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= psy8359
(279 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 235 bits (600), Expect = 2e-62, Method: Compositional matrix adjust.
Identities = 115/146 (78%), Positives = 126/146 (86%), Gaps = 2/146 (1%)
Query: 134 ALGIDLTDADLRRTLQSLACGKTRVLKKTPASRDIEDCDRFRFNNDFTFKLFRIKINQIQ 193
A GI+ D +LRRTLQSLACGK RVL K P +DIED D+F N+DF KLFRIKINQIQ
Sbjct: 598 ATGIE--DGELRRTLQSLACGKARVLAKNPKGKDIEDGDKFICNDDFKHKLFRIKINQIQ 655
Query: 194 MKETNEEQKATEERVFQDRQYQIDAAIVRIMKMRKTLSHNLLLSELFNQLKFPVKPADLK 253
MKET EEQ +T ERVFQDRQYQIDAAIVRIMKMRKTLSHNLL+SE++NQLKFPVKPADLK
Sbjct: 656 MKETVEEQASTTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKPADLK 715
Query: 254 KRIESLIDRDYMERDKDKANSYNYMA 279
KRIESLIDRDYMERDK+ N YNY+A
Sbjct: 716 KRIESLIDRDYMERDKENPNQYNYIA 741
Score = 107 bits (268), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 53/61 (86%), Positives = 54/61 (88%)
Query: 62 KVDLAKRLLVGKSASVDAEKSMLSKLKQECGGGFTSKLEGMFKDMELSKDINVAFKQYMG 121
K DLAKRLLVGKSASVDAEKSMLSKLK ECG FTSKLEGMFKDMELSKDI + FKQYM
Sbjct: 436 KKDLAKRLLVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIMIQFKQYMQ 495
Query: 122 N 122
N
Sbjct: 496 N 496
>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 = 235 bits (600), Expect = 2e-62, Method: Compositional matrix adjust.
Identities = 115/146 (78%), Positives = 126/146 (86%), Gaps = 2/146 (1%)
Query: 134 ALGIDLTDADLRRTLQSLACGKTRVLKKTPASRDIEDCDRFRFNNDFTFKLFRIKINQIQ 193
A GI+ D +LRRTLQSLACGK RVL K P +DIED D+F N+DF KLFRIKINQIQ
Sbjct: 583 ATGIE--DGELRRTLQSLACGKARVLAKNPKGKDIEDGDKFICNDDFKHKLFRIKINQIQ 640
Query: 194 MKETNEEQKATEERVFQDRQYQIDAAIVRIMKMRKTLSHNLLLSELFNQLKFPVKPADLK 253
MKET EEQ +T ERVFQDRQYQIDAAIVRIMKMRKTLSHNLL+SE++NQLKFPVKPADLK
Sbjct: 641 MKETVEEQASTTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKPADLK 700
Query: 254 KRIESLIDRDYMERDKDKANSYNYMA 279
KRIESLIDRDYMERDK+ N YNY+A
Sbjct: 701 KRIESLIDRDYMERDKENPNQYNYIA 726
Score = 107 bits (268), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 53/61 (86%), Positives = 54/61 (88%)
Query: 62 KVDLAKRLLVGKSASVDAEKSMLSKLKQECGGGFTSKLEGMFKDMELSKDINVAFKQYMG 121
K DLAKRLLVGKSASVDAEKSMLSKLK ECG FTSKLEGMFKDMELSKDI + FKQYM
Sbjct: 421 KKDLAKRLLVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIMIQFKQYMQ 480
Query: 122 N 122
N
Sbjct: 481 N 481
>pdb|2HYE|C Chain C, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 759
Score = 233 bits (593), Expect = 1e-61, Method: Compositional matrix adjust.
Identities = 112/146 (76%), Positives = 126/146 (86%), Gaps = 2/146 (1%)
Query: 134 ALGIDLTDADLRRTLQSLACGKTRVLKKTPASRDIEDCDRFRFNNDFTFKLFRIKINQIQ 193
A GI+ D++LRRTLQSLACGK RVL K+P +++ED D+F FN +F KLFRIKINQIQ
Sbjct: 616 ATGIE--DSELRRTLQSLACGKARVLIKSPKGKEVEDGDKFIFNGEFKHKLFRIKINQIQ 673
Query: 194 MKETNEEQKATEERVFQDRQYQIDAAIVRIMKMRKTLSHNLLLSELFNQLKFPVKPADLK 253
MKET EEQ +T ERVFQDRQYQIDAAIVRIMKMRKTL HNLL+SEL+NQLKFPVKP DLK
Sbjct: 674 MKETVEEQVSTTERVFQDRQYQIDAAIVRIMKMRKTLGHNLLVSELYNQLKFPVKPGDLK 733
Query: 254 KRIESLIDRDYMERDKDKANSYNYMA 279
KRIESLIDRDYMERDKD N Y+Y+A
Sbjct: 734 KRIESLIDRDYMERDKDNPNQYHYVA 759
Score = 106 bits (264), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 53/61 (86%), Positives = 54/61 (88%)
Query: 62 KVDLAKRLLVGKSASVDAEKSMLSKLKQECGGGFTSKLEGMFKDMELSKDINVAFKQYMG 121
K DLAKRLLVGKSASVDAEKSMLSKLK ECG FTSKLEGMFKDMELSKDI V FKQ+M
Sbjct: 454 KKDLAKRLLVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIMVHFKQHMQ 513
Query: 122 N 122
N
Sbjct: 514 N 514
>pdb|4A0K|A Chain A, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 742
Score = 233 bits (593), Expect = 1e-61, Method: Compositional matrix adjust.
Identities = 112/146 (76%), Positives = 126/146 (86%), Gaps = 2/146 (1%)
Query: 134 ALGIDLTDADLRRTLQSLACGKTRVLKKTPASRDIEDCDRFRFNNDFTFKLFRIKINQIQ 193
A GI+ D++LRRTLQSLACGK RVL K+P +++ED D+F FN +F KLFRIKINQIQ
Sbjct: 599 ATGIE--DSELRRTLQSLACGKARVLIKSPKGKEVEDGDKFIFNGEFKHKLFRIKINQIQ 656
Query: 194 MKETNEEQKATEERVFQDRQYQIDAAIVRIMKMRKTLSHNLLLSELFNQLKFPVKPADLK 253
MKET EEQ +T ERVFQDRQYQIDAAIVRIMKMRKTL HNLL+SEL+NQLKFPVKP DLK
Sbjct: 657 MKETVEEQVSTTERVFQDRQYQIDAAIVRIMKMRKTLGHNLLVSELYNQLKFPVKPGDLK 716
Query: 254 KRIESLIDRDYMERDKDKANSYNYMA 279
KRIESLIDRDYMERDKD N Y+Y+A
Sbjct: 717 KRIESLIDRDYMERDKDNPNQYHYVA 742
Score = 106 bits (264), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 53/61 (86%), Positives = 54/61 (88%)
Query: 62 KVDLAKRLLVGKSASVDAEKSMLSKLKQECGGGFTSKLEGMFKDMELSKDINVAFKQYMG 121
K DLAKRLLVGKSASVDAEKSMLSKLK ECG FTSKLEGMFKDMELSKDI V FKQ+M
Sbjct: 437 KKDLAKRLLVGKSASVDAEKSMLSKLKHECGAAFTSKLEGMFKDMELSKDIMVHFKQHMQ 496
Query: 122 N 122
N
Sbjct: 497 N 497
>pdb|2DO7|A Chain A, Solution Structure Of The Winged Helix-Turn-Helix Motif Of
Human Cul-4b
Length = 101
Score = 162 bits (411), Expect = 1e-40, Method: Compositional matrix adjust.
Identities = 76/88 (86%), Positives = 82/88 (93%)
Query: 192 IQMKETNEEQKATEERVFQDRQYQIDAAIVRIMKMRKTLSHNLLLSELFNQLKFPVKPAD 251
IQMKET EEQ +T ERVFQDRQYQIDAAIVRIMKMRKTLSHNLL+SE++NQLKFPVKPAD
Sbjct: 8 IQMKETVEEQASTTERVFQDRQYQIDAAIVRIMKMRKTLSHNLLVSEVYNQLKFPVKPAD 67
Query: 252 LKKRIESLIDRDYMERDKDKANSYNYMA 279
LKKRIESLIDRDYMERDK+ N YNY+A
Sbjct: 68 LKKRIESLIDRDYMERDKENPNQYNYIA 95
>pdb|1IUY|A Chain A, Solution Structure Of The Cullin-3 Homologue
Length = 92
Score = 79.3 bits (194), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 40/86 (46%), Positives = 60/86 (69%), Gaps = 2/86 (2%)
Query: 196 ETNEEQKATEERVFQDRQYQIDAAIVRIMKMRKTLSHNLLLSELFNQLK--FPVKPADLK 253
E++ E+K T ++V DR+++I+AAIVRIMK RK + HN+L++E+ QLK F P +K
Sbjct: 7 ESDPERKETRQKVDDDRKHEIEAAIVRIMKSRKKMQHNVLVAEVTQQLKARFLPSPVVIK 66
Query: 254 KRIESLIDRDYMERDKDKANSYNYMA 279
KRIE LI+R+Y+ R + Y Y+A
Sbjct: 67 KRIEGLIEREYLARTPEDRKVYTYVA 92
>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 = 74.7 bits (182), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 53/146 (36%), Positives = 76/146 (52%), Gaps = 15/146 (10%)
Query: 144 LRRTLQSLACGKTRVLKKTPASRDIEDCDRFRFNNDFTFKLF--------RIKINQIQMK 195
L + LQ L K VL+ A + D D KL+ R+ IN
Sbjct: 228 LAQVLQILLKSKLLVLEDENA-----NVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKT 282
Query: 196 ETNEEQKATEERVFQDRQYQIDAAIVRIMKMRKTLSHNLLLSELFNQLKFPVKP--ADLK 253
E +EQ+ T + + +DR+ I AAIVRIMKMRK L H LL E+ QL KP +K
Sbjct: 283 EQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIK 342
Query: 254 KRIESLIDRDYMERDKDKANSYNYMA 279
K I+ LI+++Y+ER + ++Y+Y+A
Sbjct: 343 KCIDILIEKEYLERVDGEKDTYSYLA 368
Score = 68.9 bits (167), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 34/58 (58%), Positives = 45/58 (77%)
Query: 65 LAKRLLVGKSASVDAEKSMLSKLKQECGGGFTSKLEGMFKDMELSKDINVAFKQYMGN 122
LAKRL+ SAS DAE SM+SKLKQ CG +TSKL+ MF+D+ +SKD+N FK+++ N
Sbjct: 62 LAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTN 119
>pdb|1LDK|B Chain B, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 366
Score = 74.7 bits (182), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 53/146 (36%), Positives = 76/146 (52%), Gaps = 15/146 (10%)
Query: 144 LRRTLQSLACGKTRVLKKTPASRDIEDCDRFRFNNDFTFKLF--------RIKINQIQMK 195
L + LQ L K VL+ A + D D KL+ R+ IN
Sbjct: 226 LAQVLQILLKSKLLVLEDENA-----NVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKT 280
Query: 196 ETNEEQKATEERVFQDRQYQIDAAIVRIMKMRKTLSHNLLLSELFNQLKFPVKP--ADLK 253
E +EQ+ T + + +DR+ I AAIVRIMKMRK L H LL E+ QL KP +K
Sbjct: 281 EQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIK 340
Query: 254 KRIESLIDRDYMERDKDKANSYNYMA 279
K I+ LI+++Y+ER + ++Y+Y+A
Sbjct: 341 KCIDILIEKEYLERVDGEKDTYSYLA 366
Score = 68.9 bits (167), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 34/58 (58%), Positives = 45/58 (77%)
Query: 65 LAKRLLVGKSASVDAEKSMLSKLKQECGGGFTSKLEGMFKDMELSKDINVAFKQYMGN 122
LAKRL+ SAS DAE SM+SKLKQ CG +TSKL+ MF+D+ +SKD+N FK+++ N
Sbjct: 60 LAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTN 117
>pdb|1U6G|A Chain A, Crystal Structure Of The Cand1-Cul1-Roc1 Complex
Length = 776
Score = 74.3 bits (181), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 53/146 (36%), Positives = 76/146 (52%), Gaps = 15/146 (10%)
Query: 144 LRRTLQSLACGKTRVLKKTPASRDIEDCDRFRFNNDFTFKLF--------RIKINQIQMK 195
L + LQ L K VL+ A + D D KL+ R+ IN
Sbjct: 636 LAQVLQILLKSKLLVLEDENA-----NVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKT 690
Query: 196 ETNEEQKATEERVFQDRQYQIDAAIVRIMKMRKTLSHNLLLSELFNQLKFPVKP--ADLK 253
E +EQ+ T + + +DR+ I AAIVRIMKMRK L H LL E+ QL KP +K
Sbjct: 691 EQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIK 750
Query: 254 KRIESLIDRDYMERDKDKANSYNYMA 279
K I+ LI+++Y+ER + ++Y+Y+A
Sbjct: 751 KCIDILIEKEYLERVDGEKDTYSYLA 776
Score = 68.2 bits (165), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 34/58 (58%), Positives = 45/58 (77%)
Query: 65 LAKRLLVGKSASVDAEKSMLSKLKQECGGGFTSKLEGMFKDMELSKDINVAFKQYMGN 122
LAKRL+ SAS DAE SM+SKLKQ CG +TSKL+ MF+D+ +SKD+N FK+++ N
Sbjct: 470 LAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTN 527
>pdb|1LDJ|A Chain A, Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 760
Score = 74.3 bits (181), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 42/99 (42%), Positives = 61/99 (61%), Gaps = 2/99 (2%)
Query: 183 KLFRIKINQIQMKETNEEQKATEERVFQDRQYQIDAAIVRIMKMRKTLSHNLLLSELFNQ 242
K R+ IN E +EQ+ T + + +DR+ I AAIVRIMKMRK L H LL E+ Q
Sbjct: 662 KKLRVNINVPMKTEQKQEQETTHKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQ 721
Query: 243 LKFPVKP--ADLKKRIESLIDRDYMERDKDKANSYNYMA 279
L KP +KK I+ LI+++Y+ER + ++Y+Y+A
Sbjct: 722 LSSRFKPRVPVIKKCIDILIEKEYLERVDGEKDTYSYLA 760
Score = 68.2 bits (165), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 34/58 (58%), Positives = 45/58 (77%)
Query: 65 LAKRLLVGKSASVDAEKSMLSKLKQECGGGFTSKLEGMFKDMELSKDINVAFKQYMGN 122
LAKRL+ SAS DAE SM+SKLKQ CG +TSKL+ MF+D+ +SKD+N FK+++ N
Sbjct: 454 LAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTN 511
>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 = 68.6 bits (166), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 34/58 (58%), Positives = 45/58 (77%)
Query: 65 LAKRLLVGKSASVDAEKSMLSKLKQECGGGFTSKLEGMFKDMELSKDINVAFKQYMGN 122
LAKRL+ SAS DAE SM+SKLKQ CG +TSKL+ MF+D+ +SKD+N FK+++ N
Sbjct: 62 LAKRLVHQNSASDDAEASMISKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTN 119
>pdb|3DPL|C Chain C, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 382
Score = 68.2 bits (165), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 60/169 (35%), Positives = 89/169 (52%), Gaps = 15/169 (8%)
Query: 126 DKESTSNNALGIDLTDADLRRTLQSLACG---KTRVLKKTP---ASRDIEDCDRFRFNND 179
+K S N L +L DA+LRRTL SL K +VL P + +D + F N +
Sbjct: 214 EKISFENLKLATELPDAELRRTLWSLVAFPKLKRQVLLYEPQVNSPKDFTEGTLFSVNQE 273
Query: 180 FTF-----KLFRIKINQI-QMKETNEEQKATE-ERVFQDRQYQIDAAIVRIMKMRKTLSH 232
F+ R KIN I +++ T E + E E + Q R + AI++IMKMRK +S+
Sbjct: 274 FSLIKNAKVQKRGKINLIGRLQLTTERMREEENEGIVQLRILRTQEAIIQIMKMRKKISN 333
Query: 233 NLLLSELFNQLK--FPVKPADLKKRIESLIDRDYMERDKDKANSYNYMA 279
L +EL LK F + +K++IE LI+ Y+ RD+ N++ YMA
Sbjct: 334 AQLQTELVEILKNMFLPQKKMIKEQIEWLIEHKYIRRDESDINTFIYMA 382
Score = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 23/63 (36%), Positives = 40/63 (63%), Gaps = 3/63 (4%)
Query: 62 KVDLAKRLLVGKSASVDAEKSMLSKLKQECG--GGFTSKLEGMFKDMELSKDINVAFKQY 119
K L +RL++ SA + E++M+ L+ E G + +KL MF+D+++S+D+N AFK+
Sbjct: 57 KAHLTRRLILDISADSEIEENMVEWLR-EVGMPADYVNKLARMFQDIKVSEDLNQAFKEM 115
Query: 120 MGN 122
N
Sbjct: 116 HKN 118
>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 = 63.9 bits (154), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 34/72 (47%), Positives = 48/72 (66%), Gaps = 2/72 (2%)
Query: 210 QDRQYQIDAAIVRIMKMRKTLSHNLLLSELFNQLKFPVKP--ADLKKRIESLIDRDYMER 267
+DR+ I AAIVRIMKMRK L H LL E+ QL KP +KK I+ LI+++Y+ER
Sbjct: 6 EDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLER 65
Query: 268 DKDKANSYNYMA 279
+ ++Y+Y+A
Sbjct: 66 VDGEKDTYSYLA 77
>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 = 55.5 bits (132), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 54/170 (31%), Positives = 85/170 (50%), Gaps = 17/170 (10%)
Query: 126 DKESTSNNALGIDLTDADLRRTLQSLACG---KTRVLKKTP---ASRDIEDCDRFRFNND 179
+K S N L +L DA+LRRTL SL K +VL P + +D + F N +
Sbjct: 214 EKISFENLKLATELPDAELRRTLWSLVAFPKLKRQVLLYEPQVNSPKDFTEGTLFSVNQE 273
Query: 180 FTF-------KLFRIK-INQIQMKETNEEQKATEERVFQDRQYQIDAAIVRIMKMRKTLS 231
F+ K +I I ++Q+ T ++ E + Q R + AI++I K RK +S
Sbjct: 274 FSLIKNAKVQKRGKINLIGRLQLT-TERXREEENEGIVQLRILRTQEAIIQIXKXRKKIS 332
Query: 232 HNLLLSELFNQLK--FPVKPADLKKRIESLIDRDYMERDKDKANSYNYMA 279
+ L +EL LK F + +K++IE LI+ Y+ RD+ N++ Y A
Sbjct: 333 NAQLQTELVEILKNXFLPQKKXIKEQIEWLIEHKYIRRDESDINTFIYXA 382
Score = 35.8 bits (81), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 38/64 (59%), Gaps = 3/64 (4%)
Query: 61 EKVDLAKRLLVGKSASVDAEKSMLSKLKQECG--GGFTSKLEGMFKDMELSKDINVAFKQ 118
K L +RL++ SA + E++ + L+ E G + +KL F+D+++S+D+N AFK+
Sbjct: 56 HKAHLTRRLILDISADSEIEENXVEWLR-EVGXPADYVNKLARXFQDIKVSEDLNQAFKE 114
Query: 119 YMGN 122
N
Sbjct: 115 XHKN 118
>pdb|3O2P|E Chain E, A Dual E3 Mechanism For Rub1 Ligation To Cdc53:
Dcn1(P)-Cdc53(Whb)
Length = 88
Score = 51.2 bits (121), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 30/82 (36%), Positives = 49/82 (59%), Gaps = 3/82 (3%)
Query: 200 EQKATEERVFQDRQYQIDAAIVRIMKMRKTLSHNLLLSELFNQ--LKFPVKPADLKKRIE 257
E + E+ + +RQ ++A IVRIMK ++ L H L++E Q +F K + +K+ I+
Sbjct: 8 EDERIEKELNTERQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMVKRAID 67
Query: 258 SLIDRDYMERDKDKANSYNYMA 279
SLI + Y++R D SY Y+A
Sbjct: 68 SLIQKGYLQRG-DDGESYAYLA 88
>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 = 51.2 bits (121), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 28/71 (39%), Positives = 44/71 (61%), Gaps = 3/71 (4%)
Query: 211 DRQYQIDAAIVRIMKMRKTLSHNLLLSELFNQ--LKFPVKPADLKKRIESLIDRDYMERD 268
+RQ ++A IVRIMK ++ L H L++E Q +F K + +K+ I+SLI + Y++R
Sbjct: 7 ERQIFLEACIVRIMKAKRNLPHTTLVNECIAQSHQRFNAKVSMVKRAIDSLIQKGYLQRG 66
Query: 269 KDKANSYNYMA 279
D SY Y+A
Sbjct: 67 -DDGESYAYLA 76
>pdb|3BZJ|A Chain A, Uvde K229l
Length = 301
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 146 RTLQSLACGKTRVLKKTPASRDIEDCDR-FRFNNDFTFKLFRIKINQI 192
RTL+ + RV +K A+ ++ D +R RFN D F LFRI + I
Sbjct: 40 RTLRLAHLTEERVREK--AAENLRDLERILRFNADHGFALFRIGQHLI 85
>pdb|3C0Q|A Chain A, Uvde E175a
Length = 301
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 146 RTLQSLACGKTRVLKKTPASRDIEDCDR-FRFNNDFTFKLFRIKINQI 192
RTL+ + RV +K A+ ++ D +R RFN D F LFRI + I
Sbjct: 40 RTLRLAHLTEERVREK--AAENLRDLERILRFNADHGFALFRIGQHLI 85
>pdb|3C0S|A Chain A, Uvde 3 Metals
Length = 301
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 27/50 (54%), Gaps = 3/50 (6%)
Query: 146 RTLQSLACGKTRVLKKTPASRDIEDCDR-FRFNNDFTFKLFRIKINQIQM 194
RTL+ + RV +K A+ ++ D +R RFN D F LFRI + I
Sbjct: 40 RTLRLAHLTEERVREK--AAENLRDLERILRFNADHGFALFRIGQHLIPF 87
>pdb|3BZG|A Chain A, Uvde Ph4.4
Length = 301
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 146 RTLQSLACGKTRVLKKTPASRDIEDCDR-FRFNNDFTFKLFRIKINQI 192
RTL+ + RV +K A+ ++ D +R RFN D F LFRI + I
Sbjct: 40 RTLRLAHLTEERVREK--AAENLRDLERILRFNADHGFALFRIGQHLI 85
>pdb|3C0L|A Chain A, Uvde K229r
Length = 301
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 27/48 (56%), Gaps = 3/48 (6%)
Query: 146 RTLQSLACGKTRVLKKTPASRDIEDCDR-FRFNNDFTFKLFRIKINQI 192
RTL+ + RV +K A+ ++ D +R RFN D F LFRI + I
Sbjct: 40 RTLRLAHLTEERVREK--AAENLRDLERILRFNADHGFALFRIGQHLI 85
>pdb|2J6V|B Chain B, Crystal Structure Of The Dna Repair Enzyme Uv Damage
Endonuclease
Length = 279
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 27/50 (54%), Gaps = 3/50 (6%)
Query: 146 RTLQSLACGKTRVLKKTPASRDIEDCDR-FRFNNDFTFKLFRIKINQIQM 194
RTL+ + RV +K A+ ++ D +R RFN D F LFRI + I
Sbjct: 19 RTLRLAHLTEERVREK--AAENLRDLERILRFNADHGFALFRIGQHLIPF 66
>pdb|2J6V|A Chain A, Crystal Structure Of The Dna Repair Enzyme Uv Damage
Endonuclease
Length = 282
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 27/50 (54%), Gaps = 3/50 (6%)
Query: 146 RTLQSLACGKTRVLKKTPASRDIEDCDR-FRFNNDFTFKLFRIKINQIQM 194
RTL+ + RV +K A+ ++ D +R RFN D F LFRI + I
Sbjct: 22 RTLRLAHLTEERVREK--AAENLRDLERILRFNADHGFALFRIGQHLIPF 69
>pdb|3KCP|B Chain B, Crystal Structure Of Interacting Clostridium Thermocellum
Multimodular Components
Length = 187
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 28/63 (44%), Gaps = 1/63 (1%)
Query: 26 NRDTCSSLFPPRKQALSTHEKSPIQISIKVNVSSVEKVDLAKRLLVG-KSASVDAEKSML 84
++ SS FPP + L + PIQI+ + LA + G K V E ++
Sbjct: 70 GKEFTSSTFPPGRTVLKNNAYGPIQIADNDPEKGILNFALAYSYIAGYKETGVAEESGII 129
Query: 85 SKL 87
+K+
Sbjct: 130 AKI 132
>pdb|2B59|A Chain A, The Type Ii Cohesin Dockerin Complex
pdb|4FL4|B Chain B, Scaffoldin Conformation And Dynamics Revealed By A Ternary
Complex From The Clostridium Thermocellum Cellulosome
pdb|4FL4|E Chain E, Scaffoldin Conformation And Dynamics Revealed By A Ternary
Complex From The Clostridium Thermocellum Cellulosome
pdb|4FL4|H Chain H, Scaffoldin Conformation And Dynamics Revealed By A Ternary
Complex From The Clostridium Thermocellum Cellulosome
pdb|4FL4|K Chain K, Scaffoldin Conformation And Dynamics Revealed By A Ternary
Complex From The Clostridium Thermocellum Cellulosome
Length = 187
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 28/63 (44%), Gaps = 1/63 (1%)
Query: 26 NRDTCSSLFPPRKQALSTHEKSPIQISIKVNVSSVEKVDLAKRLLVG-KSASVDAEKSML 84
++ SS FPP + L + PIQI+ + LA + G K V E ++
Sbjct: 70 GKEFTSSTFPPGRTVLKNNAYGPIQIADNDPEKGILNFALAYSYIAGYKETGVAEESGII 129
Query: 85 SKL 87
+K+
Sbjct: 130 AKI 132
>pdb|2BM3|A Chain A, Structure Of The Type Ii Cohesin From Clostridium
Thermocellum Sdba
Length = 166
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 28/63 (44%), Gaps = 1/63 (1%)
Query: 26 NRDTCSSLFPPRKQALSTHEKSPIQISIKVNVSSVEKVDLAKRLLVG-KSASVDAEKSML 84
++ SS FPP + L + PIQI+ + LA + G K V E ++
Sbjct: 58 GKEFTSSTFPPGRTVLKNNAYGPIQIADNDPEKGILNFALAYSYIAGYKETGVAEESGII 117
Query: 85 SKL 87
+K+
Sbjct: 118 AKI 120
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
0.316 0.130 0.353
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,957,697
Number of Sequences: 62578
Number of extensions: 249819
Number of successful extensions: 651
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 609
Number of HSP's gapped (non-prelim): 43
length of query: 279
length of database: 14,973,337
effective HSP length: 98
effective length of query: 181
effective length of database: 8,840,693
effective search space: 1600165433
effective search space used: 1600165433
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)