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= 045434
(316 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 = 110 bits (275), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 50/106 (47%), Positives = 75/106 (70%), Gaps = 3/106 (2%)
Query: 12 LKKGPWTSDEDQKLVKYIQKHGHGSWRALPK-LAGLNRCGKSCRLRWTNYLRPDIKRGKF 70
L KGPWT +EDQK+++ ++K+G W + K L G R GK CR RW N+L P++K+ +
Sbjct: 5 LVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKG--RLGKQCRERWHNHLNPEVKKSSW 62
Query: 71 SQEEEQTILNLHSILGNKWSAIAGHLPGRTDNEIKNFWNTHLKKKL 116
++EE++ I H +LGN+W+ IA LPGRTDN +KN WN+ +K+K+
Sbjct: 63 TEEEDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNSTIKRKV 108
>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 = 108 bits (271), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 51/106 (48%), Positives = 74/106 (69%), Gaps = 3/106 (2%)
Query: 12 LKKGPWTSDEDQKLVKYIQKHGHGSWRALPK-LAGLNRCGKSCRLRWTNYLRPDIKRGKF 70
L KGPWT +EDQ+++K +QK+G W + K L G R GK CR RW N+L P++K+ +
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPEVKKTSW 59
Query: 71 SQEEEQTILNLHSILGNKWSAIAGHLPGRTDNEIKNFWNTHLKKKL 116
++EE++ I H LGN+W+ IA LPGRTDN IKN WN+ +++K+
Sbjct: 60 TEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 108 bits (271), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 51/106 (48%), Positives = 74/106 (69%), Gaps = 3/106 (2%)
Query: 12 LKKGPWTSDEDQKLVKYIQKHGHGSWRALPK-LAGLNRCGKSCRLRWTNYLRPDIKRGKF 70
L KGPWT +EDQ+++K +QK+G W + K L G R GK CR RW N+L P++K+ +
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPEVKKTSW 59
Query: 71 SQEEEQTILNLHSILGNKWSAIAGHLPGRTDNEIKNFWNTHLKKKL 116
++EE++ I H LGN+W+ IA LPGRTDN IKN WN+ +++K+
Sbjct: 60 TEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 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 = 108 bits (271), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 51/106 (48%), Positives = 74/106 (69%), Gaps = 3/106 (2%)
Query: 12 LKKGPWTSDEDQKLVKYIQKHGHGSWRALPK-LAGLNRCGKSCRLRWTNYLRPDIKRGKF 70
L KGPWT +EDQ+++K +QK+G W + K L G R GK CR RW N+L P++K+ +
Sbjct: 56 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPEVKKTSW 113
Query: 71 SQEEEQTILNLHSILGNKWSAIAGHLPGRTDNEIKNFWNTHLKKKL 116
++EE++ I H LGN+W+ IA LPGRTDN IKN WN+ +++K+
Sbjct: 114 TEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 159
Score = 68.2 bits (165), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 35/102 (34%), Positives = 57/102 (55%), Gaps = 2/102 (1%)
Query: 12 LKKGPWTSDEDQKLVKYIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYLRPDIKRGKFS 71
L K WT +ED+KL K ++++G W+ + NR C+ RW L P++ +G ++
Sbjct: 4 LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLP-NRTDVQCQHRWQKVLNPELIKGPWT 62
Query: 72 QEEEQTILNLHSILG-NKWSAIAGHLPGRTDNEIKNFWNTHL 112
+EE+Q ++ L G +WS IA HL GR + + W+ HL
Sbjct: 63 KEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 104
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 30/51 (58%), Gaps = 1/51 (1%)
Query: 69 KFSQEEEQTILNLHSILG-NKWSAIAGHLPGRTDNEIKNFWNTHLKKKLIQ 118
++++EE++ + L G + W IA +LP RTD + ++ W L +LI+
Sbjct: 8 RWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLNPELIK 58
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 108 bits (270), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 49/106 (46%), Positives = 75/106 (70%), Gaps = 3/106 (2%)
Query: 12 LKKGPWTSDEDQKLVKYIQKHGHGSWRALPK-LAGLNRCGKSCRLRWTNYLRPDIKRGKF 70
L KGPWT +EDQ++++++QK+G W + K L G R GK CR RW N+L P++K+ +
Sbjct: 25 LNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKG--RIGKQCRERWHNHLNPEVKKTSW 82
Query: 71 SQEEEQTILNLHSILGNKWSAIAGHLPGRTDNEIKNFWNTHLKKKL 116
++EE++ I H LGN+W+ IA LPGRTDN +KN WN+ +++K+
Sbjct: 83 TEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNSTMRRKV 128
>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 = 87.4 bits (215), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 43/105 (40%), Positives = 67/105 (63%), Gaps = 5/105 (4%)
Query: 14 KGPWTSDEDQKLVKYIQKHGHGSWRALPKLAGL--NRCGKSCRLRWTNYLRPDIKRGKFS 71
KGP+T ED + +Y++++G +W P++ NR K CR RW N+L P + + ++
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQNW---PRITSFLPNRSPKQCRERWFNHLDPAVVKHAWT 58
Query: 72 QEEEQTILNLHSILGNKWSAIAGHLPGRTDNEIKNFWNTHLKKKL 116
EE++TI + LG+KWS IA +PGRTDN IKN WN+ + K++
Sbjct: 59 PEEDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRWNSSISKRI 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 = 66.6 bits (161), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 36/98 (36%), Positives = 52/98 (53%), Gaps = 2/98 (2%)
Query: 13 KKGPWTSDEDQKLVKYIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYLRPDIKRGKFSQ 72
KK +T +ED+ L + + +HG W+ + NR + CR RW NYL P I ++
Sbjct: 10 KKQKFTPEEDEMLKRAVAQHG-SDWKMIAATFP-NRNARQCRDRWKNYLAPSISHTPWTA 67
Query: 73 EEEQTILNLHSILGNKWSAIAGHLPGRTDNEIKNFWNT 110
EE+ ++ G +W+ IA PGRTD IKN W T
Sbjct: 68 EEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVT 105
Score = 30.8 bits (68), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 24/47 (51%)
Query: 66 KRGKFSQEEEQTILNLHSILGNKWSAIAGHLPGRTDNEIKNFWNTHL 112
K+ KF+ EE++ + + G+ W IA P R + ++ W +L
Sbjct: 10 KKQKFTPEEDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRWKNYL 56
>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 = 61.6 bits (148), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 31/95 (32%), Positives = 53/95 (55%), Gaps = 1/95 (1%)
Query: 14 KGPWTSDEDQKLVKYIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYLRPDIKRGKFSQE 73
K +T +ED KL + + ++G W + +L + R + CR RW NY+ P ++ +S E
Sbjct: 1 KVKFTEEEDLKLQQLVMRYGAKDWIRISQLM-ITRNPRQCRERWNNYINPALRTDPWSPE 59
Query: 74 EEQTILNLHSILGNKWSAIAGHLPGRTDNEIKNFW 108
E+ + ++ G KW+ I+ L R+DN I+N W
Sbjct: 60 EDMLLDQKYAEYGPKWNKISKFLKNRSDNNIRNRW 94
>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 = 58.5 bits (140), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 23/53 (43%), Positives = 39/53 (73%)
Query: 64 DIKRGKFSQEEEQTILNLHSILGNKWSAIAGHLPGRTDNEIKNFWNTHLKKKL 116
++K+ +++EE++ + H LGN+W+ IA LPGRTDN IKN WN+ +++K+
Sbjct: 2 EVKKTSWTEEEDRILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 54
>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 = 57.4 bits (137), Expect = 1e-08, Method: Composition-based stats.
Identities = 24/52 (46%), Positives = 38/52 (73%)
Query: 65 IKRGKFSQEEEQTILNLHSILGNKWSAIAGHLPGRTDNEIKNFWNTHLKKKL 116
+K+ +++EE++ I H LGN+W+ IA LPGRTDN IKN WN+ +++K+
Sbjct: 1 VKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 52
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 28/54 (51%), Positives = 36/54 (66%), Gaps = 3/54 (5%)
Query: 12 LKKGPWTSDEDQKLVKYIQKHGHGSWRALPK-LAGLNRCGKSCRLRWTNYLRPD 64
L KGPWT +EDQ+L+K +QK+G W + K L G R GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPE 52
Score = 37.4 bits (85), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 28/47 (59%), Gaps = 1/47 (2%)
Query: 67 RGKFSQEEEQTILNLHSILG-NKWSAIAGHLPGRTDNEIKNFWNTHL 112
+G +++EE+Q ++ L G +WS IA HL GR + + W+ HL
Sbjct: 3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 55.5 bits (132), Expect = 4e-08, Method: Composition-based stats.
Identities = 27/54 (50%), Positives = 36/54 (66%), Gaps = 3/54 (5%)
Query: 12 LKKGPWTSDEDQKLVKYIQKHGHGSWRALPK-LAGLNRCGKSCRLRWTNYLRPD 64
L KGPWT +EDQ+++K +QK+G W + K L G R GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPE 52
Score = 37.0 bits (84), Expect = 0.015, Method: Composition-based stats.
Identities = 18/47 (38%), Positives = 28/47 (59%), Gaps = 1/47 (2%)
Query: 67 RGKFSQEEEQTILNLHSILGNK-WSAIAGHLPGRTDNEIKNFWNTHL 112
+G +++EE+Q ++ L G K WS IA HL GR + + W+ HL
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>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 = 53.9 bits (128), Expect = 1e-07, Method: Composition-based stats.
Identities = 26/54 (48%), Positives = 36/54 (66%), Gaps = 3/54 (5%)
Query: 12 LKKGPWTSDEDQKLVKYIQKHGHGSWRALPK-LAGLNRCGKSCRLRWTNYLRPD 64
L KGPWT +EDQ++++ +QK+G W + K L G R GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKG--RIGKQCRERWHNHLNPE 52
Score = 37.0 bits (84), Expect = 0.016, Method: Composition-based stats.
Identities = 18/47 (38%), Positives = 28/47 (59%), Gaps = 1/47 (2%)
Query: 67 RGKFSQEEEQTILNLHSILGNK-WSAIAGHLPGRTDNEIKNFWNTHL 112
+G +++EE+Q ++ L G K WS IA HL GR + + W+ HL
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|1MBE|A Chain A, Mouse C-Myb Dna-Binding Domain Repeat 1
pdb|1MBF|A Chain A, Mouse C-Myb Dna-Binding Domain Repeat 1
Length = 53
Score = 37.0 bits (84), Expect = 0.013, Method: Composition-based stats.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 12 LKKGPWTSDEDQKLVKYIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYLRPD 64
L K WT +ED+KL K ++++G W+ + NR C+ RW L P+
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLP-NRTDVQCQHRWQKVLNPE 52
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 37.0 bits (84), Expect = 0.013, Method: Composition-based stats.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 1/53 (1%)
Query: 12 LKKGPWTSDEDQKLVKYIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYLRPD 64
L K WT +ED+KL K ++++G W+ + NR C+ RW L P+
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLP-NRTDVQCQHRWQKVLNPE 52
>pdb|2DIM|A Chain A, Solution Structure Of The Myb_dna-Binding Domain Of
Human Cell Division Cycle 5-Like Protein
Length = 70
Score = 35.0 bits (79), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 28/55 (50%), Gaps = 1/55 (1%)
Query: 17 WTSDEDQKLVKYIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYLRPDIKRGKFS 71
W + ED+ L + K+G W + L + K C+ RW +L P IK+ ++S
Sbjct: 12 WRNTEDEILKAAVMKYGKNQWSRIASLLH-RKSAKQCKARWYEWLDPSIKKTEWS 65
>pdb|1VF9|A Chain A, Solution Structure Of Human Trf2
Length = 64
Score = 31.2 bits (69), Expect = 0.81, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 13 KKGPWTSDEDQKLVKYIQKHGHGSWRALPK-LAGLNRCGKSCRLRWTNYLR 62
KK WT +E + + +QK+G G+W A+ K +NR + RW R
Sbjct: 10 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKR 60
>pdb|1W0U|A Chain A, Htrf2 Dna-Binding Domain In Complex With Telomeric Dna.
pdb|1W0U|B Chain B, Htrf2 Dna-Binding Domain In Complex With Telomeric Dna
Length = 55
Score = 31.2 bits (69), Expect = 0.81, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 13 KKGPWTSDEDQKLVKYIQKHGHGSWRALPK-LAGLNRCGKSCRLRWTNYLR 62
KK WT +E + + +QK+G G+W A+ K +NR + RW R
Sbjct: 1 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKR 51
>pdb|3SJM|A Chain A, Crystal Structure Analysis Of Trf2-Dbd-Dna Complex
pdb|3SJM|B Chain B, Crystal Structure Analysis Of Trf2-Dbd-Dna Complex
Length = 64
Score = 31.2 bits (69), Expect = 0.82, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 13 KKGPWTSDEDQKLVKYIQKHGHGSWRALPK-LAGLNRCGKSCRLRWTNYLR 62
KK WT +E + + +QK+G G+W A+ K +NR + RW R
Sbjct: 10 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKR 60
>pdb|1VFC|A Chain A, Solution Structure Of The Dna Complex Of Human Trf2
Length = 63
Score = 31.2 bits (69), Expect = 0.85, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 13 KKGPWTSDEDQKLVKYIQKHGHGSWRALPK-LAGLNRCGKSCRLRWTNYLR 62
KK WT +E + + +QK+G G+W A+ K +NR + RW R
Sbjct: 9 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKR 59
>pdb|1XG1|A Chain A, Solution Structure Of Myb-Domain Of Human Trf2
Length = 67
Score = 30.8 bits (68), Expect = 0.91, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 13 KKGPWTSDEDQKLVKYIQKHGHGSWRALPK-LAGLNRCGKSCRLRWTNYLR 62
KK WT +E + + +QK+G G+W A+ K +NR + RW R
Sbjct: 13 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKR 63
>pdb|2XB0|X Chain X, Dna-Binding Domain From Saccharomyces Cerevisiae
Chromatin- Remodelling Protein Chd1
Length = 270
Score = 30.8 bits (68), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 17/21 (80%)
Query: 17 WTSDEDQKLVKYIQKHGHGSW 37
WT +ED+KL+ + K+G+GSW
Sbjct: 171 WTKEEDEKLLIGVFKYGYGSW 191
>pdb|3TED|A Chain A, Crystal Structure Of The Chd1 Dna-Binding Domain In
Complex With A Dna Duplex
Length = 271
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 17/21 (80%)
Query: 17 WTSDEDQKLVKYIQKHGHGSW 37
WT +ED+KL+ + K+G+GSW
Sbjct: 172 WTKEEDEKLLIGVFKYGYGSW 192
>pdb|2D9A|A Chain A, Solution Structure Of Rsgi Ruh-050, A Myb Dna-Binding
Domain In Mouse Cdna
Length = 60
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 14 KGPWTSDEDQKLVKYIQKHGHGSWRALPKLAGLNRCGKSCRLRWTNYL 61
K WT +ED++L +++ G W+ L NR + C+ RW L
Sbjct: 8 KVKWTHEEDEQLRALVRQFGQQDWKFLASHF-PNRTDQQCQYRWLRVL 54
Score = 28.9 bits (63), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 22/41 (53%), Gaps = 1/41 (2%)
Query: 69 KFSQEEEQTILNLHSILGNK-WSAIAGHLPGRTDNEIKNFW 108
K++ EE++ + L G + W +A H P RTD + + W
Sbjct: 10 KWTHEEDEQLRALVRQFGQQDWKFLASHFPNRTDQQCQYRW 50
>pdb|3AQB|B Chain B, M. Luteus B-P 26 Heterodimeric Hexaprenyl Diphosphate
Synthase In Complex With Magnesium
pdb|3AQB|D Chain D, M. Luteus B-P 26 Heterodimeric Hexaprenyl Diphosphate
Synthase In Complex With Magnesium
pdb|3AQC|B Chain B, M. Luteus B-P 26 Heterodimeric Hexaprenyl Diphosphate
Synthase In Complex With Magnesium And Fpp Analogue
pdb|3AQC|D Chain D, M. Luteus B-P 26 Heterodimeric Hexaprenyl Diphosphate
Synthase In Complex With Magnesium And Fpp Analogue
Length = 325
Score = 28.9 bits (63), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 39/89 (43%), Gaps = 6/89 (6%)
Query: 64 DIKRGKFSQEEEQTILNLHSILGNKWSAIAGHLPGRTDNEIKNFWNTHLKKKLIQMGFDP 123
DI+ G + I NL +K A+ HL +D+E+ + + +K Q G +P
Sbjct: 230 DIRNGHITYPLMAAIANLKEQDDDKLEAVVKHLTSTSDDEVYQYIVSQVK----QYGIEP 285
Query: 124 MTHRPRTDVFSSLPHLIAL--ANLKELME 150
R + HL L +N+K+ +E
Sbjct: 286 AELLSRKYGDKAKYHLSQLQDSNIKDYLE 314
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
0.317 0.132 0.419
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,220,287
Number of Sequences: 62578
Number of extensions: 337373
Number of successful extensions: 868
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 813
Number of HSP's gapped (non-prelim): 38
length of query: 316
length of database: 14,973,337
effective HSP length: 99
effective length of query: 217
effective length of database: 8,778,115
effective search space: 1904850955
effective search space used: 1904850955
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)