNLG 508
IL L + MT + +L + I HI L E L+ + E+ + +
Sbjct: 23 RKILKLLRNKE-MTISQLSEILGKTPQTIYHHIEKLKEAGLVEVKRTEMKGNLVEKY--- 78
Query: 509 YNNKRTKLKISGAVQKETPQEIERTVSSVDEDRKLYLQAAIVRIMKSRKQIRHNALIQEV 568
Y I+ + E + I R+ D + + ++ + + Q+
Sbjct: 79 YGRTADVFYINLYLGDEELRYIARSRLKTKID---IFKRLGYQFEENELLNIMDRMSQKE 135
Query: 569 LSQSKSFAPSISMIKKCIESLIDKNYVERTANSTDEY 605
+ + I + ++ +++ + +
Sbjct: 136 FDATVRISKYIEEKEDALKDFSNEDIIHAIEWLSTAE 172
>1ub9_A Hypothetical protein PH1061; helix-turn-helix motif, winged helix
motif, structural genom transcription; 2.05A {Pyrococcus
horikoshii} SCOP: a.4.5.28
Length = 100
Score = 30.9 bits (70), Expect = 0.31
Identities = 11/47 (23%), Positives = 18/47 (38%)
Query: 449 MAILLLFEKNDAMTCGDIQTVLSLSQDQIGRHIASLVECKLLTSNKE 495
+ I++ IQ VL L+ + HI L L+ + K
Sbjct: 19 LGIMIFLLPRRKAPFSQIQKVLDLTPGNLDSHIRVLERNGLVKTYKV 65
>1u2w_A CADC repressor, cadmium efflux system accessory protein; LEAD, SOFT
metal ION resistance, ARSR/SM family, DNA binding
protein; 1.90A {Staphylococcus aureus} SCOP: a.4.5.5
PDB: 3f72_A
Length = 122
Score = 30.0 bits (68), Expect = 0.75
Identities = 8/45 (17%), Positives = 20/45 (44%)
Query: 451 ILLLFEKNDAMTCGDIQTVLSLSQDQIGRHIASLVECKLLTSNKE 495
I +++ + DI +L ++ H+ +L + ++ KE
Sbjct: 47 ITYALCQDEELCVCDIANILGVTIANASHHLRTLYKQGVVNFRKE 91
>2zkz_A Transcriptional repressor PAGR; protein-DNA, HTH motif, dimer, DN
binding, transcription regulation; 2.00A {Bacillus
anthracis}
Length = 99
Score = 29.5 bits (67), Expect = 0.95
Identities = 11/46 (23%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 450 AILLLFEKNDAMTCGDIQTVLSLSQDQIGRHIASLVECKLLTSNKE 495
I+ K+ A+ I +L L Q + +H+ + K+L N++
Sbjct: 31 KIVNELYKHKALNVTQIIQILKLPQSTVSQHLCKM-RGKVLKRNRQ 75
>3cuo_A Uncharacterized HTH-type transcriptional regulato; DNA-binding
transcriptional regulator, structural genomics, MCSG;
2.00A {Escherichia coli K12}
Length = 99
Score = 29.1 bits (66), Expect = 1.3
Identities = 9/47 (19%), Positives = 23/47 (48%)
Query: 449 MAILLLFEKNDAMTCGDIQTVLSLSQDQIGRHIASLVECKLLTSNKE 495
+ IL + + + G++ + LS +H+A + + L+ S ++
Sbjct: 27 LLILCMLSGSPGTSAGELTRITGLSASATSQHLARMRDEGLIDSQRD 73
>3f6v_A Possible transcriptional regulator, ARSR family protein; probable
transcriptional repressor ARSR family, structural
genomics, PSI-2; 1.48A {Rhodococcus SP}
Length = 151
Score = 29.8 bits (67), Expect = 1.5
Identities = 10/46 (21%), Positives = 20/46 (43%), Gaps = 1/46 (2%)
Query: 450 AILLLFEKNDAMTCGDIQTVLSLSQDQIGRHIASLVECKLLTSNKE 495
++ L + T ++ S+ I +H+ L E L+T K+
Sbjct: 62 RLVQLLTSGE-QTVNNLAAHFPASRSAISQHLRVLTEAGLVTPRKD 106
>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 = 29.5 bits (65), Expect = 1.6
Identities = 9/29 (31%), Positives = 15/29 (51%), Gaps = 8/29 (27%)
Query: 566 QEV--LSQS-KSF----APSISMIKKCIE 587
Q + L S K + AP+++ IK +E
Sbjct: 20 QALKKLQASLKLYADDSAPALA-IKATME 47
>2qc0_A Uncharacterized protein; NP_719793.1, uncharacterized protein,
structural genomics, joint center for structural
genomics, JCSG; HET: MSE; 1.60A {Shewanella oneidensis}
PDB: 3eqx_A*
Length = 373
Score = 29.8 bits (67), Expect = 2.9
Identities = 2/48 (4%), Positives = 14/48 (29%)
Query: 448 QMAILLLFEKNDAMTCGDIQTVLSLSQDQIGRHIASLVECKLLTSNKE 495
++ + + ++ + ++ L + +L +
Sbjct: 299 SHELVQVIFEQPYCRIQNLVESGLAKRQTASVYLKQLCDIGVLEEVQS 346
>3r0a_A Putative transcriptional regulator; structural genomics,
PSI-biology, midwest center for structu genomics, MCSG;
2.31A {Methanosarcina mazei}
Length = 123
Score = 28.1 bits (62), Expect = 4.4
Identities = 9/58 (15%), Positives = 23/58 (39%), Gaps = 2/58 (3%)
Query: 444 MQTFQMAIL--LLFEKNDAMTCGDIQTVLSLSQDQIGRHIASLVECKLLTSNKEELTE 499
+ + ++ L E + + + L L + R + L E ++L +++ L
Sbjct: 24 LTKADLNVMKSFLNEPDRWIDTDALSKSLKLDVSTVQRSVKKLHEKEILQRSQQNLDG 81
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.6 bits (63), Expect = 4.9
Identities = 9/83 (10%), Positives = 33/83 (39%), Gaps = 14/83 (16%)
Query: 249 PKMPSKSPEYLAKYC---DMLLKKSSKGLSESEMDDKLSQSITVFKYIDDKDVFHKFYAK 305
++ PE + K+ L++ + M+ + + K +++ +++ ++
Sbjct: 77 ADRLTQEPESIRKWREEQRKRLQE--LDAASKVMEQEWREKAK--KDLEE---WNQRQSE 129
Query: 306 MLAKRLIHQQSTSMDGEEAMINK 328
+ K I+ + ++A +
Sbjct: 130 QVEKNKINNR----IADKAFYQQ 148
>2p4w_A Transcriptional regulatory protein ARSR family; archaea, PHR, heat
shock, transcriptional regulation, winged DNA binding;
2.60A {Pyrococcus furiosus} SCOP: a.4.5.64
Length = 202
Score = 28.5 bits (63), Expect = 5.6
Identities = 23/148 (15%), Positives = 56/148 (37%), Gaps = 6/148 (4%)
Query: 450 AILLLFEKNDAMTCGDIQTVLSLSQDQIGRHIASLVECKLLTSNKEELTEDTEIRLNLGY 509
IL L K ++ L + Q + H+ L E L+ S E++ + +
Sbjct: 19 RILFLLTKRP-YFVSELSRELGVGQKAVLEHLRILEEAGLIESRVEKIPRGRPRKYYMIK 77
Query: 510 NNKRTKLKISG---AVQKETPQEIERTVSSVDEDRKLYLQAAIVRIMKSRKQIRH--NAL 564
R ++ ++ + + + ++ + Q I M+ + H N
Sbjct: 78 KGLRLEILLTPTLFGSEMYEAKGVRKSPEYEQAKELIKSQEPINVKMRELAEFLHELNER 137
Query: 565 IQEVLSQSKSFAPSISMIKKCIESLIDK 592
I+E++ + + + +I+ IE+ + +
Sbjct: 138 IREIIEEKRELEEARILIETYIENTMRR 165
>3f6o_A Probable transcriptional regulator, ARSR family protein;
transcriptional regulator,RHA00566,MCSG, structural
genomics, PSI-2; 1.90A {Rhodococcus SP}
Length = 118
Score = 27.3 bits (61), Expect = 6.8
Identities = 7/46 (15%), Positives = 19/46 (41%), Gaps = 1/46 (2%)
Query: 450 AILLLFEKNDAMTCGDIQTVLSLSQDQIGRHIASLVECKLLTSNKE 495
A+L + T ++ ++ +HI L + + ++K+
Sbjct: 22 AVLGRLSRGP-ATVSELAKPFDMALPSFMKHIHFLEDSGWIRTHKQ 66
>2cjz_A Human protein tyrosine phosphatase PTPN5; protein phosphatase,
STEP, hydrolase; HET: PTR; 1.70A {Homo sapiens} PDB:
2bij_A 2bv5_A*
Length = 305
Score = 28.1 bits (63), Expect = 8.2
Identities = 15/111 (13%), Positives = 37/111 (33%), Gaps = 25/111 (22%)
Query: 92 KLLQTCNVSQYMERVLQVLHEETNRSVRFLHVSSYPKVKAKCEQHMVADH----LNFLQG 147
+ + + Y R++ + R ++ +S+P D L+ ++
Sbjct: 167 TVQKVIHTEDYRLRLISLKSGTEERGLKHYWFTSWP-------DQKTPDRAPPLLHLVR- 218
Query: 148 ECVPMVAEERRHDLANMYPLLRSV-------REGINILIDAVRDHICKQGL 191
V E + + + P++ V R G I + ++G+
Sbjct: 219 ----EVEEAAQQEGPHCAPII--VHSSAGIGRTGCFIATSICCQQLRQEGV 263
>2jsc_A Transcriptional regulator RV1994C/MT2050; cadmium, transcriptional
repressor, solution structure, STRU genomics; NMR
{Mycobacterium tuberculosis}
Length = 118
Score = 27.0 bits (60), Expect = 8.4
Identities = 10/47 (21%), Positives = 19/47 (40%), Gaps = 1/47 (2%)
Query: 449 MAILLLFEKNDAMTCGDIQTVLSLSQDQIGRHIASLVECKLLTSNKE 495
IL+ G + L L++ + H++ L C L+ + E
Sbjct: 24 CRILVALLDGV-CYPGQLAAHLGLTRSNVSNHLSCLRGCGLVVATYE 69
>3fvb_A Bacterioferritin; niaid, ssgcid, decode, structural genomics,
seattle structural genomics center for infectious
disease; HET: HEM; 1.81A {Brucella melitensis biovar
ABORTUS2308}
Length = 182
Score = 27.7 bits (61), Expect = 9.1
Identities = 17/67 (25%), Positives = 24/67 (35%), Gaps = 6/67 (8%)
Query: 300 HKFYAKMLAKRLIHQQSTSMDGEEAMINKLKQACGYEFT-----NKFHRMLTDIKISGGL 354
H + M Q SM GE +I +L +A E +R+L D L
Sbjct: 3 HHHHHHMGTLEAQTQGPGSMKGEPKVIERLNEALFLELGAVNQYWLHYRLLNDWGY-TRL 61
Query: 355 NEKFHSE 361
+K E
Sbjct: 62 AKKEREE 68
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.319 0.133 0.382
Gapped
Lambda K H
0.267 0.0465 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,819,561
Number of extensions: 518999
Number of successful extensions: 1099
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1048
Number of HSP's successfully gapped: 53
Length of query: 609
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 510
Effective length of database: 3,937,614
Effective search space: 2008183140
Effective search space used: 2008183140
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 60 (27.5 bits)