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= 037952
(148 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1A5J|A Chain A, Chicken B-Myb Dna Binding Domain, Repeat 2 And Repeat3,
Nmr, 32 Structures
Length = 110
Score = 57.4 bits (137), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 29/69 (42%), Positives = 41/69 (59%), Gaps = 15/69 (21%)
Query: 23 RCGKSCRSRWINYLHPHLKCGNFTNEEDKLIIKLHR---------------RTDNEIKNC 67
R GK CR RW N+L+P +K ++T EED++I + H+ RTDN +KN
Sbjct: 40 RLGKQCRERWHNHLNPEVKKSSWTEEEDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNH 99
Query: 68 WNTHIKRKL 76
WN+ IKRK+
Sbjct: 100 WNSTIKRKV 108
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 54.3 bits (129), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/69 (40%), Positives = 41/69 (59%), Gaps = 15/69 (21%)
Query: 23 RCGKSCRSRWINYLHPHLKCGNFTNEEDKLIIKLHR---------------RTDNEIKNC 67
R GK CR RW N+L+P +K ++T EED++I + H+ RTDN IKN
Sbjct: 37 RIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNH 96
Query: 68 WNTHIKRKL 76
WN+ ++RK+
Sbjct: 97 WNSTMRRKV 105
>pdb|1H88|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex1
pdb|1H89|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex2
Length = 159
Score = 54.3 bits (129), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/69 (40%), Positives = 41/69 (59%), Gaps = 15/69 (21%)
Query: 23 RCGKSCRSRWINYLHPHLKCGNFTNEEDKLIIKLHR---------------RTDNEIKNC 67
R GK CR RW N+L+P +K ++T EED++I + H+ RTDN IKN
Sbjct: 91 RIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNH 150
Query: 68 WNTHIKRKL 76
WN+ ++RK+
Sbjct: 151 WNSTMRRKV 159
Score = 32.3 bits (72), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 20/34 (58%)
Query: 23 RCGKSCRSRWINYLHPHLKCGNFTNEEDKLIIKL 56
R C+ RW L+P L G +T EED+ +IKL
Sbjct: 39 RTDVQCQHRWQKVLNPELIKGPWTKEEDQRVIKL 72
>pdb|1MSE|C Chain C, Solution Structure Of A Specific Dna Complex Of The Myb
Dna- Binding Domain With Cooperative Recognition Helices
pdb|1MSF|C Chain C, Solution Structure Of A Specific Dna Complex Of The Myb
Dna- Binding Domain With Cooperative Recognition Helices
Length = 105
Score = 53.9 bits (128), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/69 (40%), Positives = 41/69 (59%), Gaps = 15/69 (21%)
Query: 23 RCGKSCRSRWINYLHPHLKCGNFTNEEDKLIIKLHR---------------RTDNEIKNC 67
R GK CR RW N+L+P +K ++T EED++I + H+ RTDN IKN
Sbjct: 37 RIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNH 96
Query: 68 WNTHIKRKL 76
WN+ ++RK+
Sbjct: 97 WNSTMRRKV 105
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 53.9 bits (128), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 27/69 (39%), Positives = 41/69 (59%), Gaps = 15/69 (21%)
Query: 23 RCGKSCRSRWINYLHPHLKCGNFTNEEDKLIIKLHR---------------RTDNEIKNC 67
R GK CR RW N+L+P +K ++T EED++I + H+ RTDN +KN
Sbjct: 60 RIGKQCRERWHNHLNPEVKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNH 119
Query: 68 WNTHIKRKL 76
WN+ ++RK+
Sbjct: 120 WNSTMRRKV 128
Score = 30.0 bits (66), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 23 RCGKSCRSRWINYLHPHLKCGNFTNEEDKLIIK 55
R C+ RW L+P L G +T EED+ +I+
Sbjct: 8 RTDVQCQHRWQKVLNPELNKGPWTKEEDQRVIE 40
>pdb|3ZQC|A Chain A, Structure Of The Trichomonas Vaginalis Myb3 Dna-Binding
Domain Bound To A Promoter Sequence Reveals A Unique C-
Terminal Beta-Hairpin Conformation
pdb|3ZQC|D Chain D, Structure Of The Trichomonas Vaginalis Myb3 Dna-Binding
Domain Bound To A Promoter Sequence Reveals A Unique C-
Terminal Beta-Hairpin Conformation
pdb|3ZQC|G Chain G, Structure Of The Trichomonas Vaginalis Myb3 Dna-Binding
Domain Bound To A Promoter Sequence Reveals A Unique C-
Terminal Beta-Hairpin Conformation
pdb|3ZQC|J Chain J, Structure Of The Trichomonas Vaginalis Myb3 Dna-Binding
Domain Bound To A Promoter Sequence Reveals A Unique C-
Terminal Beta-Hairpin Conformation
Length = 131
Score = 43.5 bits (101), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 34/69 (49%), Gaps = 15/69 (21%)
Query: 23 RCGKSCRSRWINYLHPHLKCGNFTNEEDKLIIK---------------LHRRTDNEIKNC 67
R K CR RW N+L P + +T EED+ I + + RTDN IKN
Sbjct: 35 RSPKQCRERWFNHLDPAVVKHAWTPEEDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNR 94
Query: 68 WNTHIKRKL 76
WN+ I +++
Sbjct: 95 WNSSISKRI 103
>pdb|3OSF|A Chain A, The Structure Of Protozoan Parasite Trichomonas Vaginalis
Myb2 In Complex With Mre-2f-13 Dna
pdb|3OSF|D Chain D, The Structure Of Protozoan Parasite Trichomonas Vaginalis
Myb2 In Complex With Mre-2f-13 Dna
pdb|3OSG|A Chain A, The Structure Of Protozoan Parasite Trichomonas Vaginalis
Myb2 In Complex With Mre-1-12 Dna
pdb|3OSG|D Chain D, The Structure Of Protozoan Parasite Trichomonas Vaginalis
Myb2 In Complex With Mre-1-12 Dna
Length = 126
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 30/82 (36%), Positives = 37/82 (45%), Gaps = 20/82 (24%)
Query: 23 RCGKSCRSRWINYLHPHLKCGNFTNEEDKLIIK---------------LHRRTDNEIKNC 67
R + CR RW NYL P + +T EED L+++ RTD IKN
Sbjct: 43 RNARQCRDRWKNYLAPSISHTPWTAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNR 102
Query: 68 WNTHIKRKLLNHGLDPQTHHPL 89
W T I KL G+ PQT L
Sbjct: 103 WVT-ISNKL---GI-PQTQQML 119
>pdb|2K9N|A Chain A, Solution Nmr Structure Of The R2r3 Dna Binding Domain Of
Myb1 Protein From Protozoan Parasite Trichomonas
Vaginalis
pdb|2KDZ|A Chain A, Structure Of The R2r3 Dna Binding Domain Of Myb1 Protein
From Protozoan Parasite Trichomonas Vaginalis In
Complex With Mre-1MRE-2r Dna
Length = 107
Score = 36.6 bits (83), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 34/70 (48%), Gaps = 15/70 (21%)
Query: 14 VSINYSGLLRCGKSCRSRWINYLHPHLKCGNFTNEEDKLIIK---------------LHR 58
+ I+ + R + CR RW NY++P L+ ++ EED L+ + L
Sbjct: 25 IRISQLMITRNPRQCRERWNNYINPALRTDPWSPEEDMLLDQKYAEYGPKWNKISKFLKN 84
Query: 59 RTDNEIKNCW 68
R+DN I+N W
Sbjct: 85 RSDNNIRNRW 94
>pdb|1MBJ|A Chain A, Mouse C-Myb Dna-Binding Domain Repeat 3
pdb|1MBK|A Chain A, Mouse C-Myb Dna-Binding Domain Repeat 3
Length = 53
Score = 33.1 bits (74), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 15/52 (28%)
Query: 40 LKCGNFTNEEDKLIIKLHRR---------------TDNEIKNCWNTHIKRKL 76
+K ++T EED++I + H+R TDN IKN WN+ ++RK+
Sbjct: 1 VKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 52
>pdb|1IDY|A Chain A, Structure Of Myb Transforming Protein, Nmr, Minimized
Average Structure
pdb|1IDZ|A Chain A, Structure Of Myb Transforming Protein, Nmr, 20
Structures
Length = 54
Score = 32.0 bits (71), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 15/53 (28%)
Query: 39 HLKCGNFTNEEDKLIIKLHRR---------------TDNEIKNCWNTHIKRKL 76
+K ++T EED+++ + H+R TDN IKN WN+ ++RK+
Sbjct: 2 EVKKTSWTEEEDRILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 54
>pdb|3EOJ|A Chain A, Fmo Protein From Prosthecochloris Aestuarii 2k At 1.3a
Resolution
Length = 366
Score = 26.6 bits (57), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 5/41 (12%)
Query: 74 RKLLNHGLDPQTHHPLNQIHNHNIFNKYTINNNEEINQPKN 114
R++LNH L P HH + FN +T++ +I PK
Sbjct: 285 RRILNHPLIPLVHHGM-----VGKFNDFTVDTQLKIVLPKG 320
>pdb|3O4O|A Chain A, Crystal Structure Of An Interleukin-1 Receptor Complex
pdb|4DEP|A Chain A, Structure Of The Il-1b Signaling Complex
pdb|4DEP|D Chain D, Structure Of The Il-1b Signaling Complex
Length = 158
Score = 26.2 bits (56), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 50 DKLIIKLHRRTDNEIKNCWNTHIKRKLLNHGLDPQTHHPLNQIHNHNIFNKYTINNNEEI 109
DK+ + L + N +C K L +DP+ ++P ++ +FNK INN E
Sbjct: 59 DKIPVALGLKEKNLYLSCVLKDDKPTLQLESVDPK-NYPKKKMEKRFVFNKIEINNKLEF 117
>pdb|3VDI|A Chain A, Structure Of The Fmo Protein From Pelodictyon Phaeum
Length = 367
Score = 26.2 bits (56), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 21/41 (51%), Gaps = 5/41 (12%)
Query: 74 RKLLNHGLDPQTHHPLNQIHNHNIFNKYTINNNEEINQPKN 114
R++LNH L P HH + FN +T++ ++ PK
Sbjct: 286 RRILNHPLIPLVHHGM-----VGKFNDFTVDTQLKVVLPKG 321
>pdb|4G6J|A Chain A, Crystal Structure Of Human Il-1beta In Complex With The
Therapeutic Antibody Binding Fragment Of Canakinumab
Length = 158
Score = 26.2 bits (56), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 50 DKLIIKLHRRTDNEIKNCWNTHIKRKLLNHGLDPQTHHPLNQIHNHNIFNKYTINNNEEI 109
DK+ + L + N +C K L +DP+ ++P ++ +FNK INN E
Sbjct: 55 DKIPVALGLKEKNLYLSCVLKDDKPTLQLESVDPK-NYPKKKMEKRFVFNKIEINNKLEF 113
>pdb|1MBG|A Chain A, Mouse C-Myb Dna-Binding Domain Repeat 2
pdb|1MBH|A Chain A, Mouse C-Myb Dna-Binding Domain Repeat 2
Length = 53
Score = 25.8 bits (55), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 23 RCGKSCRSRWINYLHP 38
R GK CR RW N+L+P
Sbjct: 36 RIGKQCRERWHNHLNP 51
>pdb|1TWM|A Chain A, Interleukin-1 Beta Mutant F146y
Length = 153
Score = 25.8 bits (55), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 50 DKLIIKLHRRTDNEIKNCWNTHIKRKLLNHGLDPQTHHPLNQIHNHNIFNKYTINNNEEI 109
DK+ + L + N +C K L +DP+ ++P ++ +FNK INN E
Sbjct: 54 DKIPVALGLKEKNLYLSCVLKDDKPTLQLESVDPK-NYPKKKMEKRFVFNKIEINNKLEF 112
>pdb|1HIB|A Chain A, The Structure Of An Interleukin-1 Beta Mutant With Reduced
Bioactivity Shows Multiple Subtle Changes In
Conformation That Affect Protein- Protein Recognition
Length = 153
Score = 25.8 bits (55), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 50 DKLIIKLHRRTDNEIKNCWNTHIKRKLLNHGLDPQTHHPLNQIHNHNIFNKYTINNNEEI 109
DK+ + L + N +C K L +DP+ ++P ++ +FNK INN E
Sbjct: 54 DKIPVALGLKEKNLYLSCVLKDDKPTLQLESVDPK-NYPKKKMEKRFVFNKIEINNKLEF 112
>pdb|1L2H|A Chain A, Crystal Structure Of Interleukin 1-Beta F42wW120F MUTANT
Length = 153
Score = 25.8 bits (55), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 50 DKLIIKLHRRTDNEIKNCWNTHIKRKLLNHGLDPQTHHPLNQIHNHNIFNKYTINNNEEI 109
DK+ + L + N +C K L +DP+ ++P ++ +FNK INN E
Sbjct: 54 DKIPVALGLKEKNLYLSCVLKDDKPTLQLESVDPK-NYPKKKMEKRFVFNKIEINNKLEF 112
>pdb|1ITB|A Chain A, Type-1 Interleukin-1 Receptor Complexed With Interleukin-1
Beta
pdb|9ILB|A Chain A, Human Interleukin-1 Beta
pdb|2NVH|A Chain A, Determination Of Solvent Content In Cavities In
Interleukin- 1 Using Experimentally-Phased Electron
Density
pdb|1I1B|A Chain A, Crystal Structure Of Recombinant Human Interleukin-1beta
At 2.0 Angstroms Resolution
pdb|1IOB|A Chain A, Interleukin-1 Beta From Joint X-ray And Nmr Refinement
pdb|2I1B|A Chain A, Crystallographic Refinement Of Interleukin-1 Beta At 2.0
Angstroms Resolution
pdb|4I1B|A Chain A, Functional Implications Of Interleukin-1beta Based On The
Three-Dimensional Structure
pdb|5I1B|A Chain A, A Comparison Of The High Resolution Structures Of Human
And Murine Interleukin-1b
pdb|6I1B|A Chain A, High-Resolution Three-Dimensional Structure Of
Interleukin- 1 Beta In Solution By Three-And
Four-Dimensional Nuclear Magnetic Resonance Spectroscopy
pdb|7I1B|A Chain A, High-Resolution Three-Dimensional Structure Of
Interleukin- 1 Beta In Solution By Three-And
Four-Dimensional Nuclear Magnetic Resonance Spectroscopy
pdb|2KH2|A Chain A, Solution Structure Of A Scfv-Il-1b Complex
Length = 153
Score = 25.8 bits (55), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 50 DKLIIKLHRRTDNEIKNCWNTHIKRKLLNHGLDPQTHHPLNQIHNHNIFNKYTINNNEEI 109
DK+ + L + N +C K L +DP+ ++P ++ +FNK INN E
Sbjct: 54 DKIPVALGLKEKNLYLSCVLKDDKPTLQLESVDPK-NYPKKKMEKRFVFNKIEINNKLEF 112
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 25.8 bits (55), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 23 RCGKSCRSRWINYLHP 38
R GK CR RW N+L+P
Sbjct: 36 RIGKQCRERWHNHLNP 51
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 25.8 bits (55), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 23 RCGKSCRSRWINYLHP 38
R GK CR RW N+L+P
Sbjct: 36 RIGKQCRERWHNHLNP 51
>pdb|4G6M|A Chain A, Crystal Strucure Of Human Il-1beta In Complex With
Therapeutic Antibody Binding Fragment Of Gevokizumab
Length = 150
Score = 25.8 bits (55), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 50 DKLIIKLHRRTDNEIKNCWNTHIKRKLLNHGLDPQTHHPLNQIHNHNIFNKYTINNNEEI 109
DK+ + L + N +C K L +DP+ ++P ++ +FNK INN E
Sbjct: 53 DKIPVALGLKEKNLYLSCVLKDDKPTLQLESVDPK-NYPKKKMEKRFVFNKIEINNKLEF 111
>pdb|1TOO|A Chain A, Interleukin 1b Mutant F146w
Length = 153
Score = 25.8 bits (55), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 50 DKLIIKLHRRTDNEIKNCWNTHIKRKLLNHGLDPQTHHPLNQIHNHNIFNKYTINNNEEI 109
DK+ + L + N +C K L +DP+ ++P ++ +FNK INN E
Sbjct: 54 DKIPVALGLKEKNLYLSCVLKDDKPTLQLESVDPK-NYPKKKMEKRFVFNKIEINNKLEF 112
>pdb|1S0L|A Chain A, Interleukin 1 Beta Mutant F42w
Length = 153
Score = 25.8 bits (55), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 50 DKLIIKLHRRTDNEIKNCWNTHIKRKLLNHGLDPQTHHPLNQIHNHNIFNKYTINNNEEI 109
DK+ + L + N +C K L +DP+ ++P ++ +FNK INN E
Sbjct: 54 DKIPVALGLKEKNLYLSCVLKDDKPTLQLESVDPK-NYPKKKMEKRFVFNKIEINNKLEF 112
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
0.318 0.136 0.435
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,465,684
Number of Sequences: 62578
Number of extensions: 172215
Number of successful extensions: 348
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 319
Number of HSP's gapped (non-prelim): 38
length of query: 148
length of database: 14,973,337
effective HSP length: 90
effective length of query: 58
effective length of database: 9,341,317
effective search space: 541796386
effective search space used: 541796386
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 47 (22.7 bits)