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= 024860
(261 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 = 109 bits (273), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 51/105 (48%), Positives = 72/105 (68%), Gaps = 1/105 (0%)
Query: 12 LKKGTWTPEEDRKLIAYVTKYGYWNWRQLPKYAGLARCGKSCRLRWMNYLRPNIKRGNYT 71
L KG WT EED+K+I V KYG W + K+ R GK CR RW N+L P +K+ ++T
Sbjct: 5 LVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLK-GRLGKQCRERWHNHLNPEVKKSSWT 63
Query: 72 KEEEDTIIRLHESLGNRWSAIAAQLPGRTDNEIKNHWHTSLKKRL 116
+EE+ I H+ LGNRW+ IA LPGRTDN +KNHW++++K+++
Sbjct: 64 EEEDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNSTIKRKV 108
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 35/61 (57%), Gaps = 1/61 (1%)
Query: 63 PNIKRGNYTKEEEDTIIRLHESLGNR-WSAIAAQLPGRTDNEIKNHWHTSLKKRLKRNSI 121
P++ +G +TKEE+ +I L + G + W+ IA L GR + + WH L +K++S
Sbjct: 3 PDLVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKGRLGKQCRERWHNHLNPEVKKSSW 62
Query: 122 T 122
T
Sbjct: 63 T 63
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 108 bits (269), Expect = 4e-24, Method: Compositional matrix adjust.
Identities = 49/105 (46%), Positives = 74/105 (70%), Gaps = 1/105 (0%)
Query: 12 LKKGTWTPEEDRKLIAYVTKYGYWNWRQLPKYAGLARCGKSCRLRWMNYLRPNIKRGNYT 71
L KG WT EED+++I +V KYG W + K+ R GK CR RW N+L P +K+ ++T
Sbjct: 25 LNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWT 83
Query: 72 KEEEDTIIRLHESLGNRWSAIAAQLPGRTDNEIKNHWHTSLKKRL 116
+EE+ I + H+ LGNRW+ IA LPGRTDN +KNHW++++++++
Sbjct: 84 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNSTMRRKV 128
Score = 50.8 bits (120), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 38/76 (50%), Gaps = 1/76 (1%)
Query: 48 RCGKSCRLRWMNYLRPNIKRGNYTKEEEDTIIRLHESLG-NRWSAIAAQLPGRTDNEIKN 106
R C+ RW L P + +G +TKEE+ +I + G RWS IA L GR + +
Sbjct: 8 RTDVQCQHRWQKVLNPELNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKGRIGKQCRE 67
Query: 107 HWHTSLKKRLKRNSIT 122
WH L +K+ S T
Sbjct: 68 RWHNHLNPEVKKTSWT 83
>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 = 105 bits (263), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 50/105 (47%), Positives = 73/105 (69%), Gaps = 1/105 (0%)
Query: 12 LKKGTWTPEEDRKLIAYVTKYGYWNWRQLPKYAGLARCGKSCRLRWMNYLRPNIKRGNYT 71
L KG WT EED+++I V KYG W + K+ R GK CR RW N+L P +K+ ++T
Sbjct: 56 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWT 114
Query: 72 KEEEDTIIRLHESLGNRWSAIAAQLPGRTDNEIKNHWHTSLKKRL 116
+EE+ I + H+ LGNRW+ IA LPGRTDN IKNHW++++++++
Sbjct: 115 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 159
Score = 67.8 bits (164), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 41/112 (36%), Positives = 57/112 (50%), Gaps = 2/112 (1%)
Query: 12 LKKGTWTPEEDRKLIAYVTKYGYWNWRQLPKYAGLARCGKSCRLRWMNYLRPNIKRGNYT 71
L K WT EED KL V + G +W+ + Y R C+ RW L P + +G +T
Sbjct: 4 LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLP-NRTDVQCQHRWQKVLNPELIKGPWT 62
Query: 72 KEEEDTIIRLHESLG-NRWSAIAAQLPGRTDNEIKNHWHTSLKKRLKRNSIT 122
KEE+ +I+L + G RWS IA L GR + + WH L +K+ S T
Sbjct: 63 KEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWT 114
>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 = 105 bits (263), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 50/105 (47%), Positives = 73/105 (69%), Gaps = 1/105 (0%)
Query: 12 LKKGTWTPEEDRKLIAYVTKYGYWNWRQLPKYAGLARCGKSCRLRWMNYLRPNIKRGNYT 71
L KG WT EED+++I V KYG W + K+ R GK CR RW N+L P +K+ ++T
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWT 60
Query: 72 KEEEDTIIRLHESLGNRWSAIAAQLPGRTDNEIKNHWHTSLKKRL 116
+EE+ I + H+ LGNRW+ IA LPGRTDN IKNHW++++++++
Sbjct: 61 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 30/93 (32%), Positives = 40/93 (43%), Gaps = 18/93 (19%)
Query: 67 RGNYTKEEEDTIIRLHESLG-NRWSAIAAQLPGRTDNEIKNHWHTSLKKRLKRNSITNTN 125
+G +TKEE+ +I+L + G RWS IA L GR + + WH L +K+ S T
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWTEEE 63
Query: 126 G-----------------AKDTPKRKDPEIYNH 141
AK P R D I NH
Sbjct: 64 DRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNH 96
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 105 bits (263), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 50/105 (47%), Positives = 73/105 (69%), Gaps = 1/105 (0%)
Query: 12 LKKGTWTPEEDRKLIAYVTKYGYWNWRQLPKYAGLARCGKSCRLRWMNYLRPNIKRGNYT 71
L KG WT EED+++I V KYG W + K+ R GK CR RW N+L P +K+ ++T
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPEVKKTSWT 60
Query: 72 KEEEDTIIRLHESLGNRWSAIAAQLPGRTDNEIKNHWHTSLKKRL 116
+EE+ I + H+ LGNRW+ IA LPGRTDN IKNHW++++++++
Sbjct: 61 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 105
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 32/57 (56%), Gaps = 1/57 (1%)
Query: 67 RGNYTKEEEDTIIRLHESLG-NRWSAIAAQLPGRTDNEIKNHWHTSLKKRLKRNSIT 122
+G +TKEE+ +I+L + G RWS IA L GR + + WH L +K+ S T
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLNPEVKKTSWT 60
>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 = 87.8 bits (216), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 46/107 (42%), Positives = 66/107 (61%), Gaps = 1/107 (0%)
Query: 14 KGTWTPEEDRKLIAYVTKYGYWNWRQLPKYAGLARCGKSCRLRWMNYLRPNIKRGNYTKE 73
KG +T ED + YV + G NW ++ + R K CR RW N+L P + + +T E
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQNWPRITSFLP-NRSPKQCRERWFNHLDPAVVKHAWTPE 60
Query: 74 EEDTIIRLHESLGNRWSAIAAQLPGRTDNEIKNHWHTSLKKRLKRNS 120
E++TI R + LG++WS IA +PGRTDN IKN W++S+ KR+ NS
Sbjct: 61 EDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRWNSSISKRISTNS 107
>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 = 68.2 bits (165), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 38/100 (38%), Positives = 54/100 (54%), Gaps = 2/100 (2%)
Query: 11 GLKKGTWTPEEDRKLIAYVTKYGYWNWRQLPKYAGLARCGKSCRLRWMNYLRPNIKRGNY 70
KK +TPEED L V ++G +W+ + R + CR RW NYL P+I +
Sbjct: 8 AAKKQKFTPEEDEMLKRAVAQHGS-DWKMIAATFP-NRNARQCRDRWKNYLAPSISHTPW 65
Query: 71 TKEEEDTIIRLHESLGNRWSAIAAQLPGRTDNEIKNHWHT 110
T EE+ +++ + G +W+ IA PGRTD IKN W T
Sbjct: 66 TAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVT 105
>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 = 62.4 bits (150), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 25/52 (48%), Positives = 42/52 (80%)
Query: 65 IKRGNYTKEEEDTIIRLHESLGNRWSAIAAQLPGRTDNEIKNHWHTSLKKRL 116
+K+ ++T+EE+ I + H+ LGNRW+ IA LPGRTDN IKNHW++++++++
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 = 61.6 bits (148), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 24/52 (46%), Positives = 42/52 (80%)
Query: 65 IKRGNYTKEEEDTIIRLHESLGNRWSAIAAQLPGRTDNEIKNHWHTSLKKRL 116
+K+ ++T+EE+ + + H+ LGNRW+ IA LPGRTDN IKNHW++++++++
Sbjct: 3 VKKTSWTEEEDRILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRKV 54
>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 = 58.5 bits (140), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 33/104 (31%), Positives = 56/104 (53%), Gaps = 1/104 (0%)
Query: 14 KGTWTPEEDRKLIAYVTKYGYWNWRQLPKYAGLARCGKSCRLRWMNYLRPNIKRGNYTKE 73
K +T EED KL V +YG +W ++ + + R + CR RW NY+ P ++ ++ E
Sbjct: 1 KVKFTEEEDLKLQQLVMRYGAKDWIRISQLM-ITRNPRQCRERWNNYINPALRTDPWSPE 59
Query: 74 EEDTIIRLHESLGNRWSAIAAQLPGRTDNEIKNHWHTSLKKRLK 117
E+ + + + G +W+ I+ L R+DN I+N W + R K
Sbjct: 60 EDMLLDQKYAEYGPKWNKISKFLKNRSDNNIRNRWMMIARHRAK 103
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 50.4 bits (119), Expect = 9e-07, Method: Composition-based stats.
Identities = 26/52 (50%), Positives = 31/52 (59%), Gaps = 1/52 (1%)
Query: 12 LKKGTWTPEEDRKLIAYVTKYGYWNWRQLPKYAGLARCGKSCRLRWMNYLRP 63
L KG WT EED++LI V KYG W + K+ R GK CR RW N+L P
Sbjct: 1 LIKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNP 51
Score = 39.3 bits (90), Expect = 0.002, Method: Composition-based stats.
Identities = 19/47 (40%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 67 RGNYTKEEEDTIIRLHESLG-NRWSAIAAQLPGRTDNEIKNHWHTSL 112
+G +TKEE+ +I+L + G RWS IA L GR + + WH L
Sbjct: 3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 49.3 bits (116), Expect = 2e-06, Method: Composition-based stats.
Identities = 25/52 (48%), Positives = 31/52 (59%), Gaps = 1/52 (1%)
Query: 12 LKKGTWTPEEDRKLIAYVTKYGYWNWRQLPKYAGLARCGKSCRLRWMNYLRP 63
L KG WT EED+++I V KYG W + K+ R GK CR RW N+L P
Sbjct: 1 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNP 51
Score = 39.7 bits (91), Expect = 0.001, Method: Composition-based stats.
Identities = 19/47 (40%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 67 RGNYTKEEEDTIIRLHESLG-NRWSAIAAQLPGRTDNEIKNHWHTSL 112
+G +TKEE+ +I+L + G RWS IA L GR + + WH L
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 = 49.3 bits (116), Expect = 2e-06, Method: Composition-based stats.
Identities = 25/52 (48%), Positives = 31/52 (59%), Gaps = 1/52 (1%)
Query: 12 LKKGTWTPEEDRKLIAYVTKYGYWNWRQLPKYAGLARCGKSCRLRWMNYLRP 63
L KG WT EED+++I V KYG W + K+ R GK CR RW N+L P
Sbjct: 1 LIKGPWTKEEDQRVIELVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNP 51
Score = 38.9 bits (89), Expect = 0.003, Method: Composition-based stats.
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 67 RGNYTKEEEDTIIRLHESLG-NRWSAIAAQLPGRTDNEIKNHWHTSL 112
+G +TKEE+ +I L + G RWS IA L GR + + WH L
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHL 49
>pdb|2XB0|X Chain X, Dna-Binding Domain From Saccharomyces Cerevisiae
Chromatin- Remodelling Protein Chd1
Length = 270
Score = 35.0 bits (79), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 14/24 (58%), Positives = 17/24 (70%)
Query: 17 WTPEEDRKLIAYVTKYGYWNWRQL 40
WT EED KL+ V KYGY +W Q+
Sbjct: 171 WTKEEDEKLLIGVFKYGYGSWTQI 194
>pdb|3TED|A Chain A, Crystal Structure Of The Chd1 Dna-Binding Domain In
Complex With A Dna Duplex
Length = 271
Score = 35.0 bits (79), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 14/24 (58%), Positives = 17/24 (70%)
Query: 17 WTPEEDRKLIAYVTKYGYWNWRQL 40
WT EED KL+ V KYGY +W Q+
Sbjct: 172 WTKEEDEKLLIGVFKYGYGSWTQI 195
>pdb|2D9A|A Chain A, Solution Structure Of Rsgi Ruh-050, A Myb Dna-Binding
Domain In Mouse Cdna
Length = 60
Score = 33.5 bits (75), Expect = 0.12, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 1/48 (2%)
Query: 14 KGTWTPEEDRKLIAYVTKYGYWNWRQLPKYAGLARCGKSCRLRWMNYL 61
K WT EED +L A V ++G +W+ L + R + C+ RW+ L
Sbjct: 8 KVKWTHEEDEQLRALVRQFGQQDWKFLASHFP-NRTDQQCQYRWLRVL 54
Score = 27.7 bits (60), Expect = 6.0, Method: Composition-based stats.
Identities = 12/40 (30%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 70 YTKEEEDTIIRLHESLGNR-WSAIAAQLPGRTDNEIKNHW 108
+T EE++ + L G + W +A+ P RTD + + W
Sbjct: 11 WTHEEDEQLRALVRQFGQQDWKFLASHFPNRTDQQCQYRW 50
>pdb|2DIM|A Chain A, Solution Structure Of The Myb_dna-Binding Domain Of
Human Cell Division Cycle 5-Like Protein
Length = 70
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 16 TWTPEEDRKLIAYVTKYGYWNWRQLPKYAGLA--RCGKSCRLRWMNYLRPNIKRGNYT 71
W ED L A V KYG Q + A L + K C+ RW +L P+IK+ ++
Sbjct: 11 VWRNTEDEILKAAVMKYGK---NQWSRIASLLHRKSAKQCKARWYEWLDPSIKKTEWS 65
>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 = 32.0 bits (71), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 70 YTKEEEDTIIRLHESLG-NRWSAIAAQLPGRTDNEIKNHWHTSL 112
+T+EE++ + +L E G + W IA LP RTD + ++ W L
Sbjct: 6 WTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVL 49
Score = 31.2 bits (69), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 24/52 (46%), Gaps = 1/52 (1%)
Query: 12 LKKGTWTPEEDRKLIAYVTKYGYWNWRQLPKYAGLARCGKSCRLRWMNYLRP 63
L K WT EED KL V + G +W+ + Y R C+ RW L P
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLP-NRTDVQCQHRWQKVLNP 51
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 32.0 bits (71), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 70 YTKEEEDTIIRLHESLG-NRWSAIAAQLPGRTDNEIKNHWHTSL 112
+T+EE++ + +L E G + W IA LP RTD + ++ W L
Sbjct: 6 WTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVL 49
Score = 31.2 bits (69), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 24/52 (46%), Gaps = 1/52 (1%)
Query: 12 LKKGTWTPEEDRKLIAYVTKYGYWNWRQLPKYAGLARCGKSCRLRWMNYLRP 63
L K WT EED KL V + G +W+ + Y R C+ RW L P
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLP-NRTDVQCQHRWQKVLNP 51
>pdb|2WDA|A Chain A, The X-Ray Structure Of The Streptomyces Coelicolor A3
Chondroitin Ac Lyase In Complex With Chondroitin
Sulphate
pdb|2WCO|A Chain A, Structures Of The Streptomyces Coelicolor A3(2) Hyaluronan
Lyase In Complex With Oligosaccharide Substrates And An
Inhibitor
Length = 765
Score = 31.6 bits (70), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 22/91 (24%), Positives = 35/91 (38%), Gaps = 15/91 (16%)
Query: 65 IKRGNYTKEEEDTIIRLHESLGNRWSAIAAQLPGRTDNEIKNHWHTSLKKRLKRNSI--- 121
I RG Y K ++ ++R G + A A L G N + WH +K ++R+++
Sbjct: 309 ISRG-YLKSDDLHVMRSDHFHGQQLIAAMAVLAGGASNAERERWHARIKGWIERDTVTPV 367
Query: 122 -----------TNTNGAKDTPKRKDPEIYNH 141
T + D P PE H
Sbjct: 368 LTAPQFPVADLTRLHAIADAPGEAAPEPVGH 398
>pdb|2X03|A Chain A, The X-Ray Structure Of The Streptomyces Coelicolor A3
Chondroitin Ac Lyase Y253 Mutant
pdb|2X03|B Chain B, The X-Ray Structure Of The Streptomyces Coelicolor A3
Chondroitin Ac Lyase Y253 Mutant
Length = 765
Score = 31.6 bits (70), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 22/91 (24%), Positives = 35/91 (38%), Gaps = 15/91 (16%)
Query: 65 IKRGNYTKEEEDTIIRLHESLGNRWSAIAAQLPGRTDNEIKNHWHTSLKKRLKRNSI--- 121
I RG Y K ++ ++R G + A A L G N + WH +K ++R+++
Sbjct: 309 ISRG-YLKSDDLHVMRSDHFHGQQLIAAMAVLAGGASNAERERWHARIKGWIERDTVTPV 367
Query: 122 -----------TNTNGAKDTPKRKDPEIYNH 141
T + D P PE H
Sbjct: 368 LTAPQFPVADLTRLHAIADAPGEAAPEPVGH 398
>pdb|2DIN|A Chain A, Solution Structure Of The Myb_dna-Binding Domain Of Human
Cell Division Cycle 5-Like Protein
Length = 66
Score = 30.8 bits (68), Expect = 0.69, Method: Composition-based stats.
Identities = 16/55 (29%), Positives = 31/55 (56%), Gaps = 1/55 (1%)
Query: 66 KRGNYTKEEEDTIIRLHESLGNRWSAIAAQLPGRTDNEIKNHWHTSLKKRLKRNS 120
K+ +++EEE+ ++ L + + +W IA + GRT + H+ L K +R+S
Sbjct: 8 KKTEWSREEEEKLLHLAKLMPTQWRTIAP-IIGRTAAQCLEHYEFLLDKAAQRDS 61
>pdb|2ELK|A Chain A, Solution Structure Of The Sant Domain Of Fission Yeast
Spcc24b10.08c Protein
Length = 58
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 19/42 (45%)
Query: 17 WTPEEDRKLIAYVTKYGYWNWRQLPKYAGLARCGKSCRLRWM 58
W +E+ LI G NW + Y G AR + CR ++
Sbjct: 12 WGADEELLLIDACETLGLGNWADIADYVGNARTKEECRDHYL 53
>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 = 28.5 bits (62), Expect = 4.4, Method: Composition-based stats.
Identities = 19/51 (37%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 13 KKGTWTPEEDRKLIAYVTKYGYWNWRQLPK-YAGLARCGKSCRLRWMNYLR 62
KK WT EE + A V KYG NW + K Y + R + RW R
Sbjct: 1 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKR 51
>pdb|1XG1|A Chain A, Solution Structure Of Myb-Domain Of Human Trf2
Length = 67
Score = 28.1 bits (61), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 13 KKGTWTPEEDRKLIAYVTKYGYWNWRQLPK-YAGLARCGKSCRLRWMNYLR 62
KK WT EE + A V KYG NW + K Y + R + RW R
Sbjct: 13 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKR 63
>pdb|1VFC|A Chain A, Solution Structure Of The Dna Complex Of Human Trf2
Length = 63
Score = 27.7 bits (60), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 13 KKGTWTPEEDRKLIAYVTKYGYWNWRQLPK-YAGLARCGKSCRLRWMNYLR 62
KK WT EE + A V KYG NW + K Y + R + RW R
Sbjct: 9 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKR 59
>pdb|1VF9|A Chain A, Solution Structure Of Human Trf2
Length = 64
Score = 27.7 bits (60), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 13 KKGTWTPEEDRKLIAYVTKYGYWNWRQLPK-YAGLARCGKSCRLRWMNYLR 62
KK WT EE + A V KYG NW + K Y + R + RW R
Sbjct: 10 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKR 60
>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 = 27.3 bits (59), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 13 KKGTWTPEEDRKLIAYVTKYGYWNWRQLPK-YAGLARCGKSCRLRWMNYLR 62
KK WT EE + A V KYG NW + K Y + R + RW R
Sbjct: 10 KKQKWTVEESEWVKAGVQKYGEGNWAAISKNYPFVNRTAVMIKDRWRTMKR 60
>pdb|2LLK|A Chain A, Solution Nmr Structure Of The N-Terminal Myb-Like 1 Domain
Of The Human Cyclin-D-Binding Transcription Factor 1
(Hdmp1), Northeast Structural Genomics Consortium (Nesg)
Target Id Hr8011a
Length = 73
Score = 27.3 bits (59), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 1/39 (2%)
Query: 68 GNYTKEEEDTIIRLHESLGNRWSAIAAQLPGRTDNEIKN 106
G YT EE + + L GN W+ I A L GR+ + +K+
Sbjct: 24 GKYTPEEIEKLKELRIKHGNDWATIGAAL-GRSASSVKD 61
>pdb|1X58|A Chain A, Solution Structures Of The Myb-Like Dna Binding Domain Of
4930532d21rik Protein
Length = 62
Score = 27.3 bits (59), Expect = 9.4, Method: Composition-based stats.
Identities = 13/46 (28%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 67 RGNYTKEEEDTIIRLHESLGNRWSAIAAQLP---GRTDNEIKNHWH 109
R ++TKEE + + +++GN W++I P GR ++ + +H
Sbjct: 8 RKDFTKEEVNYLFHGVKTMGNHWNSILWSFPFQKGRRAVDLAHKYH 53
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 0.133 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,562,683
Number of Sequences: 62578
Number of extensions: 357190
Number of successful extensions: 863
Number of sequences better than 100.0: 41
Number of HSP's better than 100.0 without gapping: 34
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 782
Number of HSP's gapped (non-prelim): 59
length of query: 261
length of database: 14,973,337
effective HSP length: 97
effective length of query: 164
effective length of database: 8,903,271
effective search space: 1460136444
effective search space used: 1460136444
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: 50 (23.9 bits)