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= 023311
(284 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3HFD|A Chain A, Nucleosome Assembly Protein 1 From Plasmodium Knowlesi
Length = 276
Score = 112 bits (281), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 68/186 (36%), Positives = 96/186 (51%), Gaps = 10/186 (5%)
Query: 34 GVPDFWLTAMKNNDVLSEEITERDEGALKFLKDIKWFRIDDPK----GFKLEFYFDPNPY 89
+P+FWL A++NN+ +S I + DE L +L DI+ I K GF L F+F PNP+
Sbjct: 76 NLPEFWLRALRNNNTVSHVIEDHDEEILVYLNDIRCDYIKKNKEKKEGFILSFHFAPNPF 135
Query: 90 FKNSVLTKTYHM--IDED-EPILEKAIGTEIEWYPGXXXXXXXXXXXXXXXXXX-XXPIT 145
F NSVLTKTYHM +D D EP+L T I+WY +
Sbjct: 136 FSNSVLTKTYHMKCVDCDNEPVLLHTEATVIDWYDNKNILKKNVVKKQHNKNSREVKTVQ 195
Query: 146 KTEECESFFNFFNPPQVPXXXXXXXXXXXXXLQNQM--EQDYDIGSTIRDKIIPHAVSWF 203
+T +SFF+FF +VP Q +M E DY++ TI+++IIP+AV +F
Sbjct: 196 QTVNRDSFFHFFTSHKVPNSNVIKQLSKHEVAQLEMIIEGDYEVALTIKERIIPYAVDYF 255
Query: 204 TGEAIQ 209
G I+
Sbjct: 256 LGIIIE 261
>pdb|3FS3|A Chain A, Crystal Structure Of Malaria Parasite Nucleosome Assembly
Protein (Nap)
Length = 359
Score = 110 bits (276), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 67/186 (36%), Positives = 95/186 (51%), Gaps = 10/186 (5%)
Query: 34 GVPDFWLTAMKNNDVLSEEITERDEGALKFLKDIKWFRIDDPK----GFKLEFYFDPNPY 89
+P+FWL A++NN+ +S I + DE L +L DI+ I K GF L FYF NP+
Sbjct: 110 NLPEFWLRALRNNNTVSHVIEDHDEEILVYLNDIRCDYIKKNKEKKEGFILSFYFATNPF 169
Query: 90 FKNSVLTKTYHM--IDED-EPILEKAIGTEIEWYPGXX-XXXXXXXXXXXXXXXXXXPIT 145
F NSVLTKTYHM +D D EP+L T I+WY +
Sbjct: 170 FSNSVLTKTYHMKCVDCDNEPVLLHTEATVIDWYDNKNILKKNVVKKQHNKNSREVKTVQ 229
Query: 146 KTEECESFFNFFNPPQVPXXXXXXXXXXXXXLQNQM--EQDYDIGSTIRDKIIPHAVSWF 203
+T +SFF+FF +VP Q +M E DY++ TI+++IIP+AV ++
Sbjct: 230 QTVNRDSFFHFFTSHKVPNSNVIKQLSKHEVAQLEMIIEGDYEVALTIKERIIPYAVDYY 289
Query: 204 TGEAIQ 209
G I+
Sbjct: 290 LGIIIE 295
>pdb|3GYV|A Chain A, Crystal Structure Of Nucleosome Assembly Protein From
Plasmodium Falciparum
pdb|3GYW|A Chain A, Crystal Structure Of Nucleosome Assembly Protein From
Plasmodium Falciparum At 2.4 A Resolution
Length = 249
Score = 110 bits (274), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 66/182 (36%), Positives = 93/182 (51%), Gaps = 10/182 (5%)
Query: 34 GVPDFWLTAMKNNDVLSEEITERDEGALKFLKDIKWFRIDDPK----GFKLEFYFDPNPY 89
+P+FWL A++NN+ +S I + DE L +L DI+ I K GF L FYF NP+
Sbjct: 66 NLPEFWLRALRNNNTVSHVIEDHDEEILVYLNDIRCDYIKKNKEKKEGFILSFYFATNPF 125
Query: 90 FKNSVLTKTYHM--IDED-EPILEKAIGTEIEWYPGXXXXXXXXXXXXXXXXXX-XXPIT 145
F NSVLTKTYHM +D D EP+L T I+WY +
Sbjct: 126 FSNSVLTKTYHMKCVDCDNEPVLLHTEATVIDWYDNKNILKKNVVKKQHNKNSREVKTVQ 185
Query: 146 KTEECESFFNFFNPPQVPXXXXXXXXXXXXXLQNQM--EQDYDIGSTIRDKIIPHAVSWF 203
+T +SFF+FF +VP Q +M E DY++ TI+++IIP+AV ++
Sbjct: 186 QTVNRDSFFHFFTSHKVPNSNVIKQLSKHEVAQLEMIIEGDYEVALTIKERIIPYAVDYY 245
Query: 204 TG 205
G
Sbjct: 246 LG 247
>pdb|2Z2R|A Chain A, Nucleosome Assembly Proteins I (Nap-1, 74-365)
pdb|2Z2R|B Chain B, Nucleosome Assembly Proteins I (Nap-1, 74-365)
Length = 292
Score = 105 bits (263), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 76/237 (32%), Positives = 111/237 (46%), Gaps = 31/237 (13%)
Query: 1 MYTKRYEIVNGVVEGAPNEVAMDQE--------------EDKATEE------KGVPDFWL 40
++ +R I++G + P ++A QE E+KA + KG+P FWL
Sbjct: 58 IWEQRSRIISGQEQPKPEQIAKGQEIVESLNETELLVDEEEKAQNDSEEEQVKGIPSFWL 117
Query: 41 TAMKNNDVLSEEITERDEGALKFLKDIKWFRIDDPK-GFKLEFYFD--PNPYFKNSVLTK 97
TA++N ++ + IT+RD L++L+DI + D + GFKL F FD NP+F N +L K
Sbjct: 118 TALENLPIVCDTITDRDAEVLEYLQDIGLEYLTDGRPGFKLLFRFDSSANPFFTNDILCK 177
Query: 98 TYHMIDE----DEPILEKAIGTEIEWYPGXXXXX--XXXXXXXXXXXXXXXPITKTEECE 151
TY E + I + A G EI W I K E
Sbjct: 178 TYFYQKELGYSGDFIYDHAEGCEISWKDNAHNVTVDLEMRKQRNKTTKQVRTIEKITPIE 237
Query: 152 SFFNFFNPPQVPXXXXXXXXXXXXXLQNQMEQDYDIGSTIRDKIIPHAVSWFTGEAI 208
SFFNFF+PP++ + + DY IG ++DK+IP AV WFTG A+
Sbjct: 238 SFFNFFDPPKIQNEDQDEELEEDLEERLAL--DYSIGEQLKDKLIPRAVDWFTGAAL 292
>pdb|2AYU|A Chain A, The Structure Of Nucleosome Assembly Protein Suggests A
Mechanism For Histone Binding And Shuttling
Length = 417
Score = 104 bits (259), Expect = 6e-23, Method: Compositional matrix adjust.
Identities = 75/234 (32%), Positives = 108/234 (46%), Gaps = 31/234 (13%)
Query: 1 MYTKRYEIVNGVVEGAPNEVAMDQE--------------EDKATEE------KGVPDFWL 40
++ +R I++G + P ++A QE E+KA + KG+P FWL
Sbjct: 131 IWEQRSRIISGQEQPKPEQIAKGQEIVESLNETELLVDEEEKAQNDSEEEQVKGIPSFWL 190
Query: 41 TAMKNNDVLSEEITERDEGALKFLKDIKW-FRIDDPKGFKLEFYFD--PNPYFKNSVLTK 97
TA++N ++ + IT+RD L++L+DI + D GFKL F FD NP+F N +L K
Sbjct: 191 TALENLPIVCDTITDRDAEVLEYLQDIGLEYLTDGRPGFKLLFRFDSSANPFFTNDILCK 250
Query: 98 TYHMIDE----DEPILEKAIGTEIEWYPGXXXXXX--XXXXXXXXXXXXXXPITKTEECE 151
TY E + I + A G EI W I K E
Sbjct: 251 TYFYQKELGYSGDFIYDHAEGCEISWKDNAHNVTVDLEMRKQRNKTTKQVRTIEKITPIE 310
Query: 152 SFFNFFNPPQVPXXXXXXXXXXXXXLQNQMEQDYDIGSTIRDKIIPHAVSWFTG 205
SFFNFF+PP++ + + DY IG ++DK+IP AV WFTG
Sbjct: 311 SFFNFFDPPKIQNEDQDEELEEDLEERLAL--DYSIGEQLKDKLIPRAVDWFTG 362
>pdb|2E50|A Chain A, Crystal Structure Of SetTAF-1betaINHAT
pdb|2E50|B Chain B, Crystal Structure Of SetTAF-1betaINHAT
pdb|2E50|P Chain P, Crystal Structure Of SetTAF-1betaINHAT
pdb|2E50|Q Chain Q, Crystal Structure Of SetTAF-1betaINHAT
Length = 225
Score = 72.4 bits (176), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 41/124 (33%), Positives = 65/124 (52%), Gaps = 9/124 (7%)
Query: 35 VPDFWLTAMKNNDVLSEEITERDEGALKFLKDIKWFRIDDPK-GFKLEFYFDPNPYFKNS 93
+P+FW+T N+ +S + E DE A+ +L ++ +D K G++++FYFD NPYF+N
Sbjct: 78 IPNFWVTTFVNHPQVSALLGEEDEEAMHYLTRVEVTEFEDIKSGYRIDFYFDENPYFENK 137
Query: 94 VLTKTYHMIDEDEPILEKAIGTEIEWYPGXXXXXXXXXXXXXXXXXXXXPITKTEECESF 153
VL+K +HM + +P + TEI+W G + EE ESF
Sbjct: 138 VLSKEFHMNESGDP---SSKSTEIKWKSGKDMTKRSSQTQNKASRKR-----QHEEPESF 189
Query: 154 FNFF 157
F +F
Sbjct: 190 FTWF 193
>pdb|3RJR|A Chain A, Crystal Structure Of Pro-tgf Beta 1
pdb|3RJR|B Chain B, Crystal Structure Of Pro-tgf Beta 1
pdb|3RJR|C Chain C, Crystal Structure Of Pro-tgf Beta 1
pdb|3RJR|D Chain D, Crystal Structure Of Pro-tgf Beta 1
Length = 363
Score = 31.6 bits (70), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 61 LKFLKDIKWFRIDDPKGFKLEFYFDPNPYF 90
+ F KD+ W I +PKG+ F P PY
Sbjct: 273 IDFRKDLGWKWIHEPKGYHANFCLGPCPYI 302
>pdb|1KLD|A Chain A, Solution Structure Of Tgf-B1, Nmr, Models 18-33 Of 33
Structures
pdb|1KLD|B Chain B, Solution Structure Of Tgf-B1, Nmr, Models 18-33 Of 33
Structures
pdb|1KLC|A Chain A, Solution Structure Of Tgf-B1, Nmr, Minimized Average
Structure
pdb|1KLC|B Chain B, Solution Structure Of Tgf-B1, Nmr, Minimized Average
Structure
pdb|1KLA|A Chain A, Solution Structure Of Tgf-B1, Nmr, Models 1-17 Of 33
Structures
pdb|1KLA|B Chain B, Solution Structure Of Tgf-B1, Nmr, Models 1-17 Of 33
Structures
pdb|3KFD|A Chain A, Ternary Complex Of Tgf-B1 Reveals Isoform-Specific
Ligand Re And Receptor Recruitment In The Superfamily
pdb|3KFD|B Chain B, Ternary Complex Of Tgf-B1 Reveals Isoform-Specific
Ligand Re And Receptor Recruitment In The Superfamily
pdb|3KFD|C Chain C, Ternary Complex Of Tgf-B1 Reveals Isoform-Specific
Ligand Re And Receptor Recruitment In The Superfamily
pdb|3KFD|D Chain D, Ternary Complex Of Tgf-B1 Reveals Isoform-Specific
Ligand Re And Receptor Recruitment In The Superfamily
Length = 112
Score = 31.2 bits (69), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 61 LKFLKDIKWFRIDDPKGFKLEFYFDPNPYF 90
+ F KD+ W I +PKG+ F P PY
Sbjct: 22 IDFRKDLGWKWIHEPKGYHANFCLGPCPYI 51
>pdb|1KTZ|A Chain A, Crystal Structure Of The Human Tgf-Beta Type Ii Receptor
Extracellular Domain In Complex With Tgf-Beta3
pdb|1TGJ|A Chain A, Human Transforming Growth Factor-beta 3, Crystallized
From Dioxane
pdb|1TGK|A Chain A, Human Transforming Growth Factor Beta 3, Crystallized
From Peg 4000
pdb|2PJY|A Chain A, Structural Basis For Cooperative Assembly Of The
Tgf-Beta Signaling Complex
pdb|3EO1|C Chain C, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
pdb|3EO1|F Chain F, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
pdb|3EO1|I Chain I, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
pdb|3EO1|L Chain L, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
Length = 112
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 21/38 (55%)
Query: 61 LKFLKDIKWFRIDDPKGFKLEFYFDPNPYFKNSVLTKT 98
+ F +D+ W + +PKG+ F P PY +++ T +
Sbjct: 22 IDFRQDLGWKWVHEPKGYYANFCSGPCPYLRSADTTHS 59
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
0.315 0.136 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,549,338
Number of Sequences: 62578
Number of extensions: 228761
Number of successful extensions: 391
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 363
Number of HSP's gapped (non-prelim): 9
length of query: 284
length of database: 14,973,337
effective HSP length: 98
effective length of query: 186
effective length of database: 8,840,693
effective search space: 1644368898
effective search space used: 1644368898
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (24.3 bits)