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= psy558
(692 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3GMJ|D Chain D, Crystal Structure Of Mad Mh2 Domain
pdb|3GMJ|B Chain B, Crystal Structure Of Mad Mh2 Domain
pdb|3GMJ|A Chain A, Crystal Structure Of Mad Mh2 Domain
pdb|3GMJ|C Chain C, Crystal Structure Of Mad Mh2 Domain
Length = 245
Score = 360 bits (925), Expect = 1e-99, Method: Compositional matrix adjust.
Identities = 195/316 (61%), Positives = 205/316 (64%), Gaps = 80/316 (25%)
Query: 216 TPPPAYSPPQDEKHGSQSPHSENAMDTGISSDVTPVPYQVTYFELLTCLMPKMNPNFEEY 275
TPPPAYSP +D S +P+ + DV V Y
Sbjct: 10 TPPPAYSPSEDGN--SNNPNDGGQLLDAQMGDVAQVSYS--------------------- 46
Query: 276 PTTHIIKMNLYSSFSPPQEQPFWASIAYYELNSRVGEVFHCQSHSVIVDGFTNPSNNLNR 335
E FWASIAYYELN RVGEVFHC ++SVIVDGFTNPSNN +R
Sbjct: 47 ------------------EPAFWASIAYYELNCRVGEVFHCNNNSVIVDGFTNPSNNSDR 88
Query: 336 FCLGQLSNVNRNSTIENTRRHIGKGVHLYYVGGEVYAECLSDSAIFVQSRNCNHHHGFHQ 395
CLGQLSNVNRNSTIENTRRHIGKGVHLYYV GEVYAECLSDSAIFVQSRNCN+ HGFH
Sbjct: 89 CCLGQLSNVNRNSTIENTRRHIGKGVHLYYVTGEVYAECLSDSAIFVQSRNCNYQHGFHP 148
Query: 396 STVCKIPAGCSLKIFNNQEFAELLSQSVNHGFEAVYELTKMCTISPIFCIRNKCNRTEIP 455
STVCKIP GCSLKIFNNQEFA+LLSQSVN+GFEAVYELTKMCTI
Sbjct: 149 STVCKIPPGCSLKIFNNQEFAQLLSQSVNNGFEAVYELTKMCTI---------------- 192
Query: 456 FAVKVPRQFSLSVIILWYFVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDK 515
RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDK
Sbjct: 193 -----------------------RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDK 229
Query: 516 VLIQMGSPHQPISSVS 531
VL QMGSPH ISSVS
Sbjct: 230 VLTQMGSPHNAISSVS 245
>pdb|1KHU|A Chain A, Smad1 Crystal Structure Reveals The Details Of Bmp
Signaling Pathway
pdb|1KHU|B Chain B, Smad1 Crystal Structure Reveals The Details Of Bmp
Signaling Pathway
pdb|1KHU|C Chain C, Smad1 Crystal Structure Reveals The Details Of Bmp
Signaling Pathway
pdb|1KHU|D Chain D, Smad1 Crystal Structure Reveals The Details Of Bmp
Signaling Pathway
Length = 218
Score = 353 bits (905), Expect = 2e-97, Method: Compositional matrix adjust.
Identities = 175/239 (73%), Positives = 185/239 (77%), Gaps = 39/239 (16%)
Query: 293 QEQPFWASIAYYELNSRVGEVFHCQSHSVIVDGFTNPSNNLNRFCLGQLSNVNRNSTIEN 352
+E W SI YYELN+RVGE FH S SV+VDGFT+PSNN NRFCLG LSNVNRNSTIEN
Sbjct: 19 EEPKHWCSIVYYELNNRVGEAFHASSTSVLVDGFTDPSNNKNRFCLGLLSNVNRNSTIEN 78
Query: 353 TRRHIGKGVHLYYVGGEVYAECLSDSAIFVQSRNCNHHHGFHQSTVCKIPAGCSLKIFNN 412
TRRHIGKGVHLYYVGGEVYAECLSDS+IFVQSRNCN+HHGFH +TVCKIP+GCSLKIFNN
Sbjct: 79 TRRHIGKGVHLYYVGGEVYAECLSDSSIFVQSRNCNYHHGFHPTTVCKIPSGCSLKIFNN 138
Query: 413 QEFAELLSQSVNHGFEAVYELTKMCTISPIFCIRNKCNRTEIPFAVKVPRQFSLSVIILW 472
QEFA+LL+QSVNHGFE VYELTKMCTI
Sbjct: 139 QEFAQLLAQSVNHGFETVYELTKMCTI--------------------------------- 165
Query: 473 YFVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 531
RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGSPH PISSVS
Sbjct: 166 ------RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGSPHNPISSVS 218
>pdb|3DIT|A Chain A, Crystal Structure Of Mad Mh2 Domain
pdb|3DIT|B Chain B, Crystal Structure Of Mad Mh2 Domain
pdb|3DIT|C Chain C, Crystal Structure Of Mad Mh2 Domain
Length = 188
Score = 345 bits (885), Expect = 5e-95, Method: Compositional matrix adjust.
Identities = 173/227 (76%), Positives = 179/227 (78%), Gaps = 39/227 (17%)
Query: 296 PFWASIAYYELNSRVGEVFHCQSHSVIVDGFTNPSNNLNRFCLGQLSNVNRNSTIENTRR 355
FWASIAYYELN RVGEVFHC ++SVIVDGFTNPSNN +R CLGQLSNVNRNSTIENTRR
Sbjct: 1 AFWASIAYYELNCRVGEVFHCNNNSVIVDGFTNPSNNSDRCCLGQLSNVNRNSTIENTRR 60
Query: 356 HIGKGVHLYYVGGEVYAECLSDSAIFVQSRNCNHHHGFHQSTVCKIPAGCSLKIFNNQEF 415
HIGKGVHLYYV GEVYAECLSDSAIFVQSRNCN+HHGFH STVCKIP GCSLKIFNNQEF
Sbjct: 61 HIGKGVHLYYVTGEVYAECLSDSAIFVQSRNCNYHHGFHPSTVCKIPPGCSLKIFNNQEF 120
Query: 416 AELLSQSVNHGFEAVYELTKMCTISPIFCIRNKCNRTEIPFAVKVPRQFSLSVIILWYFV 475
A+LLSQSVN+GFEAVYELTKMCTI
Sbjct: 121 AQLLSQSVNNGFEAVYELTKMCTI------------------------------------ 144
Query: 476 LISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGS 522
RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVL QMGS
Sbjct: 145 ---RMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLTQMGS 188
>pdb|1KHX|A Chain A, Crystal Structure Of A Phosphorylated Smad2
Length = 227
Score = 300 bits (769), Expect = 1e-81, Method: Compositional matrix adjust.
Identities = 149/230 (64%), Positives = 166/230 (72%), Gaps = 40/230 (17%)
Query: 294 EQPFWASIAYYELNSRVGEVFHCQSHSVIVDGFTNPSNNLNRFCLGQLSNVNRNSTIENT 353
E FW SIAYYELN RVGE FH S+ VDGFT+PSN+ RFCLG LSNVNRN+T+E T
Sbjct: 30 EPAFWCSIAYYELNQRVGETFHASQPSLTVDGFTDPSNS-ERFCLGLLSNVNRNATVEMT 88
Query: 354 RRHIGKGVHLYYVGGEVYAECLSDSAIFVQSRNCNHHHGFHQSTVCKIPAGCSLKIFNNQ 413
RRHIG+GV LYY+GGEV+AECLSDSAIFVQS NCN +G+H +TVCKIP GC+LKIFNNQ
Sbjct: 89 RRHIGRGVRLYYIGGEVFAECLSDSAIFVQSPNCNQRYGWHPATVCKIPPGCNLKIFNNQ 148
Query: 414 EFAELLSQSVNHGFEAVYELTKMCTISPIFCIRNKCNRTEIPFAVKVPRQFSLSVIILWY 473
EFA LL+QSVN GFEAVY+LT+MCTI
Sbjct: 149 EFAALLAQSVNQGFEAVYQLTRMCTI---------------------------------- 174
Query: 474 FVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSP 523
RMSFVKGWGAEY RQ VTSTPCWIE+HL+GPLQWLDKVL QMGSP
Sbjct: 175 -----RMSFVKGWGAEYRRQTVTSTPCWIELHLNGPLQWLDKVLTQMGSP 219
>pdb|1MK2|A Chain A, Smad3 Sbd Complex
Length = 206
Score = 299 bits (766), Expect = 3e-81, Method: Compositional matrix adjust.
Identities = 151/238 (63%), Positives = 169/238 (71%), Gaps = 40/238 (16%)
Query: 294 EQPFWASIAYYELNSRVGEVFHCQSHSVIVDGFTNPSNNLNRFCLGQLSNVNRNSTIENT 353
E FW SI+YYELN RVGE FH S+ VDGFT+PSN+ RFCLG LSNVNRN+ +E T
Sbjct: 9 EPAFWCSISYYELNQRVGETFHASQPSMTVDGFTDPSNS-ERFCLGLLSNVNRNAAVELT 67
Query: 354 RRHIGKGVHLYYVGGEVYAECLSDSAIFVQSRNCNHHHGFHQSTVCKIPAGCSLKIFNNQ 413
RRHIG+GV LYY+GGEV+AECLSDSAIFVQS NCN +G+H +TVCKIP GC+LKIFNNQ
Sbjct: 68 RRHIGRGVRLYYIGGEVFAECLSDSAIFVQSPNCNQRYGWHPATVCKIPPGCNLKIFNNQ 127
Query: 414 EFAELLSQSVNHGFEAVYELTKMCTISPIFCIRNKCNRTEIPFAVKVPRQFSLSVIILWY 473
EFA LL+QSVN GFEAVY+LT+MCTI
Sbjct: 128 EFAALLAQSVNQGFEAVYQLTRMCTI---------------------------------- 153
Query: 474 FVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 531
RMSFVKGWGAEY RQ VTSTPCWIE+HL+GPLQWLDKVL QMGSP SSVS
Sbjct: 154 -----RMSFVKGWGAEYRRQTVTSTPCWIELHLNGPLQWLDKVLTQMGSPSIRCSSVS 206
>pdb|1U7V|A Chain A, Crystal Structure Of The Phosphorylated Smad2SMAD4
Heterotrimeric Complex
pdb|1U7V|C Chain C, Crystal Structure Of The Phosphorylated Smad2SMAD4
Heterotrimeric Complex
Length = 198
Score = 299 bits (765), Expect = 4e-81, Method: Compositional matrix adjust.
Identities = 149/230 (64%), Positives = 166/230 (72%), Gaps = 40/230 (17%)
Query: 294 EQPFWASIAYYELNSRVGEVFHCQSHSVIVDGFTNPSNNLNRFCLGQLSNVNRNSTIENT 353
E FW SIAYYELN RVGE FH S+ VDGFT+PSN+ RFCLG LSNVNRN+T+E T
Sbjct: 1 EPAFWCSIAYYELNQRVGETFHASQPSLTVDGFTDPSNS-ERFCLGLLSNVNRNATVEMT 59
Query: 354 RRHIGKGVHLYYVGGEVYAECLSDSAIFVQSRNCNHHHGFHQSTVCKIPAGCSLKIFNNQ 413
RRHIG+GV LYY+GGEV+AECLSDSAIFVQS NCN +G+H +TVCKIP GC+LKIFNNQ
Sbjct: 60 RRHIGRGVRLYYIGGEVFAECLSDSAIFVQSPNCNQRYGWHPATVCKIPPGCNLKIFNNQ 119
Query: 414 EFAELLSQSVNHGFEAVYELTKMCTISPIFCIRNKCNRTEIPFAVKVPRQFSLSVIILWY 473
EFA LL+QSVN GFEAVY+LT+MCTI
Sbjct: 120 EFAALLAQSVNQGFEAVYQLTRMCTI---------------------------------- 145
Query: 474 FVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSP 523
RMSFVKGWGAEY RQ VTSTPCWIE+HL+GPLQWLDKVL QMGSP
Sbjct: 146 -----RMSFVKGWGAEYRRQTVTSTPCWIELHLNGPLQWLDKVLTQMGSP 190
>pdb|1MJS|A Chain A, Mh2 Domain Of Transcriptional Factor Smad3
Length = 197
Score = 298 bits (764), Expect = 6e-81, Method: Compositional matrix adjust.
Identities = 150/235 (63%), Positives = 168/235 (71%), Gaps = 40/235 (17%)
Query: 297 FWASIAYYELNSRVGEVFHCQSHSVIVDGFTNPSNNLNRFCLGQLSNVNRNSTIENTRRH 356
FW SI+YYELN RVGE FH S+ VDGFT+PSN+ RFCLG LSNVNRN+ +E TRRH
Sbjct: 3 FWCSISYYELNQRVGETFHASQPSMTVDGFTDPSNS-ERFCLGLLSNVNRNAAVELTRRH 61
Query: 357 IGKGVHLYYVGGEVYAECLSDSAIFVQSRNCNHHHGFHQSTVCKIPAGCSLKIFNNQEFA 416
IG+GV LYY+GGEV+AECLSDSAIFVQS NCN +G+H +TVCKIP GC+LKIFNNQEFA
Sbjct: 62 IGRGVRLYYIGGEVFAECLSDSAIFVQSPNCNQRYGWHPATVCKIPPGCNLKIFNNQEFA 121
Query: 417 ELLSQSVNHGFEAVYELTKMCTISPIFCIRNKCNRTEIPFAVKVPRQFSLSVIILWYFVL 476
LL+QSVN GFEAVY+LT+MCTI
Sbjct: 122 ALLAQSVNQGFEAVYQLTRMCTI------------------------------------- 144
Query: 477 ISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVS 531
RMSFVKGWGAEY RQ VTSTPCWIE+HL+GPLQWLDKVL QMGSP SSVS
Sbjct: 145 --RMSFVKGWGAEYRRQTVTSTPCWIELHLNGPLQWLDKVLTQMGSPSIRCSSVS 197
>pdb|1U7F|A Chain A, Crystal Structure Of The Phosphorylated Smad3SMAD4
Heterotrimeric Complex
pdb|1U7F|C Chain C, Crystal Structure Of The Phosphorylated Smad3SMAD4
Heterotrimeric Complex
Length = 198
Score = 296 bits (757), Expect = 3e-80, Method: Compositional matrix adjust.
Identities = 149/237 (62%), Positives = 167/237 (70%), Gaps = 40/237 (16%)
Query: 294 EQPFWASIAYYELNSRVGEVFHCQSHSVIVDGFTNPSNNLNRFCLGQLSNVNRNSTIENT 353
E FW SI+YYELN RVGE FH S+ VDGFT+PSN+ RFCLG LSNVNRN+ +E T
Sbjct: 1 EPAFWCSISYYELNQRVGETFHASQPSMTVDGFTDPSNS-ERFCLGLLSNVNRNAAVELT 59
Query: 354 RRHIGKGVHLYYVGGEVYAECLSDSAIFVQSRNCNHHHGFHQSTVCKIPAGCSLKIFNNQ 413
RRHIG+GV LYY+GGEV+AECLSDSAIFVQS NCN +G+H +TVCKIP GC+LKIFNNQ
Sbjct: 60 RRHIGRGVRLYYIGGEVFAECLSDSAIFVQSPNCNQRYGWHPATVCKIPPGCNLKIFNNQ 119
Query: 414 EFAELLSQSVNHGFEAVYELTKMCTISPIFCIRNKCNRTEIPFAVKVPRQFSLSVIILWY 473
EFA LL+QSVN GFEAVY+LT+MCTI
Sbjct: 120 EFAALLAQSVNQGFEAVYQLTRMCTI---------------------------------- 145
Query: 474 FVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSV 530
RMSFVKGWGAEY RQ VTSTPCWIE+HL+GPLQWLDKVL QMGSP S V
Sbjct: 146 -----RMSFVKGWGAEYRRQTVTSTPCWIELHLNGPLQWLDKVLTQMGSPSIRCSXV 197
>pdb|1DEV|A Chain A, Crystal Structure Of Smad2 Mh2 Domain Bound To The Smad-
Binding Domain Of Sara
pdb|1DEV|C Chain C, Crystal Structure Of Smad2 Mh2 Domain Bound To The Smad-
Binding Domain Of Sara
Length = 196
Score = 293 bits (750), Expect = 2e-79, Method: Compositional matrix adjust.
Identities = 146/227 (64%), Positives = 163/227 (71%), Gaps = 40/227 (17%)
Query: 294 EQPFWASIAYYELNSRVGEVFHCQSHSVIVDGFTNPSNNLNRFCLGQLSNVNRNSTIENT 353
E FW SIAYYELN RVGE FH S+ VDGFT+PSN+ RFCLG LSNVNRN+T+E T
Sbjct: 10 EPAFWCSIAYYELNQRVGETFHASQPSLTVDGFTDPSNS-ERFCLGLLSNVNRNATVEMT 68
Query: 354 RRHIGKGVHLYYVGGEVYAECLSDSAIFVQSRNCNHHHGFHQSTVCKIPAGCSLKIFNNQ 413
RRHIG+GV LYY+GGEV+AECLSDSAIFVQS NCN +G+H +TVCKIP GC+LKIFNNQ
Sbjct: 69 RRHIGRGVRLYYIGGEVFAECLSDSAIFVQSPNCNQRYGWHPATVCKIPPGCNLKIFNNQ 128
Query: 414 EFAELLSQSVNHGFEAVYELTKMCTISPIFCIRNKCNRTEIPFAVKVPRQFSLSVIILWY 473
EFA LL+QSVN GFEAVY+LT+MCTI
Sbjct: 129 EFAALLAQSVNQGFEAVYQLTRMCTI---------------------------------- 154
Query: 474 FVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQM 520
RMSFVKGWGAEY RQ VTSTPCWIE+HL+GPLQWLDKVL QM
Sbjct: 155 -----RMSFVKGWGAEYRRQTVTSTPCWIELHLNGPLQWLDKVLTQM 196
>pdb|3KMP|A Chain A, Crystal Structure Of Smad1-Mh1DNA COMPLEX
pdb|3KMP|B Chain B, Crystal Structure Of Smad1-Mh1DNA COMPLEX
Length = 124
Score = 213 bits (541), Expect = 4e-55, Method: Compositional matrix adjust.
Identities = 100/124 (80%), Positives = 106/124 (85%)
Query: 1 FTSPAVKKLLGWKQGDEEEKWAEXXXXXXXXXXXXXXGDIEELERALSCPGQPSKCVTIP 60
FTSPAVK+LLGWKQGDEEEKWAE G +EELE+ALSCPGQPS CVTIP
Sbjct: 1 FTSPAVKRLLGWKQGDEEEKWAEKAVDALVKKLKKKKGAMEELEKALSCPGQPSNCVTIP 60
Query: 61 RSLDGRLQVSHRKGLPHVIYCRVWRWPDLQSHHELKPLEHCQFPFSAKQKDVCINPYHYK 120
RSLDGRLQVSHRKGLPHVIYCRVWRWPDLQSHHELKPLE C+FPF +KQK+VCINPYHYK
Sbjct: 61 RSLDGRLQVSHRKGLPHVIYCRVWRWPDLQSHHELKPLECCEFPFGSKQKEVCINPYHYK 120
Query: 121 RVES 124
RVES
Sbjct: 121 RVES 124
Score = 117 bits (294), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 57/87 (65%), Positives = 65/87 (74%), Gaps = 9/87 (10%)
Query: 508 GPLQWLDKVLIQMGSPHQPIS---------SVSHRKGLPHVIYCRVWRWPDLQSHHELKP 558
G ++ L+K L G P ++ VSHRKGLPHVIYCRVWRWPDLQSHHELKP
Sbjct: 38 GAMEELEKALSCPGQPSNCVTIPRSLDGRLQVSHRKGLPHVIYCRVWRWPDLQSHHELKP 97
Query: 559 LEHCQFPFSAKQKDVCINPYHYKRVES 585
LE C+FPF +KQK+VCINPYHYKRVES
Sbjct: 98 LECCEFPFGSKQKEVCINPYHYKRVES 124
>pdb|1OZJ|A Chain A, Crystal Structure Of Smad3-mh1 Bound To Dna At 2.4 A
Resolution
pdb|1OZJ|B Chain B, Crystal Structure Of Smad3-mh1 Bound To Dna At 2.4 A
Resolution
Length = 144
Score = 181 bits (459), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 83/139 (59%), Positives = 107/139 (76%), Gaps = 4/139 (2%)
Query: 1 FTSPAVKKLLGWKQGDE---EEKWAEXXXXXXXXXXXXXXGDIEELERALSCPGQPSKCV 57
FT P VK+LLGWK+G++ EEKW E G ++ELE+A++ +KC+
Sbjct: 7 FTPPIVKRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKKT-GQLDELEKAITTQNVNTKCI 65
Query: 58 TIPRSLDGRLQVSHRKGLPHVIYCRVWRWPDLQSHHELKPLEHCQFPFSAKQKDVCINPY 117
TIPRSLDGRLQVSHRKGLPHVIYCR+WRWPDL SHHEL+ +E C+F F+ K+ +VC+NPY
Sbjct: 66 TIPRSLDGRLQVSHRKGLPHVIYCRLWRWPDLHSHHELRAMELCEFAFNMKKDEVCVNPY 125
Query: 118 HYKRVESPVLPPIVVPRHS 136
HY+RVE+PVLPP++VPRH+
Sbjct: 126 HYQRVETPVLPPVLVPRHT 144
Score = 108 bits (271), Expect = 7e-24, Method: Compositional matrix adjust.
Identities = 49/87 (56%), Positives = 62/87 (71%), Gaps = 19/87 (21%)
Query: 530 VSHRKGLPHVIYCRVWRWPDLQSHHELKPLEHCQFPFSAKQKDVCINPYHYKRVESPVTL 589
VSHRKGLPHVIYCR+WRWPDL SHHEL+ +E C+F F+ K+ +VC+NPYHY+RVE+
Sbjct: 77 VSHRKGLPHVIYCRLWRWPDLHSHHELRAMELCEFAFNMKKDEVCVNPYHYQRVET---- 132
Query: 590 FDILTHLKIYSFYFLPVLPPIVVPRHS 616
PVLPP++VPRH+
Sbjct: 133 ---------------PVLPPVLVPRHT 144
>pdb|1MHD|A Chain A, Crystal Structure Of A Smad Mh1 Domain Bound To Dna
pdb|1MHD|B Chain B, Crystal Structure Of A Smad Mh1 Domain Bound To Dna
Length = 132
Score = 161 bits (407), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 74/127 (58%), Positives = 95/127 (74%), Gaps = 4/127 (3%)
Query: 1 FTSPAVKKLLGWKQGDE---EEKWAEXXXXXXXXXXXXXXGDIEELERALSCPGQPSKCV 57
FT P VK+LLGWK+G++ EEKW E G ++ELE+A++ +KC+
Sbjct: 7 FTPPIVKRLLGWKKGEQNGQEEKWCEKAVKSLVKKLKKT-GQLDELEKAITTQNVNTKCI 65
Query: 58 TIPRSLDGRLQVSHRKGLPHVIYCRVWRWPDLQSHHELKPLEHCQFPFSAKQKDVCINPY 117
TIPRSLDGRLQVSHRKGLPHVIYCR+WRWPDL SHHEL+ +E C+F F+ K+ +VC+NPY
Sbjct: 66 TIPRSLDGRLQVSHRKGLPHVIYCRLWRWPDLHSHHELRAMELCEFAFNMKKDEVCVNPY 125
Query: 118 HYKRVES 124
HY+RVE+
Sbjct: 126 HYQRVET 132
Score = 100 bits (248), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 40/56 (71%), Positives = 50/56 (89%)
Query: 530 VSHRKGLPHVIYCRVWRWPDLQSHHELKPLEHCQFPFSAKQKDVCINPYHYKRVES 585
VSHRKGLPHVIYCR+WRWPDL SHHEL+ +E C+F F+ K+ +VC+NPYHY+RVE+
Sbjct: 77 VSHRKGLPHVIYCRLWRWPDLHSHHELRAMELCEFAFNMKKDEVCVNPYHYQRVET 132
>pdb|1DD1|A Chain A, Crystal Structure Analysis Of The Smad4 Active Fragment
pdb|1DD1|B Chain B, Crystal Structure Analysis Of The Smad4 Active Fragment
pdb|1DD1|C Chain C, Crystal Structure Analysis Of The Smad4 Active Fragment
Length = 268
Score = 140 bits (352), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 95/241 (39%), Positives = 125/241 (51%), Gaps = 14/241 (5%)
Query: 288 SFSPPQEQ----PFWASIAYYELNSRVGEVFHCQSHS--VIVDGFTNPSNNLNRFCLGQL 341
+F PP +W SIAY+E++ +VGE F S V VDG+ +PS +RFCLGQL
Sbjct: 25 AFQPPISNHPAPEYWCSIAYFEMDVQVGETFKVPSSCPIVTVDGYVDPSGG-DRFCLGQL 83
Query: 342 SNVNRNSTIENTRRHIGKGVHLYYVG-GEVYAECLSDSAIFVQSRNCNHHHGFH-QSTVC 399
SNV+R IE R HIGKGV L G G+V+ CLSD A+FVQS + G V
Sbjct: 84 SNVHRTEAIERARLHIGKGVQLECKGEGDVWVRCLSDHAVFVQSYYLDREAGRAPGDAVH 143
Query: 400 KIPAGCSLKIFNNQEFAELLSQSVNHGFEAVYELTKMCTISPIFCIRNKCNRTEIPFAVK 459
KI +K+F+ ++ + Q A + I + I A+
Sbjct: 144 KIYPSAYIKVFDLRQCHRQMQQQAATAQAAAAAQAAAVAGN----IPGPGSVGGIAPAIS 199
Query: 460 VPRQFSLSVIILWYFVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQ 519
+ + V L ++ RMSFVKGWG +Y RQ + TPCWIEIHLH LQ LD+VL
Sbjct: 200 LSAAAGIGVDDLRRLCIL-RMSFVKGWGPDYPRQSIKETPCWIEIHLHRALQLLDEVLHT 258
Query: 520 M 520
M
Sbjct: 259 M 259
>pdb|1MR1|A Chain A, Crystal Structure Of A Smad4-Ski Complex
pdb|1MR1|B Chain B, Crystal Structure Of A Smad4-Ski Complex
Length = 235
Score = 140 bits (352), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 92/228 (40%), Positives = 121/228 (53%), Gaps = 10/228 (4%)
Query: 297 FWASIAYYELNSRVGEVFHCQSHS--VIVDGFTNPSNNLNRFCLGQLSNVNRNSTIENTR 354
+W SIAY+E++ +VGE F S V VDG+ +PS +RFCLGQLSNV+R IE R
Sbjct: 5 YWCSIAYFEMDVQVGETFKVPSSCPIVTVDGYVDPSGG-DRFCLGQLSNVHRTEAIERAR 63
Query: 355 RHIGKGVHLYYVG-GEVYAECLSDSAIFVQSRNCNHHHGFH-QSTVCKIPAGCSLKIFNN 412
HIGKGV L G G+V+ CLSD A+FVQS + G V KI +K+F+
Sbjct: 64 LHIGKGVQLECKGEGDVWVRCLSDHAVFVQSYYLDREAGRAPGDAVHKIYPSAYIKVFDL 123
Query: 413 QEFAELLSQSVNHGFEAVYELTKMCTISPIFCIRNKCNRTEIPFAVKVPRQFSLSVIILW 472
++ + Q A + I + I A+ + + V L
Sbjct: 124 RQCHRQMQQQAATAQAAAAAQAAAVAGN----IPGPGSVGGIAPAISLSAAAGIGVDDLR 179
Query: 473 YFVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQM 520
++ RMSFVKGWG +Y RQ + TPCWIEIHLH LQ LD+VL M
Sbjct: 180 RLCIL-RMSFVKGWGPDYPRQSIKETPCWIEIHLHRALQLLDEVLHTM 226
>pdb|1YGS|A Chain A, Crystal Structure Of The Smad4 Tumor Suppressor C-Terminal
Domain
Length = 234
Score = 140 bits (352), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 92/228 (40%), Positives = 121/228 (53%), Gaps = 10/228 (4%)
Query: 297 FWASIAYYELNSRVGEVFHCQSHS--VIVDGFTNPSNNLNRFCLGQLSNVNRNSTIENTR 354
+W SIAY+E++ +VGE F S V VDG+ +PS +RFCLGQLSNV+R IE R
Sbjct: 4 YWCSIAYFEMDVQVGETFKVPSSCPIVTVDGYVDPSGG-DRFCLGQLSNVHRTEAIERAR 62
Query: 355 RHIGKGVHLYYVG-GEVYAECLSDSAIFVQSRNCNHHHGFH-QSTVCKIPAGCSLKIFNN 412
HIGKGV L G G+V+ CLSD A+FVQS + G V KI +K+F+
Sbjct: 63 LHIGKGVQLECKGEGDVWVRCLSDHAVFVQSYYLDREAGRAPGDAVHKIYPSAYIKVFDL 122
Query: 413 QEFAELLSQSVNHGFEAVYELTKMCTISPIFCIRNKCNRTEIPFAVKVPRQFSLSVIILW 472
++ + Q A + I + I A+ + + V L
Sbjct: 123 RQCHRQMQQQAATAQAAAAAQAAAVAGN----IPGPGSVGGIAPAISLSAAAGIGVDDLR 178
Query: 473 YFVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQM 520
++ RMSFVKGWG +Y RQ + TPCWIEIHLH LQ LD+VL M
Sbjct: 179 RLCIL-RMSFVKGWGPDYPRQSIKETPCWIEIHLHRALQLLDEVLHTM 225
>pdb|1U7F|B Chain B, Crystal Structure Of The Phosphorylated Smad3SMAD4
Heterotrimeric Complex
Length = 239
Score = 139 bits (351), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 92/228 (40%), Positives = 121/228 (53%), Gaps = 10/228 (4%)
Query: 297 FWASIAYYELNSRVGEVFHCQSHS--VIVDGFTNPSNNLNRFCLGQLSNVNRNSTIENTR 354
+W SIAY+E++ +VGE F S V VDG+ +PS +RFCLGQLSNV+R IE R
Sbjct: 9 YWCSIAYFEMDVQVGETFKVPSSCPIVTVDGYVDPSGG-DRFCLGQLSNVHRTEAIERAR 67
Query: 355 RHIGKGVHLYYVG-GEVYAECLSDSAIFVQSRNCNHHHGFH-QSTVCKIPAGCSLKIFNN 412
HIGKGV L G G+V+ CLSD A+FVQS + G V KI +K+F+
Sbjct: 68 LHIGKGVQLECKGEGDVWVRCLSDHAVFVQSYYLDREAGRAPGDAVHKIYPSAYIKVFDL 127
Query: 413 QEFAELLSQSVNHGFEAVYELTKMCTISPIFCIRNKCNRTEIPFAVKVPRQFSLSVIILW 472
++ + Q A + I + I A+ + + V L
Sbjct: 128 RQCHRQMQQQAATAQAAAAAQAAAVAGN----IPGPGSVGGIAPAISLSAAAGIGVDDLR 183
Query: 473 YFVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQM 520
++ RMSFVKGWG +Y RQ + TPCWIEIHLH LQ LD+VL M
Sbjct: 184 RLCIL-RMSFVKGWGPDYPRQSIKETPCWIEIHLHRALQLLDEVLHTM 230
>pdb|1U7V|B Chain B, Crystal Structure Of The Phosphorylated Smad2SMAD4
Heterotrimeric Complex
Length = 236
Score = 139 bits (351), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 92/228 (40%), Positives = 121/228 (53%), Gaps = 10/228 (4%)
Query: 297 FWASIAYYELNSRVGEVFHCQSHS--VIVDGFTNPSNNLNRFCLGQLSNVNRNSTIENTR 354
+W SIAY+E++ +VGE F S V VDG+ +PS +RFCLGQLSNV+R IE R
Sbjct: 9 YWCSIAYFEMDVQVGETFKVPSSCPIVTVDGYVDPSGG-DRFCLGQLSNVHRTEAIERAR 67
Query: 355 RHIGKGVHLYYVG-GEVYAECLSDSAIFVQSRNCNHHHGFH-QSTVCKIPAGCSLKIFNN 412
HIGKGV L G G+V+ CLSD A+FVQS + G V KI +K+F+
Sbjct: 68 LHIGKGVQLECKGEGDVWVRCLSDHAVFVQSYYLDREAGRAPGDAVHKIYPSAYIKVFDL 127
Query: 413 QEFAELLSQSVNHGFEAVYELTKMCTISPIFCIRNKCNRTEIPFAVKVPRQFSLSVIILW 472
++ + Q A + I + I A+ + + V L
Sbjct: 128 RQCHRQMQQQAATAQAAAAAQAAAVAGN----IPGPGSVGGIAPAISLSAAAGIGVDDLR 183
Query: 473 YFVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQM 520
++ RMSFVKGWG +Y RQ + TPCWIEIHLH LQ LD+VL M
Sbjct: 184 RLCIL-RMSFVKGWGPDYPRQSIKETPCWIEIHLHRALQLLDEVLHTM 230
>pdb|1G88|A Chain A, S4afl3arg515 Mutant
pdb|1G88|B Chain B, S4afl3arg515 Mutant
pdb|1G88|C Chain C, S4afl3arg515 Mutant
Length = 268
Score = 137 bits (346), Expect = 2e-32, Method: Compositional matrix adjust.
Identities = 94/241 (39%), Positives = 124/241 (51%), Gaps = 14/241 (5%)
Query: 288 SFSPPQEQ----PFWASIAYYELNSRVGEVFHCQSHS--VIVDGFTNPSNNLNRFCLGQL 341
+F PP +W SIAY+E++ +VGE F S V VDG+ +PS +RFCLGQL
Sbjct: 25 AFQPPISNHPAPEYWCSIAYFEMDVQVGETFKVPSSCPIVTVDGYVDPSGG-DRFCLGQL 83
Query: 342 SNVNRNSTIENTRRHIGKGVHLYYVG-GEVYAECLSDSAIFVQSRNCNHHHGFH-QSTVC 399
SNV+R IE R HIGKGV L G G+V+ CLSD A+FVQS + G V
Sbjct: 84 SNVHRTEAIERARLHIGKGVQLECKGEGDVWVRCLSDHAVFVQSYYLDREAGRAPGDAVH 143
Query: 400 KIPAGCSLKIFNNQEFAELLSQSVNHGFEAVYELTKMCTISPIFCIRNKCNRTEIPFAVK 459
KI +K+F+ ++ + Q A + I + I A+
Sbjct: 144 KIYPSAYIKVFDLRQCHRQMQQQAATAQAAAAAQAAAVAGN----IPGPGSVGGIAPAIS 199
Query: 460 VPRQFSLSVIILWYFVLISRMSFVKGWGAEYHRQDVTSTPCWIEIHLHGPLQWLDKVLIQ 519
+ + V L ++ RMSFVKGWG +Y Q + TPCWIEIHLH LQ LD+VL
Sbjct: 200 LSAAAGIGVDDLRRLCIL-RMSFVKGWGPDYPSQSIKETPCWIEIHLHRALQLLDEVLHT 258
Query: 520 M 520
M
Sbjct: 259 M 259
>pdb|3QSV|A Chain A, Structural Basis For Dna Recognition By Constitutive Smad4
Mh1 Dimers
pdb|3QSV|B Chain B, Structural Basis For Dna Recognition By Constitutive Smad4
Mh1 Dimers
pdb|3QSV|C Chain C, Structural Basis For Dna Recognition By Constitutive Smad4
Mh1 Dimers
pdb|3QSV|D Chain D, Structural Basis For Dna Recognition By Constitutive Smad4
Mh1 Dimers
Length = 132
Score = 112 bits (280), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 58/121 (47%), Positives = 77/121 (63%), Gaps = 2/121 (1%)
Query: 6 VKKLLGWKQGDEEEKWAEXXXXXXXXXXXXXXGDIEELERALSCPG-QPSKCVTIPRSLD 64
V L+ +QG E E +A+ +++ L A++ G PSKCVTI R+LD
Sbjct: 12 VHSLMCHRQGGESETFAKRAIESLVKKLKEKKDELDSLITAITTNGAHPSKCVTIQRTLD 71
Query: 65 GRLQVSHRKGLPHVIYCRVWRWPDLQSHHELKPLEHCQFPFSAKQKDVCINPYHYKRVES 124
GRLQV+ RKG PHVIY R+WRWPDL +ELK +++CQ+ F K VC+NPYHY+RV S
Sbjct: 72 GRLQVAGRKGFPHVIYARLWRWPDLHK-NELKHVKYCQYAFDLKCDSVCVNPYHYERVVS 130
Query: 125 P 125
P
Sbjct: 131 P 131
Score = 78.2 bits (191), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 34/57 (59%), Positives = 43/57 (75%), Gaps = 1/57 (1%)
Query: 530 VSHRKGLPHVIYCRVWRWPDLQSHHELKPLEHCQFPFSAKQKDVCINPYHYKRVESP 586
V+ RKG PHVIY R+WRWPDL + ELK +++CQ+ F K VC+NPYHY+RV SP
Sbjct: 76 VAGRKGFPHVIYARLWRWPDLHKN-ELKHVKYCQYAFDLKCDSVCVNPYHYERVVSP 131
>pdb|3HC2|A Chain A, Crystal Structure Of Chicken Sulfite Oxidase Mutant Tyr
322 Phe
Length = 466
Score = 29.3 bits (64), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 4/50 (8%)
Query: 491 HRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVSHRKGLPHVI 540
H DV ++E+H GP DK+L+ G +P ++ G PHV+
Sbjct: 26 HGTDVFDVTDFVELHPGGP----DKILLAAGGALEPFWALYAVHGEPHVL 71
>pdb|3R19|A Chain A, Chicken Sulfite Oxidase Triple Mutant With Altered
Activity And Substrate Affinity
Length = 466
Score = 29.3 bits (64), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 4/50 (8%)
Query: 491 HRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVSHRKGLPHVI 540
H DV ++E+H GP DK+L+ G +P ++ G PHV+
Sbjct: 26 HGTDVFDVTDFVELHPGGP----DKILLAAGGALEPFWALYAVHGEPHVL 71
>pdb|3R18|A Chain A, Chicken Sulfite Oxidase Double Mutant With Altered
Activity And Substrate Affinity
Length = 466
Score = 29.3 bits (64), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 4/50 (8%)
Query: 491 HRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVSHRKGLPHVI 540
H DV ++E+H GP DK+L+ G +P ++ G PHV+
Sbjct: 26 HGTDVFDVTDFVELHPGGP----DKILLAAGGALEPFWALYAVHGEPHVL 71
>pdb|1SOX|A Chain A, Sulfite Oxidase From Chicken Liver
pdb|1SOX|B Chain B, Sulfite Oxidase From Chicken Liver
Length = 466
Score = 29.3 bits (64), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 4/50 (8%)
Query: 491 HRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVSHRKGLPHVI 540
H DV ++E+H GP DK+L+ G +P ++ G PHV+
Sbjct: 26 HGTDVFDVTDFVELHPGGP----DKILLAAGGALEPFWALYAVHGEPHVL 71
>pdb|3HBQ|A Chain A, Structure Of Recombinant Chicken Liver Sulfite Oxidase
Mutant Cys 185 Ala
Length = 466
Score = 29.3 bits (64), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 4/50 (8%)
Query: 491 HRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVSHRKGLPHVI 540
H DV ++E+H GP DK+L+ G +P ++ G PHV+
Sbjct: 26 HGTDVFDVTDFVELHPGGP----DKILLAAGGALEPFWALYAVHGEPHVL 71
>pdb|3HBG|A Chain A, Structure Of Recombinant Chicken Liver Sulfite Oxidase
Mutant C185s
pdb|3HBP|A Chain A, The Crystal Structure Of C185s Mutant Of Recombinant
Sulfite Oxidase With Bound Substrate, Sulfite, At The
Active Site
Length = 466
Score = 29.3 bits (64), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 4/50 (8%)
Query: 491 HRQDVTSTPCWIEIHLHGPLQWLDKVLIQMGSPHQPISSVSHRKGLPHVI 540
H DV ++E+H GP DK+L+ G +P ++ G PHV+
Sbjct: 26 HGTDVFDVTDFVELHPGGP----DKILLAAGGALEPFWALYAVHGEPHVL 71
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
0.321 0.136 0.443
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,353,946
Number of Sequences: 62578
Number of extensions: 870263
Number of successful extensions: 1400
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1338
Number of HSP's gapped (non-prelim): 45
length of query: 692
length of database: 14,973,337
effective HSP length: 106
effective length of query: 586
effective length of database: 8,340,069
effective search space: 4887280434
effective search space used: 4887280434
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)