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= 024492
(267 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 = 102 bits (255), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 50/99 (50%), Positives = 65/99 (65%), Gaps = 1/99 (1%)
Query: 12 LKKGPWTPEEDQILINYVKLYGHGNWRALPKQAGLLRCGKSCRLRWINYLRPDIKRGNFT 71
L KGPWT EEDQ +I VK YG W + K R GK CR RW N+L P++K+ ++T
Sbjct: 5 LVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKG-RLGKQCRERWHNHLNPEVKKSSWT 63
Query: 72 REEEDTIINLHEMLGNRWSAIAARLPGRTDNEIKNVWHT 110
EE+ I H++LGNRW+ IA LPGRTDN +KN W++
Sbjct: 64 EEEDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNS 102
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 63 PDIKRGNFTREEEDTIINLHEMLGNR-WSAIAARLPGRTDNEIKNVWHTH 111
PD+ +G +T+EE+ +I L + G + W+ IA L GR + + WH H
Sbjct: 3 PDLVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKGRLGKQCRERWHNH 52
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 100 bits (250), Expect = 7e-22, Method: Compositional matrix adjust.
Identities = 49/99 (49%), Positives = 65/99 (65%), Gaps = 1/99 (1%)
Query: 12 LKKGPWTPEEDQILINYVKLYGHGNWRALPKQAGLLRCGKSCRLRWINYLRPDIKRGNFT 71
L KGPWT EEDQ +I +V+ YG W + K R GK CR RW N+L P++K+ ++T
Sbjct: 25 LNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKG-RIGKQCRERWHNHLNPEVKKTSWT 83
Query: 72 REEEDTIINLHEMLGNRWSAIAARLPGRTDNEIKNVWHT 110
EE+ I H+ LGNRW+ IA LPGRTDN +KN W++
Sbjct: 84 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNS 122
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 48 RCGKSCRLRWINYLRPDIKRGNFTREEEDTIINLHEMLG-NRWSAIAARLPGRTDNEIKN 106
R C+ RW L P++ +G +T+EE+ +I + G RWS IA L GR + +
Sbjct: 8 RTDVQCQHRWQKVLNPELNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKGRIGKQCRE 67
Query: 107 VWHTH 111
WH H
Sbjct: 68 RWHNH 72
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 99.8 bits (247), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 50/99 (50%), Positives = 64/99 (64%), Gaps = 1/99 (1%)
Query: 12 LKKGPWTPEEDQILINYVKLYGHGNWRALPKQAGLLRCGKSCRLRWINYLRPDIKRGNFT 71
L KGPWT EEDQ +I V+ YG W + K R GK CR RW N+L P++K+ ++T
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG-RIGKQCRERWHNHLNPEVKKTSWT 60
Query: 72 REEEDTIINLHEMLGNRWSAIAARLPGRTDNEIKNVWHT 110
EE+ I H+ LGNRW+ IA LPGRTDN IKN W++
Sbjct: 61 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNS 99
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 64 DIKRGNFTREEEDTIINLHEMLG-NRWSAIAARLPGRTDNEIKNVWHTH 111
++ +G +T+EE+ +I L + G RWS IA L GR + + WH H
Sbjct: 1 ELIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNH 49
>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 = 99.8 bits (247), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 50/99 (50%), Positives = 64/99 (64%), Gaps = 1/99 (1%)
Query: 12 LKKGPWTPEEDQILINYVKLYGHGNWRALPKQAGLLRCGKSCRLRWINYLRPDIKRGNFT 71
L KGPWT EEDQ +I V+ YG W + K R GK CR RW N+L P++K+ ++T
Sbjct: 56 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG-RIGKQCRERWHNHLNPEVKKTSWT 114
Query: 72 REEEDTIINLHEMLGNRWSAIAARLPGRTDNEIKNVWHT 110
EE+ I H+ LGNRW+ IA LPGRTDN IKN W++
Sbjct: 115 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNS 153
Score = 61.2 bits (147), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 39/106 (36%), Positives = 55/106 (51%), Gaps = 7/106 (6%)
Query: 10 MG-LKKGPWTPEEDQILINYVKLYGHGNWRALPKQAGLL--RCGKSCRLRWINYLRPDIK 66
MG L K WT EED+ L V+ G +W+ + A L R C+ RW L P++
Sbjct: 1 MGHLGKTRWTREEDEKLKKLVEQNGTDDWKVI---ANYLPNRTDVQCQHRWQKVLNPELI 57
Query: 67 RGNFTREEEDTIINLHEMLG-NRWSAIAARLPGRTDNEIKNVWHTH 111
+G +T+EE+ +I L + G RWS IA L GR + + WH H
Sbjct: 58 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNH 103
>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 = 99.8 bits (247), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 50/99 (50%), Positives = 64/99 (64%), Gaps = 1/99 (1%)
Query: 12 LKKGPWTPEEDQILINYVKLYGHGNWRALPKQAGLLRCGKSCRLRWINYLRPDIKRGNFT 71
L KGPWT EEDQ +I V+ YG W + K R GK CR RW N+L P++K+ ++T
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG-RIGKQCRERWHNHLNPEVKKTSWT 60
Query: 72 REEEDTIINLHEMLGNRWSAIAARLPGRTDNEIKNVWHT 110
EE+ I H+ LGNRW+ IA LPGRTDN IKN W++
Sbjct: 61 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNS 99
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 67 RGNFTREEEDTIINLHEMLG-NRWSAIAARLPGRTDNEIKNVWHTH 111
+G +T+EE+ +I L + G RWS IA L GR + + WH H
Sbjct: 4 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNH 49
>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 = 82.4 bits (202), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 44/99 (44%), Positives = 60/99 (60%), Gaps = 5/99 (5%)
Query: 14 KGPWTPEEDQILINYVKLYGHGNWRALPKQAGLL--RCGKSCRLRWINYLRPDIKRGNFT 71
KGP+T ED ++ YVK G NW P+ L R K CR RW N+L P + + +T
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQNW---PRITSFLPNRSPKQCRERWFNHLDPAVVKHAWT 58
Query: 72 REEEDTIINLHEMLGNRWSAIAARLPGRTDNEIKNVWHT 110
EE++TI + LG++WS IA +PGRTDN IKN W++
Sbjct: 59 PEEDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRWNS 97
>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 = 67.0 bits (162), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 39/100 (39%), Positives = 54/100 (54%), Gaps = 6/100 (6%)
Query: 13 KKGPWTPEEDQILINYVKLYGHGNWRALPKQAGLL--RCGKSCRLRWINYLRPDIKRGNF 70
KK +TPEED++L V +G +W+ + A R + CR RW NYL P I +
Sbjct: 10 KKQKFTPEEDEMLKRAVAQHG-SDWKMI---AATFPNRNARQCRDRWKNYLAPSISHTPW 65
Query: 71 TREEEDTIINLHEMLGNRWSAIAARLPGRTDNEIKNVWHT 110
T EE+ ++ + G +W+ IA PGRTD IKN W T
Sbjct: 66 TAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRWVT 105
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 22/46 (47%)
Query: 66 KRGNFTREEEDTIINLHEMLGNRWSAIAARLPGRTDNEIKNVWHTH 111
K+ FT EE++ + G+ W IAA P R + ++ W +
Sbjct: 10 KKQKFTPEEDEMLKRAVAQHGSDWKMIAATFPNRNARQCRDRWKNY 55
>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 = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 24/46 (52%), Positives = 33/46 (71%)
Query: 65 IKRGNFTREEEDTIINLHEMLGNRWSAIAARLPGRTDNEIKNVWHT 110
+K+ ++T EE+ I H+ LGNRW+ IA LPGRTDN IKN W++
Sbjct: 1 VKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNS 46
>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 = 53.1 bits (126), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 23/47 (48%), Positives = 34/47 (72%)
Query: 64 DIKRGNFTREEEDTIINLHEMLGNRWSAIAARLPGRTDNEIKNVWHT 110
++K+ ++T EE+ + H+ LGNRW+ IA LPGRTDN IKN W++
Sbjct: 2 EVKKTSWTEEEDRILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNS 48
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 53.1 bits (126), Expect = 2e-07, Method: Composition-based stats.
Identities = 27/53 (50%), Positives = 31/53 (58%), Gaps = 1/53 (1%)
Query: 12 LKKGPWTPEEDQILINYVKLYGHGNWRALPKQAGLLRCGKSCRLRWINYLRPD 64
L KGPWT EEDQ LI V+ YG W + K R GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
Score = 38.5 bits (88), Expect = 0.004, Method: Composition-based stats.
Identities = 18/46 (39%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 67 RGNFTREEEDTIINLHEMLG-NRWSAIAARLPGRTDNEIKNVWHTH 111
+G +T+EE+ +I L + G RWS IA L GR + + WH H
Sbjct: 3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNH 48
>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 = 52.0 bits (123), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 31/95 (32%), Positives = 49/95 (51%), Gaps = 1/95 (1%)
Query: 14 KGPWTPEEDQILINYVKLYGHGNWRALPKQAGLLRCGKSCRLRWINYLRPDIKRGNFTRE 73
K +T EED L V YG +W + Q + R + CR RW NY+ P ++ ++ E
Sbjct: 1 KVKFTEEEDLKLQQLVMRYGAKDWIRIS-QLMITRNPRQCRERWNNYINPALRTDPWSPE 59
Query: 74 EEDTIINLHEMLGNRWSAIAARLPGRTDNEIKNVW 108
E+ + + G +W+ I+ L R+DN I+N W
Sbjct: 60 EDMLLDQKYAEYGPKWNKISKFLKNRSDNNIRNRW 94
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 52.0 bits (123), Expect = 4e-07, Method: Composition-based stats.
Identities = 26/53 (49%), Positives = 31/53 (58%), Gaps = 1/53 (1%)
Query: 12 LKKGPWTPEEDQILINYVKLYGHGNWRALPKQAGLLRCGKSCRLRWINYLRPD 64
L KGPWT EEDQ +I V+ YG W + K R GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
Score = 38.9 bits (89), Expect = 0.003, Method: Composition-based stats.
Identities = 18/46 (39%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 67 RGNFTREEEDTIINLHEMLG-NRWSAIAARLPGRTDNEIKNVWHTH 111
+G +T+EE+ +I L + G RWS IA L GR + + WH H
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNH 48
>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 = 51.6 bits (122), Expect = 5e-07, Method: Composition-based stats.
Identities = 26/53 (49%), Positives = 31/53 (58%), Gaps = 1/53 (1%)
Query: 12 LKKGPWTPEEDQILINYVKLYGHGNWRALPKQAGLLRCGKSCRLRWINYLRPD 64
L KGPWT EEDQ +I V+ YG W + K R GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRVIELVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
Score = 38.9 bits (89), Expect = 0.003, Method: Composition-based stats.
Identities = 18/46 (39%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 67 RGNFTREEEDTIINLHEMLG-NRWSAIAARLPGRTDNEIKNVWHTH 111
+G +T+EE+ +I L + G RWS IA L GR + + WH H
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNH 48
>pdb|2DIM|A Chain A, Solution Structure Of The Myb_dna-Binding Domain Of
Human Cell Division Cycle 5-Like Protein
Length = 70
Score = 35.8 bits (81), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 28/57 (49%), Gaps = 5/57 (8%)
Query: 17 WTPEEDQILINYVKLYGHGNWRALPKQAGLL--RCGKSCRLRWINYLRPDIKRGNFT 71
W ED+IL V YG W + A LL + K C+ RW +L P IK+ ++
Sbjct: 12 WRNTEDEILKAAVMKYGKNQWSRI---ASLLHRKSAKQCKARWYEWLDPSIKKTEWS 65
>pdb|2D9A|A Chain A, Solution Structure Of Rsgi Ruh-050, A Myb Dna-Binding
Domain In Mouse Cdna
Length = 60
Score = 30.4 bits (67), Expect = 1.0, Method: Composition-based stats.
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 14 KGPWTPEEDQILINYVKLYGHGNWRALPKQAGLLRCGKSCRLRWINYL 61
K WT EED+ L V+ +G +W+ L R + C+ RW+ L
Sbjct: 8 KVKWTHEEDEQLRALVRQFGQQDWKFLASHFP-NRTDQQCQYRWLRVL 54
>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 = 30.0 bits (66), Expect = 1.3, Method: Composition-based stats.
Identities = 14/30 (46%), Positives = 18/30 (60%)
Query: 13 KKGPWTPEEDQILINYVKLYGHGNWRALPK 42
KK WT EE + + V+ YG GNW A+ K
Sbjct: 10 KKQKWTVEESEWVKAGVQKYGEGNWAAISK 39
>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 = 30.0 bits (66), Expect = 1.3, Method: Composition-based stats.
Identities = 14/30 (46%), Positives = 18/30 (60%)
Query: 13 KKGPWTPEEDQILINYVKLYGHGNWRALPK 42
KK WT EE + + V+ YG GNW A+ K
Sbjct: 1 KKQKWTVEESEWVKAGVQKYGEGNWAAISK 30
>pdb|1XG1|A Chain A, Solution Structure Of Myb-Domain Of Human Trf2
Length = 67
Score = 30.0 bits (66), Expect = 1.5, Method: Composition-based stats.
Identities = 14/30 (46%), Positives = 18/30 (60%)
Query: 13 KKGPWTPEEDQILINYVKLYGHGNWRALPK 42
KK WT EE + + V+ YG GNW A+ K
Sbjct: 13 KKQKWTVEESEWVKAGVQKYGEGNWAAISK 42
>pdb|1VF9|A Chain A, Solution Structure Of Human Trf2
Length = 64
Score = 30.0 bits (66), Expect = 1.6, Method: Composition-based stats.
Identities = 14/30 (46%), Positives = 18/30 (60%)
Query: 13 KKGPWTPEEDQILINYVKLYGHGNWRALPK 42
KK WT EE + + V+ YG GNW A+ K
Sbjct: 10 KKQKWTVEESEWVKAGVQKYGEGNWAAISK 39
>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 = 29.6 bits (65), Expect = 1.6, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 67 RGNFTREEEDTIINLHEMLG-NRWSAIAARLPGRTDNEIKNVWH 109
+ +TREE++ + L E G + W IA LP RTD + ++ W
Sbjct: 3 KTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQ 46
Score = 27.3 bits (59), Expect = 9.1, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 5/55 (9%)
Query: 12 LKKGPWTPEEDQILINYVKLYGHGNWRALPKQAGLL--RCGKSCRLRWINYLRPD 64
L K WT EED+ L V+ G +W+ + A L R C+ RW L P+
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVI---ANYLPNRTDVQCQHRWQKVLNPE 52
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 29.6 bits (65), Expect = 1.6, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 67 RGNFTREEEDTIINLHEMLG-NRWSAIAARLPGRTDNEIKNVWH 109
+ +TREE++ + L E G + W IA LP RTD + ++ W
Sbjct: 3 KTRWTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQ 46
Score = 27.3 bits (59), Expect = 9.1, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 5/55 (9%)
Query: 12 LKKGPWTPEEDQILINYVKLYGHGNWRALPKQAGLL--RCGKSCRLRWINYLRPD 64
L K WT EED+ L V+ G +W+ + A L R C+ RW L P+
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVI---ANYLPNRTDVQCQHRWQKVLNPE 52
>pdb|1VFC|A Chain A, Solution Structure Of The Dna Complex Of Human Trf2
Length = 63
Score = 29.6 bits (65), Expect = 1.7, Method: Composition-based stats.
Identities = 14/30 (46%), Positives = 18/30 (60%)
Query: 13 KKGPWTPEEDQILINYVKLYGHGNWRALPK 42
KK WT EE + + V+ YG GNW A+ K
Sbjct: 9 KKQKWTVEESEWVKAGVQKYGEGNWAAISK 38
>pdb|2ELK|A Chain A, Solution Structure Of The Sant Domain Of Fission Yeast
Spcc24b10.08c Protein
Length = 58
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 21/42 (50%)
Query: 17 WTPEEDQILINYVKLYGHGNWRALPKQAGLLRCGKSCRLRWI 58
W +E+ +LI+ + G GNW + G R + CR ++
Sbjct: 12 WGADEELLLIDACETLGLGNWADIADYVGNARTKEECRDHYL 53
>pdb|3VUO|A Chain A, Crystal Structure Of Nontoxic Nonhemagglutinin Subcomponent
(Ntnha) From Clostridium Botulinum Serotype D Strain 4947
Length = 1196
Score = 28.5 bits (62), Expect = 4.3, Method: Composition-based stats.
Identities = 23/86 (26%), Positives = 37/86 (43%), Gaps = 11/86 (12%)
Query: 187 LVEIDENF-----WTEVLSAENSG----ISIEDSNDRFSAVGSADPLSIVEFQSSLDDFR 237
L+ IDE+ W E + + G + I N+R V S D + + L FR
Sbjct: 1095 LINIDESKGYVQKWDECIICVSDGTEKYLDISPENNRIQLVSSKDNAKKITVNTDL--FR 1152
Query: 238 PGSTLCDNTDFWFNLFTKAGDFSEML 263
P D +F+L + GD++ M+
Sbjct: 1153 PDCITFSYNDKYFSLSLRDGDYNWMI 1178
>pdb|3TED|A Chain A, Crystal Structure Of The Chd1 Dna-Binding Domain In
Complex With A Dna Duplex
Length = 271
Score = 28.1 bits (61), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 17 WTPEEDQILINYVKLYGHGNWRAL 40
WT EED+ L+ V YG+G+W +
Sbjct: 172 WTKEEDEKLLIGVFKYGYGSWTQI 195
>pdb|2XB0|X Chain X, Dna-Binding Domain From Saccharomyces Cerevisiae
Chromatin- Remodelling Protein Chd1
Length = 270
Score = 27.7 bits (60), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 17 WTPEEDQILINYVKLYGHGNW 37
WT EED+ L+ V YG+G+W
Sbjct: 171 WTKEEDEKLLIGVFKYGYGSW 191
>pdb|1IV6|A Chain A, Solution Structure Of The Dna Complex Of Human Trf1
Length = 70
Score = 27.7 bits (60), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 13 KKGPWTPEEDQILINYVKLYGHGNW 37
K+ W EED+ L + V+ YG GNW
Sbjct: 10 KRQAWLWEEDKNLRSGVRKYGEGNW 34
>pdb|1ITY|A Chain A, Solution Structure Of The Dna Binding Domain Of Human
Trf1
Length = 69
Score = 27.7 bits (60), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 13 KKGPWTPEEDQILINYVKLYGHGNW 37
K+ W EED+ L + V+ YG GNW
Sbjct: 9 KRQAWLWEEDKNLRSGVRKYGEGNW 33
>pdb|1W0T|A Chain A, Htrf1 Dna-Binding Domain In Complex With Telomeric Dna.
pdb|1W0T|B Chain B, Htrf1 Dna-Binding Domain In Complex With Telomeric Dna
Length = 53
Score = 27.3 bits (59), Expect = 9.0, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 13 KKGPWTPEEDQILINYVKLYGHGNWRAL 40
K+ W EED+ L + V+ YG GNW +
Sbjct: 1 KRQAWLWEEDKNLRSGVRKYGEGNWSKI 28
>pdb|1BA5|A Chain A, Dna-Binding Domain Of Human Telomeric Protein, Htrf1,
Nmr, 18 Structures
Length = 53
Score = 27.3 bits (59), Expect = 9.1, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 13 KKGPWTPEEDQILINYVKLYGHGNWRAL 40
K+ W EED+ L + V+ YG GNW +
Sbjct: 2 KRQAWLWEEDKNLRSGVRKYGEGNWSKI 29
>pdb|2DIN|A Chain A, Solution Structure Of The Myb_dna-Binding Domain Of Human
Cell Division Cycle 5-Like Protein
Length = 66
Score = 27.3 bits (59), Expect = 9.2, Method: Composition-based stats.
Identities = 12/35 (34%), Positives = 24/35 (68%), Gaps = 1/35 (2%)
Query: 66 KRGNFTREEEDTIINLHEMLGNRWSAIAARLPGRT 100
K+ ++REEE+ +++L +++ +W IA + GRT
Sbjct: 8 KKTEWSREEEEKLLHLAKLMPTQWRTIAP-IIGRT 41
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 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,614,968
Number of Sequences: 62578
Number of extensions: 281138
Number of successful extensions: 533
Number of sequences better than 100.0: 40
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 462
Number of HSP's gapped (non-prelim): 63
length of query: 267
length of database: 14,973,337
effective HSP length: 97
effective length of query: 170
effective length of database: 8,903,271
effective search space: 1513556070
effective search space used: 1513556070
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)