BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 006074
(662 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4A0L|E Chain E, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
pdb|4A0L|H Chain H, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 726
Score = 808 bits (2086), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 404/663 (60%), Positives = 510/663 (76%), Gaps = 2/663 (0%)
Query: 1 MGGNLYQRIEKECEEHISAAIRSLVGQSPDLVVFLSLVERCWQDLCDQMLMIRGIALYLD 60
+ NLY+++ + CE+HI A I S D V+FL ++RCWQ+ C QM+MIR I L+LD
Sbjct: 65 ISANLYKQLRQICEDHIKAQIHQFREDSLDSVLFLKKIDRCWQNHCRQMIMIRSIFLFLD 124
Query: 61 RTYVKQTPNVRSLWDMGLQLFRKYLSSYSEVEHKTVTGLLRMIERERLGEAVDRTLLNHL 120
RTYV Q + S+WDMGL+LFR ++ S +V++KT+ G+L +IERER GEA+DR+LL L
Sbjct: 125 RTYVLQNSMLPSIWDMGLELFRAHIISDQKVQNKTIDGILLLIERERNGEAIDRSLLRSL 184
Query: 121 LKMFTALGIYSESFEKPFLECTSEFYAAEGMKYMQQSDVPDYLKHVEIRLHEEHERCLLY 180
L M + L IY +SFE+ FLE T+ YAAEG K MQ+ +VP+YL HV RL EE +R + Y
Sbjct: 185 LSMLSDLQIYQDSFEQRFLEETNRLYAAEGQKLMQEREVPEYLHHVNKRLEEEADRLITY 244
Query: 181 LDVSTRKPLIATAERQLLERHISAILDKGFTMLMDGHRTEDLQRMYSLFSRV-NALESLR 239
LD +T+K LIAT E+QLL H++AIL KG L+D +R +DL +Y LFSRV ++ L
Sbjct: 245 LDQTTQKSLIATVEKQLLGEHLTAILQKGLNNLLDENRIQDLSLLYQLFSRVRGGVQVLL 304
Query: 240 QALAMYIRRTGHGIVMDEEKDKDMVSSLLEFKASLDTIWEQSFSKNEAFCNTIKDAFEYL 299
Q YI+ G IV++ EKDK MV LL+FK +D I + F KNE F N +K+AFE
Sbjct: 305 QQWIEYIKAFGSTIVINPEKDKTMVQELLDFKDKVDHIIDICFLKNEKFINAMKEAFETF 364
Query: 300 INLRQNRPAELIAKFLDEKLRAGNKGTSEEELEGTLDKVLVLFRFIQGKDVFEAFYKKDL 359
IN R N+PAELIAK++D KLRAGNK ++EELE LDK++++FRFI GKDVFEAFYKKDL
Sbjct: 365 INKRPNKPAELIAKYVDSKLRAGNKEATDEELEKMLDKIMIIFRFIYGKDVFEAFYKKDL 424
Query: 360 AKRLLLGKSASIDAEKSMISKLKTECGSQFTNKLEGMFKDIELSKEINESFKQSSQARTK 419
AKRLL+GKSAS+DAEKSM+SKLK ECG+ FT+KLEGMFKD+ELSK+I FKQ Q +
Sbjct: 425 AKRLLVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIMIQFKQYMQNQN- 483
Query: 420 LPSGIEMSVHVLTTGYWPTYPPMDVRLPHELNVYQDIFKEFYLSKYSGRRLMWQNSLGHC 479
+P IE++V++LT GYWPTY PM+V LP E+ Q+IFK FYL K+SGR+L WQ++LGHC
Sbjct: 484 VPGNIELTVNILTMGYWPTYVPMEVHLPPEMVKLQEIFKTFYLGKHSGRKLQWQSTLGHC 543
Query: 480 VLKAEFPKGKKELAVSLFQTVVLMLFNDAQKLSFQDIKDATGIEDKELRRTLQSLACGKV 539
VLKAEF +GKKEL VSLFQT+VL++FN+ ++ S ++IK ATGIED ELRRTLQSLACGK
Sbjct: 544 VLKAEFKEGKKELQVSLFQTLVLLMFNEGEEFSLEEIKQATGIEDGELRRTLQSLACGKA 603
Query: 540 RVLQKLPKGRDVEDDDSFVFNEGFTAPLYRIKVNAIQMKETVEENTSTTERVFQDRQYQV 599
RVL K PKG+D+ED D F+ N+ F L+RIK+N IQMKETVEE STTERVFQDRQYQ+
Sbjct: 604 RVLAKNPKGKDIEDGDKFICNDDFKHKLFRIKINQIQMKETVEEQASTTERVFQDRQYQI 663
Query: 600 DAAIVRIMKTRKVLSHTLLITELFQQLKFPIKPADLKKRIESLIDREYLERDKNNPQIYN 659
DAAIVRIMK RK LSH LL++E++ QLKFP+KPADLKKRIESLIDR+Y+ERDK NP YN
Sbjct: 664 DAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKPADLKKRIESLIDRDYMERDKENPNQYN 723
Query: 660 YLA 662
Y+A
Sbjct: 724 YIA 726
>pdb|4A0C|C Chain C, Structure Of The Cand1-Cul4b-Rbx1 Complex
pdb|4A0C|E Chain E, Structure Of The Cand1-Cul4b-Rbx1 Complex
Length = 741
Score = 807 bits (2085), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 404/663 (60%), Positives = 510/663 (76%), Gaps = 2/663 (0%)
Query: 1 MGGNLYQRIEKECEEHISAAIRSLVGQSPDLVVFLSLVERCWQDLCDQMLMIRGIALYLD 60
+ NLY+++ + CE+HI A I S D V+FL ++RCWQ+ C QM+MIR I L+LD
Sbjct: 80 ISANLYKQLRQICEDHIKAQIHQFREDSLDSVLFLKKIDRCWQNHCRQMIMIRSIFLFLD 139
Query: 61 RTYVKQTPNVRSLWDMGLQLFRKYLSSYSEVEHKTVTGLLRMIERERLGEAVDRTLLNHL 120
RTYV Q + S+WDMGL+LFR ++ S +V++KT+ G+L +IERER GEA+DR+LL L
Sbjct: 140 RTYVLQNSMLPSIWDMGLELFRAHIISDQKVQNKTIDGILLLIERERNGEAIDRSLLRSL 199
Query: 121 LKMFTALGIYSESFEKPFLECTSEFYAAEGMKYMQQSDVPDYLKHVEIRLHEEHERCLLY 180
L M + L IY +SFE+ FLE T+ YAAEG K MQ+ +VP+YL HV RL EE +R + Y
Sbjct: 200 LSMLSDLQIYQDSFEQRFLEETNRLYAAEGQKLMQEREVPEYLHHVNKRLEEEADRLITY 259
Query: 181 LDVSTRKPLIATAERQLLERHISAILDKGFTMLMDGHRTEDLQRMYSLFSRV-NALESLR 239
LD +T+K LIAT E+QLL H++AIL KG L+D +R +DL +Y LFSRV ++ L
Sbjct: 260 LDQTTQKSLIATVEKQLLGEHLTAILQKGLNNLLDENRIQDLSLLYQLFSRVRGGVQVLL 319
Query: 240 QALAMYIRRTGHGIVMDEEKDKDMVSSLLEFKASLDTIWEQSFSKNEAFCNTIKDAFEYL 299
Q YI+ G IV++ EKDK MV LL+FK +D I + F KNE F N +K+AFE
Sbjct: 320 QQWIEYIKAFGSTIVINPEKDKTMVQELLDFKDKVDHIIDICFLKNEKFINAMKEAFETF 379
Query: 300 INLRQNRPAELIAKFLDEKLRAGNKGTSEEELEGTLDKVLVLFRFIQGKDVFEAFYKKDL 359
IN R N+PAELIAK++D KLRAGNK ++EELE LDK++++FRFI GKDVFEAFYKKDL
Sbjct: 380 INKRPNKPAELIAKYVDSKLRAGNKEATDEELEKMLDKIMIIFRFIYGKDVFEAFYKKDL 439
Query: 360 AKRLLLGKSASIDAEKSMISKLKTECGSQFTNKLEGMFKDIELSKEINESFKQSSQARTK 419
AKRLL+GKSAS+DAEKSM+SKLK ECG+ FT+KLEGMFKD+ELSK+I FKQ Q +
Sbjct: 440 AKRLLVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIMIQFKQYMQNQN- 498
Query: 420 LPSGIEMSVHVLTTGYWPTYPPMDVRLPHELNVYQDIFKEFYLSKYSGRRLMWQNSLGHC 479
+P IE++V++LT GYWPTY PM+V LP E+ Q+IFK FYL K+SGR+L WQ++LGHC
Sbjct: 499 VPGNIELTVNILTMGYWPTYVPMEVHLPPEMVKLQEIFKTFYLGKHSGRKLQWQSTLGHC 558
Query: 480 VLKAEFPKGKKELAVSLFQTVVLMLFNDAQKLSFQDIKDATGIEDKELRRTLQSLACGKV 539
VLKAEF +GKKEL VSLFQT+VL++FN+ ++ S ++IK ATGIED ELRRTLQSLACGK
Sbjct: 559 VLKAEFKEGKKELQVSLFQTLVLLMFNEGEEFSLEEIKQATGIEDGELRRTLQSLACGKA 618
Query: 540 RVLQKLPKGRDVEDDDSFVFNEGFTAPLYRIKVNAIQMKETVEENTSTTERVFQDRQYQV 599
RVL K PKG+D+ED D F+ N+ F L+RIK+N IQMKETVEE STTERVFQDRQYQ+
Sbjct: 619 RVLAKNPKGKDIEDGDKFICNDDFKHKLFRIKINQIQMKETVEEQASTTERVFQDRQYQI 678
Query: 600 DAAIVRIMKTRKVLSHTLLITELFQQLKFPIKPADLKKRIESLIDREYLERDKNNPQIYN 659
DAAIVRIMK RK LSH LL++E++ QLKFP+KPADLKKRIESLIDR+Y+ERDK NP YN
Sbjct: 679 DAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKPADLKKRIESLIDRDYMERDKENPNQYN 738
Query: 660 YLA 662
Y+A
Sbjct: 739 YIA 741
>pdb|2HYE|C Chain C, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 759
Score = 807 bits (2084), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 401/660 (60%), Positives = 500/660 (75%), Gaps = 4/660 (0%)
Query: 5 LYQRIEKECEEHISAAIRSLVGQSPDLVVFLSLVERCWQDLCDQMLMIRGIALYLDRTYV 64
LY+++ + CE+H+ A I S D V+FL + CWQD C QM+MIR I L+LDRTYV
Sbjct: 102 LYKQLRQACEDHVQAQILPFREDSLDSVLFLKKINTCWQDHCRQMIMIRSIFLFLDRTYV 161
Query: 65 KQTPNVRSLWDMGLQLFRKYLSSYSEVEHKTVTGLLRMIERERLGEAVDRTLLNHLLKMF 124
Q + S+WDMGL+LFR ++ S V+ KT+ G+L +IERER GEAVDR+LL LL M
Sbjct: 162 LQNSTLPSIWDMGLELFRTHIISDKMVQSKTIDGILLLIERERSGEAVDRSLLRSLLGML 221
Query: 125 TALGIYSESFEKPFLECTSEFYAAEGMKYMQQSDVPDYLKHVEIRLHEEHERCLLYLDVS 184
+ L +Y +SFE FLE T+ YAAEG + MQ+ +VP+YL HV RL EE +R + YLD S
Sbjct: 222 SDLQVYKDSFELKFLEETNCLYAAEGQRLMQEREVPEYLNHVSKRLEEEGDRVITYLDHS 281
Query: 185 TRKPLIATAERQLLERHISAILDKGFTMLMDGHRTEDLQRMYSLFSRV-NALESLRQALA 243
T+KPLIA E+QLL H++AIL KG L+D +R DL +MY LFSRV ++L Q +
Sbjct: 282 TQKPLIACVEKQLLGEHLTAILQKGLDHLLDENRVPDLAQMYQLFSRVRGGQQALLQHWS 341
Query: 244 MYIRRTGHGIVMDEEKDKDMVSSLLEFKASLDTIWEQSFSKNEAFCNTIKDAFEYLINLR 303
YI+ G IV++ EKDKDMV LL+FK +D + E F KNE F N +K++FE IN R
Sbjct: 342 EYIKTFGTAIVINPEKDKDMVQDLLDFKDKVDHVIEVCFQKNERFVNLMKESFETFINKR 401
Query: 304 QNRPAELIAKFLDEKLRAGNKGTSEEELEGTLDKVLVLFRFIQGKDVFEAFYKKDLAKRL 363
N+PAELIAK +D KLRAGNK ++EELE TLDK+++LFRFI GKDVFEAFYKKDLAKRL
Sbjct: 402 PNKPAELIAKHVDSKLRAGNKEATDEELERTLDKIMILFRFIHGKDVFEAFYKKDLAKRL 461
Query: 364 LLGKSASIDAEKSMISKLKTECGSQFTNKLEGMFKDIELSKEINESFKQSSQARTKLPSG 423
L+GKSAS+DAEKSM+SKLK ECG+ FT+KLEGMFKD+ELSK+I FKQ Q ++ SG
Sbjct: 462 LVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIMVHFKQHMQNQSD--SG 519
Query: 424 -IEMSVHVLTTGYWPTYPPMDVRLPHELNVYQDIFKEFYLSKYSGRRLMWQNSLGHCVLK 482
I+++V++LT GYWPTY PM+V L E+ Q++FK FYL K+SGR+L WQ +LGH VLK
Sbjct: 520 PIDLTVNILTMGYWPTYTPMEVHLTPEMIKLQEVFKAFYLGKHSGRKLQWQTTLGHAVLK 579
Query: 483 AEFPKGKKELAVSLFQTVVLMLFNDAQKLSFQDIKDATGIEDKELRRTLQSLACGKVRVL 542
AEF +GKKE VSLFQT+VL++FN+ SF++IK ATGIED ELRRTLQSLACGK RVL
Sbjct: 580 AEFKEGKKEFQVSLFQTLVLLMFNEGDGFSFEEIKMATGIEDSELRRTLQSLACGKARVL 639
Query: 543 QKLPKGRDVEDDDSFVFNEGFTAPLYRIKVNAIQMKETVEENTSTTERVFQDRQYQVDAA 602
K PKG++VED D F+FN F L+RIK+N IQMKETVEE STTERVFQDRQYQ+DAA
Sbjct: 640 IKSPKGKEVEDGDKFIFNGEFKHKLFRIKINQIQMKETVEEQVSTTERVFQDRQYQIDAA 699
Query: 603 IVRIMKTRKVLSHTLLITELFQQLKFPIKPADLKKRIESLIDREYLERDKNNPQIYNYLA 662
IVRIMK RK L H LL++EL+ QLKFP+KP DLKKRIESLIDR+Y+ERDK+NP Y+Y+A
Sbjct: 700 IVRIMKMRKTLGHNLLVSELYNQLKFPVKPGDLKKRIESLIDRDYMERDKDNPNQYHYVA 759
>pdb|4A0K|A Chain A, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 742
Score = 807 bits (2084), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 401/660 (60%), Positives = 500/660 (75%), Gaps = 4/660 (0%)
Query: 5 LYQRIEKECEEHISAAIRSLVGQSPDLVVFLSLVERCWQDLCDQMLMIRGIALYLDRTYV 64
LY+++ + CE+H+ A I S D V+FL + CWQD C QM+MIR I L+LDRTYV
Sbjct: 85 LYKQLRQACEDHVQAQILPFREDSLDSVLFLKKINTCWQDHCRQMIMIRSIFLFLDRTYV 144
Query: 65 KQTPNVRSLWDMGLQLFRKYLSSYSEVEHKTVTGLLRMIERERLGEAVDRTLLNHLLKMF 124
Q + S+WDMGL+LFR ++ S V+ KT+ G+L +IERER GEAVDR+LL LL M
Sbjct: 145 LQNSTLPSIWDMGLELFRTHIISDKMVQSKTIDGILLLIERERSGEAVDRSLLRSLLGML 204
Query: 125 TALGIYSESFEKPFLECTSEFYAAEGMKYMQQSDVPDYLKHVEIRLHEEHERCLLYLDVS 184
+ L +Y +SFE FLE T+ YAAEG + MQ+ +VP+YL HV RL EE +R + YLD S
Sbjct: 205 SDLQVYKDSFELKFLEETNCLYAAEGQRLMQEREVPEYLNHVSKRLEEEGDRVITYLDHS 264
Query: 185 TRKPLIATAERQLLERHISAILDKGFTMLMDGHRTEDLQRMYSLFSRV-NALESLRQALA 243
T+KPLIA E+QLL H++AIL KG L+D +R DL +MY LFSRV ++L Q +
Sbjct: 265 TQKPLIACVEKQLLGEHLTAILQKGLDHLLDENRVPDLAQMYQLFSRVRGGQQALLQHWS 324
Query: 244 MYIRRTGHGIVMDEEKDKDMVSSLLEFKASLDTIWEQSFSKNEAFCNTIKDAFEYLINLR 303
YI+ G IV++ EKDKDMV LL+FK +D + E F KNE F N +K++FE IN R
Sbjct: 325 EYIKTFGTAIVINPEKDKDMVQDLLDFKDKVDHVIEVCFQKNERFVNLMKESFETFINKR 384
Query: 304 QNRPAELIAKFLDEKLRAGNKGTSEEELEGTLDKVLVLFRFIQGKDVFEAFYKKDLAKRL 363
N+PAELIAK +D KLRAGNK ++EELE TLDK+++LFRFI GKDVFEAFYKKDLAKRL
Sbjct: 385 PNKPAELIAKHVDSKLRAGNKEATDEELERTLDKIMILFRFIHGKDVFEAFYKKDLAKRL 444
Query: 364 LLGKSASIDAEKSMISKLKTECGSQFTNKLEGMFKDIELSKEINESFKQSSQARTKLPSG 423
L+GKSAS+DAEKSM+SKLK ECG+ FT+KLEGMFKD+ELSK+I FKQ Q ++ SG
Sbjct: 445 LVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIMVHFKQHMQNQSD--SG 502
Query: 424 -IEMSVHVLTTGYWPTYPPMDVRLPHELNVYQDIFKEFYLSKYSGRRLMWQNSLGHCVLK 482
I+++V++LT GYWPTY PM+V L E+ Q++FK FYL K+SGR+L WQ +LGH VLK
Sbjct: 503 PIDLTVNILTMGYWPTYTPMEVHLTPEMIKLQEVFKAFYLGKHSGRKLQWQTTLGHAVLK 562
Query: 483 AEFPKGKKELAVSLFQTVVLMLFNDAQKLSFQDIKDATGIEDKELRRTLQSLACGKVRVL 542
AEF +GKKE VSLFQT+VL++FN+ SF++IK ATGIED ELRRTLQSLACGK RVL
Sbjct: 563 AEFKEGKKEFQVSLFQTLVLLMFNEGDGFSFEEIKMATGIEDSELRRTLQSLACGKARVL 622
Query: 543 QKLPKGRDVEDDDSFVFNEGFTAPLYRIKVNAIQMKETVEENTSTTERVFQDRQYQVDAA 602
K PKG++VED D F+FN F L+RIK+N IQMKETVEE STTERVFQDRQYQ+DAA
Sbjct: 623 IKSPKGKEVEDGDKFIFNGEFKHKLFRIKINQIQMKETVEEQVSTTERVFQDRQYQIDAA 682
Query: 603 IVRIMKTRKVLSHTLLITELFQQLKFPIKPADLKKRIESLIDREYLERDKNNPQIYNYLA 662
IVRIMK RK L H LL++EL+ QLKFP+KP DLKKRIESLIDR+Y+ERDK+NP Y+Y+A
Sbjct: 683 IVRIMKMRKTLGHNLLVSELYNQLKFPVKPGDLKKRIESLIDRDYMERDKDNPNQYHYVA 742
>pdb|1LDJ|A Chain A, Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 760
Score = 326 bits (836), Expect = 2e-89, Method: Compositional matrix adjust.
Identities = 229/705 (32%), Positives = 361/705 (51%), Gaps = 55/705 (7%)
Query: 1 MGGNLYQRIEKECEEHISAAIRSLVGQSPDLV--VFLSLVERCWQDLCDQMLMIRGIALY 58
+G LY+R++ E + + +L+ DL+ L + W+D ++ GI Y
Sbjct: 68 VGLELYKRLK----EFLKNYLTNLLKDGEDLMDESVLKFYTQQWEDYRFSSKVLNGICAY 123
Query: 59 LDRTYVKQTPN-----VRSLWDMGLQLFRKYLSSYSEVEHKTVTGLLRMIERERLGEAVD 113
L+R +V++ + + ++ + L +R L + + + +L++IE+ER GE ++
Sbjct: 124 LNRHWVRRECDEGRKGIYEIYSLALVTWRDCL--FRPLNKQVTNAVLKLIEKERNGETIN 181
Query: 114 RTLLNHLLKMFTALG--------------IYSESFEKPFLECTSEFYAAEGMKYMQQSDV 159
L++ +++ + LG +Y ESFE FL T FY E +++QQ+ V
Sbjct: 182 TRLISGVVQSYVELGLNEDDAFAKGPTLTVYKESFESQFLADTERFYTRESTEFLQQNPV 241
Query: 160 PDYLKHVEIRLHEEHERCLLYLDVSTRKPLIATAERQLLERHISAILDKGFTMLMDGHRT 219
+Y+K E RL EE R +YL ST+ L E+ L+E+H+ I F L+D +
Sbjct: 242 TEYMKKAEARLLEEQRRVQVYLHESTQDELARKCEQVLIEKHLE-IFHTEFQNLLDADKN 300
Query: 220 EDLQRMYSLFSRV-NALESLRQALAMYIRRTGHGIVMDEEK-------DKDM-VSSLLEF 270
EDL RMY+L SR+ + L L++ L +I G + EK D M V ++L+
Sbjct: 301 EDLGRMYNLVSRIQDGLGELKKLLETHIHNQGLAAI---EKCGEAALNDPKMYVQTVLDV 357
Query: 271 KASLDTIWEQSFSKNEAFCNTIKDAFEYLIN--------LRQNRPAELIAKFLDEKLRAG 322
+ + +F+ + F + A IN ++ EL+A++ D L+
Sbjct: 358 HKKYNALVMSAFNNDAGFVAALDKACGRFINNNAVTKMAQSSSKSPELLARYCDSLLKKS 417
Query: 323 NKGTSEEELEGTLDKVLVLFRFIQGKDVFEAFYKKDLAKRLLLGKSASIDAEKSMISKLK 382
+K E ELE TL++V+V+F++I+ KDVF+ FY K LAKRL+ SAS DAE SMISKLK
Sbjct: 418 SKNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLK 477
Query: 383 TECGSQFTNKLEGMFKDIELSKEINESFKQSSQARTKLPSGIEMSVHVLTTGYWPTYPPM 442
CG ++T+KL+ MF+DI +SK++NE FK+ P ++ S+ VL++G WP
Sbjct: 478 QACGFEYTSKLQRMFQDIGVSKDLNEQFKK--HLTNSEPLDLDFSIQVLSSGSWPFQQSC 535
Query: 443 DVRLPHELNVYQDIFKEFYLSKYSGRRLMWQNSLGHCVLKAEFPKGKKELAVSLFQTVVL 502
LP EL F FY S++SGR+L W L L K + L S FQ +L
Sbjct: 536 TFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQMAIL 595
Query: 503 MLFNDAQKLSFQDIKDATGIEDKELRRTLQSLACGKVRVLQKLPKGRD---VEDDDSFVF 559
+ +N + Q + D+T I+ L + LQ L K+ VL+ D ++ D
Sbjct: 596 LQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKSKLLVLEDENANVDEVELKPDTLIKL 655
Query: 560 NEGFTAPLYRIKVNAIQMKETVEENTSTTERVFQDRQYQVDAAIVRIMKTRKVLSHTLLI 619
G+ R+ +N E +E +T + + +DR+ + AAIVRIMK RKVL H L+
Sbjct: 656 YLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLL 715
Query: 620 TELFQQLKFPIKP--ADLKKRIESLIDREYLERDKNNPQIYNYLA 662
E+ QL KP +KK I+ LI++EYLER Y+YLA
Sbjct: 716 GEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEKDTYSYLA 760
>pdb|1U6G|A Chain A, Crystal Structure Of The Cand1-Cul1-Roc1 Complex
Length = 776
Score = 326 bits (835), Expect = 3e-89, Method: Compositional matrix adjust.
Identities = 229/705 (32%), Positives = 361/705 (51%), Gaps = 55/705 (7%)
Query: 1 MGGNLYQRIEKECEEHISAAIRSLVGQSPDLV--VFLSLVERCWQDLCDQMLMIRGIALY 58
+G LY+R++ E + + +L+ DL+ L + W+D ++ GI Y
Sbjct: 84 VGLELYKRLK----EFLKNYLTNLLKDGEDLMDESVLKFYTQQWEDYRFSSKVLNGICAY 139
Query: 59 LDRTYVKQTPN-----VRSLWDMGLQLFRKYLSSYSEVEHKTVTGLLRMIERERLGEAVD 113
L+R +V++ + + ++ + L +R L + + + +L++IE+ER GE ++
Sbjct: 140 LNRHWVRRECDEGRKGIYEIYSLALVTWRDCL--FRPLNKQVTNAVLKLIEKERNGETIN 197
Query: 114 RTLLNHLLKMFTALG--------------IYSESFEKPFLECTSEFYAAEGMKYMQQSDV 159
L++ +++ + LG +Y ESFE FL T FY E +++QQ+ V
Sbjct: 198 TRLISGVVQSYVELGLNEDDAFAKGPTLTVYKESFESQFLADTERFYTRESTEFLQQNPV 257
Query: 160 PDYLKHVEIRLHEEHERCLLYLDVSTRKPLIATAERQLLERHISAILDKGFTMLMDGHRT 219
+Y+K E RL EE R +YL ST+ L E+ L+E+H+ I F L+D +
Sbjct: 258 TEYMKKAEARLLEEQRRVQVYLHESTQDELARKCEQVLIEKHLE-IFHTEFQNLLDADKN 316
Query: 220 EDLQRMYSLFSRV-NALESLRQALAMYIRRTGHGIVMDEEK-------DKDM-VSSLLEF 270
EDL RMY+L SR+ + L L++ L +I G + EK D M V ++L+
Sbjct: 317 EDLGRMYNLVSRIQDGLGELKKLLETHIHNQGLAAI---EKCGEAALNDPKMYVQTVLDV 373
Query: 271 KASLDTIWEQSFSKNEAFCNTIKDAFEYLIN--------LRQNRPAELIAKFLDEKLRAG 322
+ + +F+ + F + A IN ++ EL+A++ D L+
Sbjct: 374 HKKYNALVMSAFNNDAGFVAALDKACGRFINNNAVTKMAQSSSKSPELLARYCDSLLKKS 433
Query: 323 NKGTSEEELEGTLDKVLVLFRFIQGKDVFEAFYKKDLAKRLLLGKSASIDAEKSMISKLK 382
+K E ELE TL++V+V+F++I+ KDVF+ FY K LAKRL+ SAS DAE SMISKLK
Sbjct: 434 SKNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMISKLK 493
Query: 383 TECGSQFTNKLEGMFKDIELSKEINESFKQSSQARTKLPSGIEMSVHVLTTGYWPTYPPM 442
CG ++T+KL+ MF+DI +SK++NE FK+ P ++ S+ VL++G WP
Sbjct: 494 QACGFEYTSKLQRMFQDIGVSKDLNEQFKK--HLTNSEPLDLDFSIQVLSSGSWPFQQSC 551
Query: 443 DVRLPHELNVYQDIFKEFYLSKYSGRRLMWQNSLGHCVLKAEFPKGKKELAVSLFQTVVL 502
LP EL F FY S++SGR+L W L L K + L S FQ +L
Sbjct: 552 TFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQMAIL 611
Query: 503 MLFNDAQKLSFQDIKDATGIEDKELRRTLQSLACGKVRVLQKLPKGRD---VEDDDSFVF 559
+ +N + Q + D+T I+ L + LQ L K+ VL+ D ++ D
Sbjct: 612 LQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKSKLLVLEDENANVDEVELKPDTLIKL 671
Query: 560 NEGFTAPLYRIKVNAIQMKETVEENTSTTERVFQDRQYQVDAAIVRIMKTRKVLSHTLLI 619
G+ R+ +N E +E +T + + +DR+ + AAIVRIMK RKVL H L+
Sbjct: 672 YLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLL 731
Query: 620 TELFQQLKFPIKP--ADLKKRIESLIDREYLERDKNNPQIYNYLA 662
E+ QL KP +KK I+ LI++EYLER Y+YLA
Sbjct: 732 GEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEKDTYSYLA 776
>pdb|4A64|A Chain A, Crystal Structure Of The N-Terminal Domain Of Human Cul4b
At 2.57a Resolution
pdb|4A64|B Chain B, Crystal Structure Of The N-Terminal Domain Of Human Cul4b
At 2.57a Resolution
pdb|4A64|C Chain C, Crystal Structure Of The N-Terminal Domain Of Human Cul4b
At 2.57a Resolution
pdb|4A64|D Chain D, Crystal Structure Of The N-Terminal Domain Of Human Cul4b
At 2.57a Resolution
Length = 354
Score = 276 bits (707), Expect = 2e-74, Method: Compositional matrix adjust.
Identities = 153/306 (50%), Positives = 206/306 (67%), Gaps = 1/306 (0%)
Query: 1 MGGNLYQRIEKECEEHISAAIRSLVGQSPDLVVFLSLVERCWQDLCDQMLMIRGIALYLD 60
+ NLY+++ + CE+HI A I S D V+FL ++RCWQ+ C QM+MIR I L+LD
Sbjct: 49 ISANLYKQLRQICEDHIKAQIHQFREDSLDSVLFLKKIDRCWQNHCRQMIMIRSIFLFLD 108
Query: 61 RTYVKQTPNVRSLWDMGLQLFRKYLSSYSEVEHKTVTGLLRMIERERLGEAVDRTLLNHL 120
RTYV Q + S+WDMGL+LFR ++ S +V++KT+ G+L +IERER GEA+DR+LL L
Sbjct: 109 RTYVLQNSMLPSIWDMGLELFRAHIISDQKVQNKTIDGILLLIERERNGEAIDRSLLRSL 168
Query: 121 LKMFTALGIYSESFEKPFLECTSEFYAAEGMKYMQQSDVPDYLKHVEIRLHEEHERCLLY 180
L M + L IY +SFE+ FLE T+ YAAEG K MQ+ +VP+YL HV RL EE +R + Y
Sbjct: 169 LSMLSDLQIYQDSFEQRFLEETNRLYAAEGQKLMQEREVPEYLHHVNKRLEEEADRLITY 228
Query: 181 LDVSTRKPLIATAERQLLERHISAILDKGFTMLMDGHRTEDLQRMYSLFSRV-NALESLR 239
LD +T+K LIAT E+QLL H++AIL KG L+D +R +DL +Y LFSRV ++ L
Sbjct: 229 LDQTTQKSLIATVEKQLLGEHLTAILQKGLNNLLDENRIQDLSLLYQLFSRVRGGVQVLL 288
Query: 240 QALAMYIRRTGHGIVMDEEKDKDMVSSLLEFKASLDTIWEQSFSKNEAFCNTIKDAFEYL 299
Q YI+ G IV++ EKDK M L +FK +D I + F KNE F N +K+AFE
Sbjct: 289 QQWIEYIKAFGSTIVINPEKDKTMRQELDDFKDKVDHIIDICFLKNEKFINAMKEAFETF 348
Query: 300 INLRQN 305
IN R N
Sbjct: 349 INKRPN 354
>pdb|1LDK|B Chain B, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 366
Score = 225 bits (573), Expect = 7e-59, Method: Compositional matrix adjust.
Identities = 139/363 (38%), Positives = 202/363 (55%), Gaps = 7/363 (1%)
Query: 305 NRPAELIAKFLDEKLRAGNKGTSEEELEGTLDKVLVLFRFIQGKDVFEAFYKKDLAKRLL 364
++ EL+A++ D L+ +K E ELE TL++V+V+F++I+ KDVF+ FY K LAKRL+
Sbjct: 6 SKSPELLARYCDSLLKKSSKNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKRLV 65
Query: 365 LGKSASIDAEKSMISKLKTECGSQFTNKLEGMFKDIELSKEINESFKQSSQARTKLPSGI 424
SAS DAE SMISKLK CG ++T+KL+ MF+DI +SK++NE FK+ P +
Sbjct: 66 HQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKK--HLTNSEPLDL 123
Query: 425 EMSVHVLTTGYWPTYPPMDVRLPHELNVYQDIFKEFYLSKYSGRRLMWQNSLGHCVLKAE 484
+ S+ VL++G WP LP EL F FY S++SGR+L W L L
Sbjct: 124 DFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTN 183
Query: 485 FPKGKKELAVSLFQTVVLMLFNDAQKLSFQDIKDATGIEDKELRRTLQSLACGKVRVLQK 544
K + L S FQ +L+ +N + Q + D+T I+ L + LQ L K+ VL+
Sbjct: 184 CFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKSKLLVLED 243
Query: 545 LPKGRD---VEDDDSFVFNEGFTAPLYRIKVNAIQMKETVEENTSTTERVFQDRQYQVDA 601
D ++ D G+ R+ +N E +E +T + + +DR+ + A
Sbjct: 244 ENANVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEEDRKLLIQA 303
Query: 602 AIVRIMKTRKVLSHTLLITELFQQLKFPIKP--ADLKKRIESLIDREYLERDKNNPQIYN 659
AIVRIMK RKVL H L+ E+ QL KP +KK I+ LI++EYLER Y+
Sbjct: 304 AIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEKDTYS 363
Query: 660 YLA 662
YLA
Sbjct: 364 YLA 366
>pdb|3RTR|A Chain A, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|C Chain C, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|E Chain E, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|G Chain G, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
Length = 368
Score = 214 bits (546), Expect = 9e-56, Method: Compositional matrix adjust.
Identities = 137/363 (37%), Positives = 198/363 (54%), Gaps = 7/363 (1%)
Query: 305 NRPAELIAKFLDEKLRAGNKGTSEEELEGTLDKVLVLFRFIQGKDVFEAFYKKDLAKRLL 364
++ E +A++ D L+ +K E ELE TL++V+ F+ I+ KDVF+ FY K LAKRL+
Sbjct: 8 SKSPEELARYCDSLLKKSSKNPEEAELEDTLNQVMEKFKKIEDKDVFQKFYAKMLAKRLV 67
Query: 365 LGKSASIDAEKSMISKLKTECGSQFTNKLEGMFKDIELSKEINESFKQSSQARTKLPSGI 424
SAS DAE SMISKLK CG ++T+KL+ MF+DI +SK++NE FK+ P +
Sbjct: 68 HQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKK--HLTNSEPLDL 125
Query: 425 EMSVHVLTTGYWPTYPPMDVRLPHELNVYQDIFKEFYLSKYSGRRLMWQNSLGHCVLKAE 484
+ S+ VL++G WP LP EL F FY S++SGR+L W L L
Sbjct: 126 DFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTN 185
Query: 485 FPKGKKELAVSLFQTVVLMLFNDAQKLSFQDIKDATGIEDKELRRTLQSLACGKVRVLQK 544
K + L S FQ +L+ +N + Q + D+T I+ L + LQ L K+ VL+
Sbjct: 186 CFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKSKLLVLED 245
Query: 545 LPKGRD---VEDDDSFVFNEGFTAPLYRIKVNAIQMKETVEENTSTTERVFQDRQYQVDA 601
D ++ D G+ R+ +N E +E +T + + +DR+ + A
Sbjct: 246 ENANVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETTHKNIEEDRKLLIQA 305
Query: 602 AIVRIMKTRKVLSHTLLITELFQQLKFPIKP--ADLKKRIESLIDREYLERDKNNPQIYN 659
AIVRIMK RKVL H L+ E+ QL KP +KK I+ LI++EYLER Y+
Sbjct: 306 AIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEKDTYS 365
Query: 660 YLA 662
YLA
Sbjct: 366 YLA 368
>pdb|4AP2|B Chain B, Crystal Structure Of The Human Klhl11-cul3 Complex At 2.8a
Resolution
Length = 410
Score = 187 bits (475), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 112/321 (34%), Positives = 175/321 (54%), Gaps = 14/321 (4%)
Query: 2 GGNLYQRIEKECEEHISAAIRSLVGQSPDLVVFLSLVERCWQDLCDQMLMIRGIALYLDR 61
G LY + + EH+ +R V S + FL + + W D M+MIR I +Y+DR
Sbjct: 70 GEKLYTGLREVVTEHLINKVREDVLNSLN-NNFLQTLNQAWNDHQTAMVMIRDILMYMDR 128
Query: 62 TYVKQTPNVRSLWDMGLQLFRKYLSSYSEVEHKTVTGLLRMIERERLGEAVDRTLLNHLL 121
YV+Q NV +++++GL +FR + Y + LL MI RER GE VDR + +
Sbjct: 129 VYVQQN-NVENVYNLGLIIFRDQVVRYGCIRDHLRQTLLDMIARERKGEVVDRGAIRNAC 187
Query: 122 KMFTALG-----IYSESFEKPFLECTSEFYAAEGMKYMQQSDVPDYLKHVEIRLHEEHER 176
+M LG +Y E FE PFLE ++EF+ E K++ ++ Y+K VE R++EE ER
Sbjct: 188 QMLMILGLEGRSVYEEDFEAPFLEMSAEFFQMESQKFLAENSASVYIKKVEARINEEIER 247
Query: 177 CLLYLDVSTRKPLIATAERQLLERHISAIL---DKGFTMLMDGHRTEDLQRMYSLFSRV- 232
+ LD ST +P++ ER+L+ +H+ I+ + G ++ +TEDL MY LFSRV
Sbjct: 248 VMHCLDKSTEEPIVKVVERELISKHMKTIVEMENSGLVHMLKNGKTEDLGCMYKLFSRVP 307
Query: 233 NALESLRQALAMYIRRTGHGIVMDEEKDKDMVS---SLLEFKASLDTIWEQSFSKNEAFC 289
N L+++ + ++ Y+R G +V +E + K+ V L + K+ D +SF+ + F
Sbjct: 308 NGLKTMCECMSSYLREQGKALVSEEGEGKNPVDYRQGLDDLKSRFDRFLLESFNNDRLFK 367
Query: 290 NTIKDAFEYLINLRQNRPAEL 310
TI FEY +NL P L
Sbjct: 368 QTIAGDFEYFLNLNSRSPEYL 388
>pdb|4APF|B Chain B, Crystal Structure Of The Human Klhl11-cul3 Complex At 3.1a
Resolution
Length = 388
Score = 187 bits (474), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 112/321 (34%), Positives = 175/321 (54%), Gaps = 14/321 (4%)
Query: 2 GGNLYQRIEKECEEHISAAIRSLVGQSPDLVVFLSLVERCWQDLCDQMLMIRGIALYLDR 61
G LY + + EH+ +R V S + FL + + W D M+MIR I +Y+DR
Sbjct: 48 GEKLYTGLREVVTEHLINKVREDVLNSLN-NNFLQTLNQAWNDHQTAMVMIRDILMYMDR 106
Query: 62 TYVKQTPNVRSLWDMGLQLFRKYLSSYSEVEHKTVTGLLRMIERERLGEAVDRTLLNHLL 121
YV+Q NV +++++GL +FR + Y + LL MI RER GE VDR + +
Sbjct: 107 VYVQQN-NVENVYNLGLIIFRDQVVRYGCIRDHLRQTLLDMIARERKGEVVDRGAIRNAC 165
Query: 122 KMFTALG-----IYSESFEKPFLECTSEFYAAEGMKYMQQSDVPDYLKHVEIRLHEEHER 176
+M LG +Y E FE PFLE ++EF+ E K++ ++ Y+K VE R++EE ER
Sbjct: 166 QMLMILGLEGRSVYEEDFEAPFLEMSAEFFQMESQKFLAENSASVYIKKVEARINEEIER 225
Query: 177 CLLYLDVSTRKPLIATAERQLLERHISAIL---DKGFTMLMDGHRTEDLQRMYSLFSRV- 232
+ LD ST +P++ ER+L+ +H+ I+ + G ++ +TEDL MY LFSRV
Sbjct: 226 VMHCLDKSTEEPIVKVVERELISKHMKTIVEMENSGLVHMLKNGKTEDLGCMYKLFSRVP 285
Query: 233 NALESLRQALAMYIRRTGHGIVMDEEKDKDMVS---SLLEFKASLDTIWEQSFSKNEAFC 289
N L+++ + ++ Y+R G +V +E + K+ V L + K+ D +SF+ + F
Sbjct: 286 NGLKTMCECMSSYLREQGKALVSEEGEGKNPVDYRQGLDDLKSRFDRFLLESFNNDRLFK 345
Query: 290 NTIKDAFEYLINLRQNRPAEL 310
TI FEY +NL P L
Sbjct: 346 QTIAGDFEYFLNLNSRSPEYL 366
>pdb|4EOZ|B Chain B, Crystal Structure Of The Spop Btb Domain Complexed With
The Cul3 N- Terminal Domain
pdb|4EOZ|D Chain D, Crystal Structure Of The Spop Btb Domain Complexed With
The Cul3 N- Terminal Domain
Length = 364
Score = 164 bits (416), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 105/313 (33%), Positives = 161/313 (51%), Gaps = 14/313 (4%)
Query: 2 GGNLYQRIEKECEEHISAAIRSLVGQSPDLVVFLSLVERCWQDLCDQMLMIRGIALYLDR 61
G LY + + EH+ +R V S + FL + + W D + IR I Y DR
Sbjct: 53 GEKLYTGLREVVTEHLINKVREDVLNSLN-NNFLQTLNQAWNDHQTAXVXIRDILXYXDR 111
Query: 62 TYVKQTPNVRSLWDMGLQLFRKYLSSYSEVEHKTVTGLLRMIERERLGEAVDRTLLNHLL 121
YV+Q NV +++++GL +FR + Y + LL I RER GE VDR + +
Sbjct: 112 VYVQQN-NVENVYNLGLIIFRDQVVRYGCIRDHLRQTLLDXIARERKGEVVDRGAIRNAC 170
Query: 122 KMFTALG-----IYSESFEKPFLECTSEFYAAEGMKYMQQSDVPDYLKHVEIRLHEEHER 176
+ LG +Y E FE PFLE ++EF+ E K++ ++ Y+K VE R++EE ER
Sbjct: 171 QXLXILGLEGRSVYEEDFEAPFLEXSAEFFQXESQKFLAENSASVYIKKVEARINEEIER 230
Query: 177 CLLYLDVSTRKPLIATAERQLLERHISAIL---DKGFTMLMDGHRTEDLQRMYSLFSRV- 232
LD ST +P++ ER+L+ +H I+ + G + +TEDL Y LFSRV
Sbjct: 231 VXHCLDKSTEEPIVKVVERELISKHXKTIVEXENSGLVHXLKNGKTEDLGCXYKLFSRVP 290
Query: 233 NALESLRQALAMYIRRTGHGIVMDEEKDKDMVS---SLLEFKASLDTIWEQSFSKNEAFC 289
N L++ + + Y+R G +V +E + K+ V L + K+ D +SF+ + F
Sbjct: 291 NGLKTXCECXSSYLREQGKALVSEEGEGKNPVDYRQGLDDLKSRFDRFLLESFNNDRLFK 350
Query: 290 NTIKDAFEYLINL 302
TI FEY +NL
Sbjct: 351 QTIAGDFEYFLNL 363
>pdb|4F52|A Chain A, Structure Of A Glomulin-Rbx1-Cul1 Complex
pdb|4F52|C Chain C, Structure Of A Glomulin-Rbx1-Cul1 Complex
Length = 282
Score = 159 bits (402), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 94/239 (39%), Positives = 136/239 (56%), Gaps = 2/239 (0%)
Query: 305 NRPAELIAKFLDEKLRAGNKGTSEEELEGTLDKVLVLFRFIQGKDVFEAFYKKDLAKRLL 364
++ E +A++ D L+ +K E ELE TL++V+ F+ I+ KDVF+ FY K LAKRL+
Sbjct: 8 SKSPEELARYCDSLLKKSSKNPEEAELEDTLNQVMEKFKKIEDKDVFQKFYAKMLAKRLV 67
Query: 365 LGKSASIDAEKSMISKLKTECGSQFTNKLEGMFKDIELSKEINESFKQSSQARTKLPSGI 424
SAS DAE SMISKLK CG ++T+KL+ MF+DI +SK++NE FK+ P +
Sbjct: 68 HQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKK--HLTNSEPLDL 125
Query: 425 EMSVHVLTTGYWPTYPPMDVRLPHELNVYQDIFKEFYLSKYSGRRLMWQNSLGHCVLKAE 484
+ S+ VL++G WP LP EL F FY S++SGR+L W L L
Sbjct: 126 DFSIQVLSSGSWPFQQSCTFALPSELERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTN 185
Query: 485 FPKGKKELAVSLFQTVVLMLFNDAQKLSFQDIKDATGIEDKELRRTLQSLACGKVRVLQ 543
K + L S FQ +L+ +N + Q + D+T I+ L + LQ L K+ VL+
Sbjct: 186 CFKNRYTLQASTFQMAILLQYNTEDAYTVQQLTDSTQIKMDILAQVLQILLKSKLLVLE 244
>pdb|2DO7|A Chain A, Solution Structure Of The Winged Helix-Turn-Helix Motif Of
Human Cul-4b
Length = 101
Score = 154 bits (389), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 70/90 (77%), Positives = 80/90 (88%)
Query: 573 NAIQMKETVEENTSTTERVFQDRQYQVDAAIVRIMKTRKVLSHTLLITELFQQLKFPIKP 632
+ IQMKETVEE STTERVFQDRQYQ+DAAIVRIMK RK LSH LL++E++ QLKFP+KP
Sbjct: 6 SGIQMKETVEEQASTTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKP 65
Query: 633 ADLKKRIESLIDREYLERDKNNPQIYNYLA 662
ADLKKRIESLIDR+Y+ERDK NP YNY+A
Sbjct: 66 ADLKKRIESLIDRDYMERDKENPNQYNYIA 95
>pdb|3DPL|C Chain C, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 382
Score = 146 bits (369), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 128/385 (33%), Positives = 210/385 (54%), Gaps = 38/385 (9%)
Query: 307 PAELIAKFLDEKLRAG--NKGTSEEELEGTLDKVLVLFRFIQGKDVFEAFYKKDLAKRLL 364
P EL A + D LR +K + EE+E L +VL +++Q KDVF ++K L +RL+
Sbjct: 7 PEEL-ANYCDMLLRKTPLSKKLTSEEIEAKLKEVLKKLKYVQNKDVFMRYHKAHLTRRLI 65
Query: 365 LGKSASIDAEKSMISKLKTECG--SQFTNKLEGMFKDIELSKEINESFKQ-SSQARTKLP 421
L SA + E++M+ L+ E G + + NKL MF+DI++S+++N++FK+ + LP
Sbjct: 66 LDISADSEIEENMVEWLR-EVGMPADYVNKLARMFQDIKVSEDLNQAFKEMHKNNKLALP 124
Query: 422 SGIEMSVHVLTTGYWP-TYPPMDVRLPHELNVYQDIFKEFYLSKYSGRRLMWQNSLGHCV 480
+ +++ +L G W + + V LP EL +EFY +SGR+L W + + + +
Sbjct: 125 AD-SVNIKILNAGAWSRSSEKVFVSLPTELEDLIPEVEEFYKKNHSGRKLHWHHLMSNGI 183
Query: 481 LKAEFPKGKKELAVSLFQTVVLMLFND--AQKLSFQDIKDATGIEDKELRRTLQSLACG- 537
+ + G+ +L V+ FQ VL +N +K+SF+++K AT + D ELRRTL SL
Sbjct: 184 ITFKNEVGQYDLEVTTFQLAVLFAWNQRPREKISFENLKLATELPDAELRRTLWSLVAFP 243
Query: 538 --KVRVLQKLPK---GRDVEDDDSFVFNEGFT-----APLYRIKVNAI--------QMKE 579
K +VL P+ +D + F N+ F+ R K+N I +M+E
Sbjct: 244 KLKRQVLLYEPQVNSPKDFTEGTLFSVNQEFSLIKNAKVQKRGKINLIGRLQLTTERMRE 303
Query: 580 TVEENTSTTERVFQDRQYQVDAAIVRIMKTRKVLSHTLLITELFQQLKFPIKPAD--LKK 637
EEN E + Q R + AI++IMK RK +S+ L TEL + LK P +K+
Sbjct: 304 --EEN----EGIVQLRILRTQEAIIQIMKMRKKISNAQLQTELVEILKNMFLPQKKMIKE 357
Query: 638 RIESLIDREYLERDKNNPQIYNYLA 662
+IE LI+ +Y+ RD+++ + Y+A
Sbjct: 358 QIEWLIEHKYIRRDESDINTFIYMA 382
>pdb|3DQV|C Chain C, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
pdb|3DQV|D Chain D, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 382
Score = 135 bits (339), Expect = 9e-32, Method: Compositional matrix adjust.
Identities = 121/379 (31%), Positives = 201/379 (53%), Gaps = 26/379 (6%)
Query: 307 PAELIAKFLDEKLRAG--NKGTSEEELEGTLDKVLVLFRFIQGKDVFEAFYKKDLAKRLL 364
P EL A + D LR +K + EE+E L +VL +++Q KDVF ++K L +RL+
Sbjct: 7 PEEL-ANYCDXLLRKTPLSKKLTSEEIEAKLKEVLKKLKYVQNKDVFXRYHKAHLTRRLI 65
Query: 365 LGKSASIDAEKSMISKLKTECG--SQFTNKLEGMFKDIELSKEINESFKQSSQ-ARTKLP 421
L SA + E++ + L+ E G + + NKL F+DI++S+++N++FK+ + + LP
Sbjct: 66 LDISADSEIEENXVEWLR-EVGXPADYVNKLARXFQDIKVSEDLNQAFKEXHKNNKLALP 124
Query: 422 SGIEMSVHVLTTGYWP-TYPPMDVRLPHELNVYQDIFKEFYLSKYSGRRLMWQNSLGHCV 480
+ +++ +L G W + + V LP EL +EFY +SGR+L W + + +
Sbjct: 125 AD-SVNIKILNAGAWSRSSEKVFVSLPTELEDLIPEVEEFYKKNHSGRKLHWHHLXSNGI 183
Query: 481 LKAEFPKGKKELAVSLFQTVVLMLFND--AQKLSFQDIKDATGIEDKELRRTLQSLACG- 537
+ + G+ +L V+ FQ VL +N +K+SF+++K AT + D ELRRTL SL
Sbjct: 184 ITFKNEVGQYDLEVTTFQLAVLFAWNQRPREKISFENLKLATELPDAELRRTLWSLVAFP 243
Query: 538 --KVRVLQKLPK---GRDVEDDDSFVFNEGFT-----APLYRIKVNAIQMKE--TVEENT 585
K +VL P+ +D + F N+ F+ R K+N I + T
Sbjct: 244 KLKRQVLLYEPQVNSPKDFTEGTLFSVNQEFSLIKNAKVQKRGKINLIGRLQLTTERXRE 303
Query: 586 STTERVFQDRQYQVDAAIVRIMKTRKVLSHTLLITELFQQLKFPIKPAD--LKKRIESLI 643
E + Q R + AI++I K RK +S+ L TEL + LK P +K++IE LI
Sbjct: 304 EENEGIVQLRILRTQEAIIQIXKXRKKISNAQLQTELVEILKNXFLPQKKXIKEQIEWLI 363
Query: 644 DREYLERDKNNPQIYNYLA 662
+ +Y+ RD+++ + Y A
Sbjct: 364 EHKYIRRDESDINTFIYXA 382
>pdb|1LDK|A Chain A, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 396
Score = 114 bits (284), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 88/328 (26%), Positives = 157/328 (47%), Gaps = 34/328 (10%)
Query: 1 MGGNLYQRIEKECEEHISAAIRSLVGQSPDLV--VFLSLVERCWQDLCDQMLMIRGIALY 58
+G LY+R++ E + + +L+ DL+ L + W+D ++ GI Y
Sbjct: 70 VGLELYKRLK----EFLKNYLTNLLKDGEDLMDESVLKFYTQQWEDYRFSSKVLNGICAY 125
Query: 59 LDRTYVKQTPN-----VRSLWDMGLQLFRKYLSSYSEVEHKTVTGLLRMIERERLGEAVD 113
L+R +V++ + + ++ + L +R L + + + +L++IE+ER GE ++
Sbjct: 126 LNRHWVRRECDEGRKGIYEIYSLALVTWRDCL--FRPLNKQVTNAVLKLIEKERNGETIN 183
Query: 114 RTLLNHLLKMFTALG--------------IYSESFEKPFLECTSEFYAAEGMKYMQQSDV 159
L++ +++ + LG +Y ESFE FL T FY E +++QQ+ V
Sbjct: 184 TRLISGVVQSYVELGLNEDDAFAKGPTLTVYKESFESQFLADTERFYTRESTEFLQQNPV 243
Query: 160 PDYLKHVEIRLHEEHERCLLYLDVSTRKPLIATAERQLLERHISAILDKGFTMLMDGHRT 219
+Y+K E RL EE R +YL ST+ L E+ L+E+H+ I F L+D +
Sbjct: 244 TEYMKKAEARLLEEQRRVQVYLHESTQDELARKCEQVLIEKHLE-IFHTEFQNLLDADKN 302
Query: 220 EDLQRMYSLFSRV-NALESLRQALAMYIRRTGHGIV--MDEEKDKD---MVSSLLEFKAS 273
EDL RMY+L SR+ + L L++ L +I G + E D V ++L+
Sbjct: 303 EDLGRMYNLVSRIQDGLGELKKLLETHIHNQGLAAIEKCGEAALNDPKMYVQTVLDVHKK 362
Query: 274 LDTIWEQSFSKNEAFCNTIKDAFEYLIN 301
+ + +F+ + F + A IN
Sbjct: 363 YNALVMSAFNNDAGFVAALDKACGRFIN 390
>pdb|1IUY|A Chain A, Solution Structure Of The Cullin-3 Homologue
Length = 92
Score = 79.0 bits (193), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 41/91 (45%), Positives = 61/91 (67%), Gaps = 2/91 (2%)
Query: 574 AIQMKETVEENTSTTERVFQDRQYQVDAAIVRIMKTRKVLSHTLLITELFQQLK--FPIK 631
A + E+ E T ++V DR+++++AAIVRIMK+RK + H +L+ E+ QQLK F
Sbjct: 2 AAKQGESDPERKETRQKVDDDRKHEIEAAIVRIMKSRKKMQHNVLVAEVTQQLKARFLPS 61
Query: 632 PADLKKRIESLIDREYLERDKNNPQIYNYLA 662
P +KKRIE LI+REYL R + ++Y Y+A
Sbjct: 62 PVVIKKRIEGLIEREYLARTPEDRKVYTYVA 92
>pdb|2WZK|A Chain A, Structure Of The Cul5 N-Terminal Domain At 2.05a
Resolution
Length = 391
Score = 74.3 bits (181), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 66/264 (25%), Positives = 125/264 (47%), Gaps = 33/264 (12%)
Query: 65 KQTPNVRSLWDMGLQLFRKYL------SSYSEVEHKTVTGLLRMIERERLGEAVDRTLLN 118
KQ+ N +S +M + RK + S +S ++++ ++++ ERLGEA D L+
Sbjct: 121 KQSSNKKS--NMEDSIVRKLMLDTWNESIFSNIKNRLQDSAMKLVHAERLGEAFDSQLVI 178
Query: 119 HLLKMFT--------ALGIYSESFEKPFLECTSEFYAAEGMKYMQQSDVPDYLKHVEIRL 170
+ + + L IY ++FEK +L+ T FY + Y+QQ+ V +Y+K+ + +L
Sbjct: 179 GVRESYVNLCSNPEDKLQIYRDNFEKAYLDSTERFYRTQAPSYLQQNGVQNYMKYADAKL 238
Query: 171 HEEHERCLLYLDV----STRKPLIATAERQLLERHISAILDKGFTMLMDGHRTEDLQRMY 226
EE +R L YL+ ++ + L+ L+ IL + M+ + TE L M+
Sbjct: 239 KEEEKRALRYLETRRECNSVEALMECCVNALVTSFKETILAECQGMI-KRNETEKLHLMF 297
Query: 227 SLFSRV-NALESLRQALAMYIRRTG--------HGIVMDEEKDKDMVSSLLEFKASLDTI 277
SL +V N +E + + L +I G I D EK ++ + +L +
Sbjct: 298 SLMDKVPNGIEPMLKDLEEHIISAGLADMVAAAETITTDSEKYREQLDTLFN---RFSKL 354
Query: 278 WEQSFSKNEAFCNTIKDAFEYLIN 301
+++F + F A++ ++N
Sbjct: 355 VKEAFQDDPRFLTARDKAYKAVVN 378
>pdb|3TDU|C Chain C, N-Terminal Acetylation Acts As An Avidity Enhancer Within
An Interconnected Multiprotein Complex: Structure Of A
Human Cul1whb- Dcn1p-Acetylated Ubc12n Complex
pdb|3TDU|D Chain D, N-Terminal Acetylation Acts As An Avidity Enhancer Within
An Interconnected Multiprotein Complex: Structure Of A
Human Cul1whb- Dcn1p-Acetylated Ubc12n Complex
pdb|3TDZ|C Chain C, N-Terminal Acetylation Acts As An Avidity Enhancer Within
An Interconnected Multiprotein Complex: Structure Of A
Human Cul1whb- Dcn1p-Stapled Acetylated Ubc12n Complex
pdb|3TDZ|D Chain D, N-Terminal Acetylation Acts As An Avidity Enhancer Within
An Interconnected Multiprotein Complex: Structure Of A
Human Cul1whb- Dcn1p-Stapled Acetylated Ubc12n Complex
Length = 77
Score = 60.1 bits (144), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 35/72 (48%), Positives = 45/72 (62%), Gaps = 2/72 (2%)
Query: 593 QDRQYQVDAAIVRIMKTRKVLSHTLLITELFQQLKFPIKP--ADLKKRIESLIDREYLER 650
+DR+ + AAIVRIMK RKVL H L+ E+ QL KP +KK I+ LI++EYLER
Sbjct: 6 EDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLER 65
Query: 651 DKNNPQIYNYLA 662
Y+YLA
Sbjct: 66 VDGEKDTYSYLA 77
>pdb|3O6B|B Chain B, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
pdb|3O6B|D Chain D, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
pdb|3O6B|F Chain F, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
pdb|3O6B|H Chain H, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
pdb|3O6B|J Chain J, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb) Low Resolution
Length = 76
Score = 49.7 bits (117), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 29/71 (40%), Positives = 45/71 (63%), Gaps = 3/71 (4%)
Query: 594 DRQYQVDAAIVRIMKTRKVLSHTLLITELFQQ--LKFPIKPADLKKRIESLIDREYLERD 651
+RQ ++A IVRIMK ++ L HT L+ E Q +F K + +K+ I+SLI + YL+R
Sbjct: 7 ERQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMVKRAIDSLIQKGYLQRG 66
Query: 652 KNNPQIYNYLA 662
++ + Y YLA
Sbjct: 67 -DDGESYAYLA 76
>pdb|3O2P|E Chain E, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb)
Length = 88
Score = 49.3 bits (116), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 29/71 (40%), Positives = 45/71 (63%), Gaps = 3/71 (4%)
Query: 594 DRQYQVDAAIVRIMKTRKVLSHTLLITELFQQ--LKFPIKPADLKKRIESLIDREYLERD 651
+RQ ++A IVRIMK ++ L HT L+ E Q +F K + +K+ I+SLI + YL+R
Sbjct: 19 ERQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMVKRAIDSLIQKGYLQRG 78
Query: 652 KNNPQIYNYLA 662
++ + Y YLA
Sbjct: 79 -DDGESYAYLA 88
>pdb|2YXD|A Chain A, Crystal Structure Of Cobalamin Biosynthesis Precorrin 8w
Decarboxylase (Cbit)
pdb|2YXD|B Chain B, Crystal Structure Of Cobalamin Biosynthesis Precorrin 8w
Decarboxylase (Cbit)
Length = 183
Score = 32.7 bits (73), Expect = 0.75, Method: Composition-based stats.
Identities = 32/106 (30%), Positives = 44/106 (41%), Gaps = 12/106 (11%)
Query: 524 DKELRRTLQSLACGKVRVLQKLPKGRDVEDDDSFVFNEGFTAPLYRI----------KVN 573
D + T Q+LA ++ Q + KGR + D FN+ F I K+N
Sbjct: 67 DGAIEVTKQNLAKFNIKNCQII-KGRAEDVLDKLEFNKAFIGGTKNIEKIIEILDKKKIN 125
Query: 574 AIQMKETVEENTSTTERVFQDRQYQVDAAIVRIMKTRKVLS-HTLL 618
I V EN + F+ R Y VDA V I +K+ S H L
Sbjct: 126 HIVANTIVLENAAKIINEFESRGYNVDAVNVFISYAKKIPSGHXFL 171
>pdb|1ECX|A Chain A, Nifs-Like Protein
pdb|1ECX|B Chain B, Nifs-Like Protein
Length = 384
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 40/70 (57%), Gaps = 10/70 (14%)
Query: 385 CGSQFTNKLEGMFKDIELS-KEINESFKQSSQARTKLPSGI-EMSVHVLTTGYWPTYPPM 442
G+Q + G + +E++ +E++E+ K + R+KL SG+ + H++T P+
Sbjct: 236 SGTQNVPGIVGAARAMEIAVEELSEAAKHMEKLRSKLVSGLMNLGAHIIT--------PL 287
Query: 443 DVRLPHELNV 452
++ LP+ L+V
Sbjct: 288 EISLPNTLSV 297
>pdb|1EG5|A Chain A, Nifs-like Protein
pdb|1EG5|B Chain B, Nifs-like Protein
Length = 384
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 39/70 (55%), Gaps = 10/70 (14%)
Query: 385 CGSQFTNKLEGMFKDIELS-KEINESFKQSSQARTKLPSGI-EMSVHVLTTGYWPTYPPM 442
G+Q + G + E++ +E++E+ K + R+KL SG+ + H++T P+
Sbjct: 236 SGTQNVPGIVGAARAXEIAVEELSEAAKHXEKLRSKLVSGLXNLGAHIIT--------PL 287
Query: 443 DVRLPHELNV 452
++ LP+ L+V
Sbjct: 288 EISLPNTLSV 297
>pdb|3CQ0|A Chain A, Crystal Structure Of Tal2_yeast
pdb|3CQ0|B Chain B, Crystal Structure Of Tal2_yeast
Length = 339
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 31/102 (30%), Positives = 47/102 (46%), Gaps = 16/102 (15%)
Query: 309 ELIAKFLDEKLRAGNKG--TSEEELEGTLDKVLVLF-----RFIQGK-----DVFEAFYK 356
E A+F+D + G K T E++E +DK+LV F + + G+ D +F K
Sbjct: 58 EKYARFIDAAVEYGRKHGKTDHEKIENAMDKILVEFGTQILKVVPGRVSTEVDARLSFDK 117
Query: 357 KDLAKRLL----LGKSASIDAEKSMISKLKTECGSQFTNKLE 394
K K+ L L K A + E+ +I T G Q +LE
Sbjct: 118 KATVKKALHIIKLYKDAGVPKERVLIKIASTWEGIQAARELE 159
>pdb|3CL6|A Chain A, Crystal Structure Of Puue Allantoinase
pdb|3CL6|B Chain B, Crystal Structure Of Puue Allantoinase
pdb|3CL7|A Chain A, Crystal Structure Of Puue Allantoinase In Complex With
Hydantoin
pdb|3CL7|B Chain B, Crystal Structure Of Puue Allantoinase In Complex With
Hydantoin
pdb|3CL8|A Chain A, Crystal Structure Of Puue Allantoinase Complexed With Aca
pdb|3CL8|B Chain B, Crystal Structure Of Puue Allantoinase Complexed With Aca
Length = 308
Score = 30.8 bits (68), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 39/148 (26%), Positives = 56/148 (37%), Gaps = 36/148 (24%)
Query: 188 PLIATAERQLLERH---ISAILDKGFTMLMDGHRTEDLQRMYSLFSRVNALESLR----- 239
PL A +RH I A++ G + G+R D Q M R + LE++R
Sbjct: 96 PLTIFAVAMAAQRHPDVIRAMVAAGHEICSHGYRWIDYQYMDEAQEREHMLEAIRILTEL 155
Query: 240 ---QALAMYIRRTGHG---IVMDE-----------------EKDKDMVSSLLEFKASLDT 276
+ L Y RTG +VM+E E + L +LDT
Sbjct: 156 TGERPLGWYTGRTGPNTRRLVMEEGGFLYDCDTYDDDLPYWEPNNPTGKPHLVIPYTLDT 215
Query: 277 -----IWEQSFSKNEAFCNTIKDAFEYL 299
Q F+K + F +KDAF+ L
Sbjct: 216 NDMRFTQVQGFNKGDDFFEYLKDAFDVL 243
>pdb|2FQ6|A Chain A, Cystathionine Beta-Lyase (Cbl) From Escherichia Coli In
Complex With
N-Hydrazinocarbonylmethyl-2-Trifluoromethyl-Benzamide
pdb|2FQ6|B Chain B, Cystathionine Beta-Lyase (Cbl) From Escherichia Coli In
Complex With
N-Hydrazinocarbonylmethyl-2-Trifluoromethyl-Benzamide
pdb|2GQN|A Chain A, Cystathionine Beta-Lyase (Cbl) From Escherichia Coli In
Complex With N-Hydrazinocarbonylmethyl-2-Nitro-Benzamide
pdb|2GQN|B Chain B, Cystathionine Beta-Lyase (Cbl) From Escherichia Coli In
Complex With N-Hydrazinocarbonylmethyl-2-Nitro-Benzamide
Length = 415
Score = 30.0 bits (66), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 42/90 (46%), Gaps = 5/90 (5%)
Query: 3 GNLYQRIEKECEEHISAAIRSLVGQSPDLVVFLSLVERCWQDLCDQMLMIRGIALYLDRT 62
G L++ ++ + I AA + LVG S ++ RCW+ L + ++ G + D
Sbjct: 211 GVLFKALDFGIDVSIQAATKYLVGHSDAMIGTAVCNARCWEQLRENAYLM-GQMVDADTA 269
Query: 63 YVKQTPNVRSLWDMGLQLFRKYLSSYSEVE 92
Y+ R L +G++L + + SS E
Sbjct: 270 YITS----RGLRTLGVRLRQHHESSLKVAE 295
>pdb|1CL2|A Chain A, Cystathionine Beta-Lyase (Cbl) From Escherichia Coli In
Complex With Aminoethoxyvinylglycine
pdb|1CL2|B Chain B, Cystathionine Beta-Lyase (Cbl) From Escherichia Coli In
Complex With Aminoethoxyvinylglycine
Length = 395
Score = 30.0 bits (66), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 42/90 (46%), Gaps = 5/90 (5%)
Query: 3 GNLYQRIEKECEEHISAAIRSLVGQSPDLVVFLSLVERCWQDLCDQMLMIRGIALYLDRT 62
G L++ ++ + I AA + LVG S ++ RCW+ L + ++ G + D
Sbjct: 191 GVLFKALDFGIDVSIQAATKYLVGHSDAMIGTAVCNARCWEQLRENAYLM-GQMVDADTA 249
Query: 63 YVKQTPNVRSLWDMGLQLFRKYLSSYSEVE 92
Y+ R L +G++L + + SS E
Sbjct: 250 YITS----RGLRTLGVRLRQHHESSLKVAE 275
>pdb|1CL1|A Chain A, Cystathionine Beta-Lyase (Cbl) From Escherichia Coli
pdb|1CL1|B Chain B, Cystathionine Beta-Lyase (Cbl) From Escherichia Coli
Length = 395
Score = 28.9 bits (63), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 5/90 (5%)
Query: 3 GNLYQRIEKECEEHISAAIRSLVGQSPDLVVFLSLVERCWQDLCDQMLMIRGIALYLDRT 62
G L++ ++ + I AA LVG S ++ RCW+ L + ++ G + D
Sbjct: 191 GVLFKALDFGIDVSIQAATXYLVGHSDAMIGTAVCNARCWEQLRENAYLM-GQMVDADTA 249
Query: 63 YVKQTPNVRSLWDMGLQLFRKYLSSYSEVE 92
Y+ R L +G++L + + SS E
Sbjct: 250 YITS----RGLRTLGVRLRQHHESSLKVAE 275
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.136 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,096,224
Number of Sequences: 62578
Number of extensions: 728487
Number of successful extensions: 1926
Number of sequences better than 100.0: 41
Number of HSP's better than 100.0 without gapping: 24
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 1843
Number of HSP's gapped (non-prelim): 41
length of query: 662
length of database: 14,973,337
effective HSP length: 105
effective length of query: 557
effective length of database: 8,402,647
effective search space: 4680274379
effective search space used: 4680274379
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (25.8 bits)