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= 037956
(245 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1H8A|C Chain C, Crystal Structure Of Ternary Protein-Dna Complex3
Length = 128
Score = 113 bits (283), Expect = 8e-26, Method: Compositional matrix adjust.
Identities = 51/106 (48%), Positives = 77/106 (72%), Gaps = 1/106 (0%)
Query: 10 PSLRKGSWTPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPDIRRGN 69
P L KG WT EED+++I ++++YG WS++ K+ R GK CR RW N+L P++++ +
Sbjct: 23 PELNKGPWTKEEDQRVIEHVQKYGPKRWSDIAKHLKG-RIGKQCRERWHNHLNPEVKKTS 81
Query: 70 FTQEEDETIIKLHEQLGNRWSAIASRLPGRTDNEIKNHWHSRLSKK 115
+T+EED I + H++LGNRW+ IA LPGRTDN +KNHW+S + +K
Sbjct: 82 WTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAVKNHWNSTMRRK 127
>pdb|1A5J|A Chain A, Chicken B-Myb Dna Binding Domain, Repeat 2 And Repeat3,
Nmr, 32 Structures
Length = 110
Score = 113 bits (282), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 51/106 (48%), Positives = 74/106 (69%), Gaps = 1/106 (0%)
Query: 10 PSLRKGSWTPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPDIRRGN 69
P L KG WT EED+K+I +++YG W+ + K+ R GK CR RW N+L P++++ +
Sbjct: 3 PDLVKGPWTKEEDQKVIELVKKYGTKQWTLIAKHLKG-RLGKQCRERWHNHLNPEVKKSS 61
Query: 70 FTQEEDETIIKLHEQLGNRWSAIASRLPGRTDNEIKNHWHSRLSKK 115
+T+EED I + H+ LGNRW+ IA LPGRTDN +KNHW+S + +K
Sbjct: 62 WTEEEDRIIFEAHKVLGNRWAEIAKLLPGRTDNAVKNHWNSTIKRK 107
>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 = 110 bits (275), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 52/106 (49%), Positives = 75/106 (70%), Gaps = 1/106 (0%)
Query: 10 PSLRKGSWTPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPDIRRGN 69
P L KG WT EED+++I +++YG WS + K+ R GK CR RW N+L P++++ +
Sbjct: 54 PELIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG-RIGKQCRERWHNHLNPEVKKTS 112
Query: 70 FTQEEDETIIKLHEQLGNRWSAIASRLPGRTDNEIKNHWHSRLSKK 115
+T+EED I + H++LGNRW+ IA LPGRTDN IKNHW+S + +K
Sbjct: 113 WTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRK 158
>pdb|1GV2|A Chain A, Crystal Structure Of C-Myb R2r3
Length = 105
Score = 107 bits (267), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 51/104 (49%), Positives = 74/104 (71%), Gaps = 1/104 (0%)
Query: 12 LRKGSWTPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPDIRRGNFT 71
L KG WT EED+++I +++YG WS + K+ R GK CR RW N+L P++++ ++T
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG-RIGKQCRERWHNHLNPEVKKTSWT 60
Query: 72 QEEDETIIKLHEQLGNRWSAIASRLPGRTDNEIKNHWHSRLSKK 115
+EED I + H++LGNRW+ IA LPGRTDN IKNHW+S + +K
Sbjct: 61 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRK 104
>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 = 107 bits (267), Expect = 6e-24, Method: Compositional matrix adjust.
Identities = 51/104 (49%), Positives = 74/104 (71%), Gaps = 1/104 (0%)
Query: 12 LRKGSWTPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPDIRRGNFT 71
L KG WT EED+++I +++YG WS + K+ R GK CR RW N+L P++++ ++T
Sbjct: 2 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKG-RIGKQCRERWHNHLNPEVKKTSWT 60
Query: 72 QEEDETIIKLHEQLGNRWSAIASRLPGRTDNEIKNHWHSRLSKK 115
+EED I + H++LGNRW+ IA LPGRTDN IKNHW+S + +K
Sbjct: 61 EEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRK 104
>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 = 90.9 bits (224), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 48/114 (42%), Positives = 70/114 (61%), Gaps = 5/114 (4%)
Query: 14 KGSWTPEEDRKLIAYIRRYGIWNWSEMPKYAGLL--RCGKSCRLRWMNYLRPDIRRGNFT 71
KG +T ED + Y++ G NW P+ L R K CR RW N+L P + + +T
Sbjct: 2 KGPFTEAEDDLIREYVKENGPQNW---PRITSFLPNRSPKQCRERWFNHLDPAVVKHAWT 58
Query: 72 QEEDETIIKLHEQLGNRWSAIASRLPGRTDNEIKNHWHSRLSKKRLTKNNQQQV 125
EEDETI + + +LG++WS IA +PGRTDN IKN W+S +SK+ T +N +++
Sbjct: 59 PEEDETIFRNYLKLGSKWSVIAKLIPGRTDNAIKNRWNSSISKRISTNSNHKEI 112
>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 = 67.8 bits (164), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 41/125 (32%), Positives = 63/125 (50%), Gaps = 14/125 (11%)
Query: 11 SLRKGSWTPEEDRKLIAYIRRYGIWNWSEMPKYAGLL--RCGKSCRLRWMNYLRPDIRRG 68
+ +K +TPEED L + ++G S+ A R + CR RW NYL P I
Sbjct: 8 AAKKQKFTPEEDEMLKRAVAQHG----SDWKMIAATFPNRNARQCRDRWKNYLAPSISHT 63
Query: 69 NFTQEEDETIIKLHEQLGNRWSAIASRLPGRTDNEIKNHWHSRLSKKRLTKNNQQQVPSV 128
+T EED +++ ++ G +W+ IA PGRTD IKN W +T +N+ +P
Sbjct: 64 PWTAEEDALLVQKIQEYGRQWAIIAKFFPGRTDIHIKNRW--------VTISNKLGIPQT 115
Query: 129 TKSLQ 133
+ L+
Sbjct: 116 QQMLE 120
>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 = 64.7 bits (156), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 27/51 (52%), Positives = 40/51 (78%)
Query: 65 IRRGNFTQEEDETIIKLHEQLGNRWSAIASRLPGRTDNEIKNHWHSRLSKK 115
+++ ++T+EED I + H++LGNRW+ IA LPGRTDN IKNHW+S + +K
Sbjct: 1 VKKTSWTEEEDRIIYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRK 51
>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 = 64.3 bits (155), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 26/52 (50%), Positives = 41/52 (78%)
Query: 64 DIRRGNFTQEEDETIIKLHEQLGNRWSAIASRLPGRTDNEIKNHWHSRLSKK 115
++++ ++T+EED + + H++LGNRW+ IA LPGRTDN IKNHW+S + +K
Sbjct: 2 EVKKTSWTEEEDRILYQAHKRLGNRWAEIAKLLPGRTDNAIKNHWNSTMRRK 53
>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 = 60.8 bits (146), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 33/95 (34%), Positives = 53/95 (55%), Gaps = 1/95 (1%)
Query: 14 KGSWTPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPDIRRGNFTQE 73
K +T EED KL + RYG +W + + + R + CR RW NY+ P +R ++ E
Sbjct: 1 KVKFTEEEDLKLQQLVMRYGAKDWIRISQLM-ITRNPRQCRERWNNYINPALRTDPWSPE 59
Query: 74 EDETIIKLHEQLGNRWSAIASRLPGRTDNEIKNHW 108
ED + + + + G +W+ I+ L R+DN I+N W
Sbjct: 60 EDMLLDQKYAEYGPKWNKISKFLKNRSDNNIRNRW 94
Score = 27.7 bits (60), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 10 PSLRKGSWTPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWM 58
P+LR W+PEED L YG W+++ K+ R + R RWM
Sbjct: 49 PALRTDPWSPEEDMLLDQKYAEYGP-KWNKISKFLK-NRSDNNIRNRWM 95
>pdb|1GVD|A Chain A, Crystal Structure Of C-Myb R2 V103l Mutant
Length = 52
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 25/53 (47%), Positives = 34/53 (64%), Gaps = 1/53 (1%)
Query: 12 LRKGSWTPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPD 64
L KG WT EED++LI +++YG WS + K+ R GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 31/48 (64%), Gaps = 1/48 (2%)
Query: 67 RGNFTQEEDETIIKLHEQLG-NRWSAIASRLPGRTDNEIKNHWHSRLS 113
+G +T+EED+ +IKL ++ G RWS IA L GR + + WH+ L+
Sbjct: 3 KGPWTKEEDQRLIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLN 50
>pdb|1GV5|A Chain A, Crystal Structure Of C-Myb R2
Length = 52
Score = 48.1 bits (113), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 24/53 (45%), Positives = 34/53 (64%), Gaps = 1/53 (1%)
Query: 12 LRKGSWTPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPD 64
L KG WT EED+++I +++YG WS + K+ R GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 31/48 (64%), Gaps = 1/48 (2%)
Query: 67 RGNFTQEEDETIIKLHEQLG-NRWSAIASRLPGRTDNEIKNHWHSRLS 113
+G +T+EED+ +IKL ++ G RWS IA L GR + + WH+ L+
Sbjct: 3 KGPWTKEEDQRVIKLVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLN 50
>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 = 47.8 bits (112), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 24/53 (45%), Positives = 34/53 (64%), Gaps = 1/53 (1%)
Query: 12 LRKGSWTPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPD 64
L KG WT EED+++I +++YG WS + K+ R GK CR RW N+L P+
Sbjct: 1 LIKGPWTKEEDQRVIELVQKYGPKRWSVIAKHLK-GRIGKQCRERWHNHLNPE 52
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 31/48 (64%), Gaps = 1/48 (2%)
Query: 67 RGNFTQEEDETIIKLHEQLG-NRWSAIASRLPGRTDNEIKNHWHSRLS 113
+G +T+EED+ +I+L ++ G RWS IA L GR + + WH+ L+
Sbjct: 3 KGPWTKEEDQRVIELVQKYGPKRWSVIAKHLKGRIGKQCRERWHNHLN 50
>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 = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 29/45 (64%), Gaps = 1/45 (2%)
Query: 70 FTQEEDETIIKLHEQLG-NRWSAIASRLPGRTDNEIKNHWHSRLS 113
+T+EEDE + KL EQ G + W IA+ LP RTD + ++ W L+
Sbjct: 6 WTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLN 50
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 1/53 (1%)
Query: 12 LRKGSWTPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPD 64
L K WT EED KL + + G +W + Y R C+ RW L P+
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLP-NRTDVQCQHRWQKVLNPE 52
>pdb|1GUU|A Chain A, Crystal Structure Of C-Myb R1
Length = 52
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 29/45 (64%), Gaps = 1/45 (2%)
Query: 70 FTQEEDETIIKLHEQLG-NRWSAIASRLPGRTDNEIKNHWHSRLS 113
+T+EEDE + KL EQ G + W IA+ LP RTD + ++ W L+
Sbjct: 6 WTREEDEKLKKLVEQNGTDDWKVIANYLPNRTDVQCQHRWQKVLN 50
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 1/53 (1%)
Query: 12 LRKGSWTPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYLRPD 64
L K WT EED KL + + G +W + Y R C+ RW L P+
Sbjct: 1 LGKTRWTREEDEKLKKLVEQNGTDDWKVIANYLP-NRTDVQCQHRWQKVLNPE 52
>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 = 0.13, Method: Composition-based stats.
Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 70 FTQEEDETIIKLHEQLGNR-WSAIASRLPGRTDNEIKNHWHSRLS 113
+T EEDE + L Q G + W +AS P RTD + + W LS
Sbjct: 11 WTHEEDEQLRALVRQFGQQDWKFLASHFPNRTDQQCQYRWLRVLS 55
Score = 31.6 bits (70), Expect = 0.43, Method: Composition-based stats.
Identities = 16/48 (33%), Positives = 26/48 (54%), Gaps = 1/48 (2%)
Query: 14 KGSWTPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWMNYL 61
K WT EED +L A +R++G +W + + R + C+ RW+ L
Sbjct: 8 KVKWTHEEDEQLRALVRQFGQQDWKFLASHFP-NRTDQQCQYRWLRVL 54
>pdb|2NVP|A Chain A, X-Ray Crystal Structure Of Protein Cpf_0428 From
Clostridium Perfringens. Northeast Structural Genomics
Consortium Target Cpr63
Length = 435
Score = 32.0 bits (71), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 108 WHSRLSKKRLTKNNQQQVPSVTKSLQETQTAA 139
WH LS + LT NNQ+++ + K L+ET
Sbjct: 357 WHIALSXQGLTTNNQEEIDQLIKLLKETDAGT 388
>pdb|3QT3|A Chain A, Analysis Of A New Family Of Widely Distributed
Metal-Independent Alpha-Mannosidases Provides Unique
Insight Into The Processing Of N- Linked Glycans,
Clostridium Perfringens Cpe0426 Apo-Structure
pdb|3QT9|A Chain A, Analysis Of A New Family Of Widely Distributed
Metal-Independent Alpha Mannosidases Provides Unique
Insight Into The Processing Of N-Linked Glycans,
Clostridium Perfringens Cpe0426 Complexed With
Alpha-1,6- Linked 1-Thio-Alpha-Mannobiose
Length = 427
Score = 32.0 bits (71), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 108 WHSRLSKKRLTKNNQQQVPSVTKSLQETQTAA 139
WH LS + LT NNQ+++ + K L+ET
Sbjct: 357 WHIALSMQGLTTNNQEEIDQLIKLLKETDAGT 388
>pdb|2DIM|A Chain A, Solution Structure Of The Myb_dna-Binding Domain Of
Human Cell Division Cycle 5-Like Protein
Length = 70
Score = 32.0 bits (71), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 29/57 (50%), Gaps = 5/57 (8%)
Query: 17 WTPEEDRKLIAYIRRYGIWNWSEMPKYAGLL--RCGKSCRLRWMNYLRPDIRRGNFT 71
W ED L A + +YG WS + A LL + K C+ RW +L P I++ ++
Sbjct: 12 WRNTEDEILKAAVMKYGKNQWSRI---ASLLHRKSAKQCKARWYEWLDPSIKKTEWS 65
>pdb|2ELK|A Chain A, Solution Structure Of The Sant Domain Of Fission Yeast
Spcc24b10.08c Protein
Length = 58
Score = 30.4 bits (67), Expect = 1.0, Method: Composition-based stats.
Identities = 15/53 (28%), Positives = 25/53 (47%)
Query: 6 GSEKPSLRKGSWTPEEDRKLIAYIRRYGIWNWSEMPKYAGLLRCGKSCRLRWM 58
GS S +W +E+ LI G+ NW+++ Y G R + CR ++
Sbjct: 1 GSSGSSGFDENWGADEELLLIDACETLGLGNWADIADYVGNARTKEECRDHYL 53
>pdb|2XB0|X Chain X, Dna-Binding Domain From Saccharomyces Cerevisiae
Chromatin- Remodelling Protein Chd1
Length = 270
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 17/24 (70%)
Query: 17 WTPEEDRKLIAYIRRYGIWNWSEM 40
WT EED KL+ + +YG +W+++
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 = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 17/24 (70%)
Query: 17 WTPEEDRKLIAYIRRYGIWNWSEM 40
WT EED KL+ + +YG +W+++
Sbjct: 172 WTKEEDEKLLIGVFKYGYGSWTQI 195
>pdb|1IGN|A Chain A, Dna-Binding Domain Of Rap1 In Complex With Telomeric Dna
Site
pdb|1IGN|B Chain B, Dna-Binding Domain Of Rap1 In Complex With Telomeric Dna
Site
Length = 246
Score = 28.1 bits (61), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 29/59 (49%), Gaps = 6/59 (10%)
Query: 63 PDIRRGNFTQEEDETIIKLHEQLGNR------WSAIASRLPGRTDNEIKNHWHSRLSKK 115
P + +FT EEDE I+ + + R + I+ +P T N I++ + LSK+
Sbjct: 4 PSHNKASFTDEEDEFILDVVRKNPTRRTTHTLYDEISHYVPNHTGNSIRHRFRVYLSKR 62
>pdb|1ITY|A Chain A, Solution Structure Of The Dna Binding Domain Of Human
Trf1
Length = 69
Score = 26.9 bits (58), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 20/28 (71%)
Query: 13 RKGSWTPEEDRKLIAYIRRYGIWNWSEM 40
++ +W EED+ L + +R+YG NWS++
Sbjct: 9 KRQAWLWEEDKNLRSGVRKYGEGNWSKI 36
>pdb|1IV6|A Chain A, Solution Structure Of The Dna Complex Of Human Trf1
Length = 70
Score = 26.9 bits (58), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 20/28 (71%)
Query: 13 RKGSWTPEEDRKLIAYIRRYGIWNWSEM 40
++ +W EED+ L + +R+YG NWS++
Sbjct: 10 KRQAWLWEEDKNLRSGVRKYGEGNWSKI 37
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
0.313 0.129 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,008,588
Number of Sequences: 62578
Number of extensions: 328464
Number of successful extensions: 778
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 32
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 697
Number of HSP's gapped (non-prelim): 54
length of query: 245
length of database: 14,973,337
effective HSP length: 96
effective length of query: 149
effective length of database: 8,965,849
effective search space: 1335911501
effective search space used: 1335911501
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 50 (23.9 bits)