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= psy4401
(147 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2A3S|A Chain A, Solution Structure And Dynamics Of Dna-Binding Domain Of
Myocyte Nuclear Factor
pdb|2D2W|A Chain A, Solution Structure And Dynamics Of The Dna-Binding
Domain Of Myocyte Nuclear Factor
Length = 101
Score = 60.5 bits (145), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 29/50 (58%), Positives = 36/50 (72%), Gaps = 3/50 (6%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLDL---QKLEEGGGRYRNVR 50
NSIRHNLSLN+ F+KVPRS+++PGKG FW++D KL E R R R
Sbjct: 49 NSIRHNLSLNRYFIKVPRSQEEPGKGSFWRIDPASEAKLVEQAFRKRRQR 98
>pdb|1JXS|A Chain A, Solution Structure Of The Dna-Binding Domain Of
Interleukin Enhancer Binding Factor
Length = 98
Score = 60.1 bits (144), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 29/50 (58%), Positives = 36/50 (72%), Gaps = 3/50 (6%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLDL---QKLEEGGGRYRNVR 50
NSIRHNLSLN+ F+KVPRS+++PGKG FW++D KL E R R R
Sbjct: 49 NSIRHNLSLNRYFIKVPRSQEEPGKGSFWRIDPASESKLIEQAFRKRRPR 98
>pdb|2C6Y|A Chain A, Crystal Structure Of Interleukin Enhancer-Binding Factor
1 Bound To Dna
pdb|2C6Y|B Chain B, Crystal Structure Of Interleukin Enhancer-Binding Factor
1 Bound To Dna
Length = 111
Score = 59.7 bits (143), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 23/32 (71%), Positives = 30/32 (93%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLD 35
NSIRHNLSLN+ F+KVPRS+++PGKG FW++D
Sbjct: 62 NSIRHNLSLNRYFIKVPRSQEEPGKGSFWRID 93
>pdb|1D5V|A Chain A, Solution Structure Of The Forkhead Domain Of The
Adipocyte- Transcription Factor Freac-11 (S12)
Length = 94
Score = 57.4 bits (137), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 24/32 (75%), Positives = 27/32 (84%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLD 35
NSIRHNLSLN+CFVKVPR +PGKG +W LD
Sbjct: 50 NSIRHNLSLNECFVKVPRDDKKPGKGSYWTLD 81
>pdb|2HFH|A Chain A, The Nmr Structures Of A Winged Helix Protein: Genesis,
20 Structures
Length = 109
Score = 56.6 bits (135), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 24/34 (70%), Positives = 26/34 (76%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLDLQ 37
NSIRHNLSLN CFVK+PR PGKG +W LD Q
Sbjct: 49 NSIRHNLSLNDCFVKIPREPGNPGKGNYWTLDPQ 82
>pdb|2HDC|A Chain A, Structure Of Transcription Factor GenesisDNA COMPLEX
Length = 97
Score = 56.2 bits (134), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 24/34 (70%), Positives = 26/34 (76%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLDLQ 37
NSIRHNLSLN CFVK+PR PGKG +W LD Q
Sbjct: 48 NSIRHNLSLNDCFVKIPREPGNPGKGNYWTLDPQ 81
>pdb|1VTN|C Chain C, Co-Crystal Structure Of The Hnf-3FORK HEAD
DNA-Recognition Motif Resembles Histone H5
Length = 102
Score = 53.1 bits (126), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 22/31 (70%), Positives = 25/31 (80%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKL 34
NSIRH+LS N CFVKV RS D+PGKG +W L
Sbjct: 49 NSIRHSLSFNDCFVKVARSPDKPGKGSYWAL 79
>pdb|1KQ8|A Chain A, Solution Structure Of Winged Helix Protein Hfh-1
Length = 100
Score = 42.0 bits (97), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/33 (60%), Positives = 24/33 (72%), Gaps = 1/33 (3%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQP-GKGGFWKLD 35
NS+RHNLSLN CFVKV R +P GK +W L+
Sbjct: 48 NSVRHNLSLNDCFVKVLRDPSRPWGKDNYWMLN 80
>pdb|3QRF|F Chain F, Structure Of A Domain-Swapped Foxp3 Dimer
pdb|3QRF|G Chain G, Structure Of A Domain-Swapped Foxp3 Dimer
pdb|3QRF|H Chain H, Structure Of A Domain-Swapped Foxp3 Dimer
pdb|3QRF|I Chain I, Structure Of A Domain-Swapped Foxp3 Dimer
Length = 82
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/32 (53%), Positives = 22/32 (68%), Gaps = 5/32 (15%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLD 35
N+IRHNLSL+KCFV+V + KG W +D
Sbjct: 48 NAIRHNLSLHKCFVRV-----ESEKGAVWTVD 74
>pdb|2A07|F Chain F, Crystal Structure Of Foxp2 Bound Specifically To Dna.
pdb|2A07|G Chain G, Crystal Structure Of Foxp2 Bound Specifically To Dna.
pdb|2A07|H Chain H, Crystal Structure Of Foxp2 Bound Specifically To Dna.
pdb|2A07|I Chain I, Crystal Structure Of Foxp2 Bound Specifically To Dna.
pdb|2A07|J Chain J, Crystal Structure Of Foxp2 Bound Specifically To Dna.
pdb|2A07|K Chain K, Crystal Structure Of Foxp2 Bound Specifically To Dna.
pdb|2AS5|F Chain F, Structure Of The Dna Binding Domains Of Nfat And Foxp2
Bound Specifically To Dna.
pdb|2AS5|G Chain G, Structure Of The Dna Binding Domains Of Nfat And Foxp2
Bound Specifically To Dna
Length = 93
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 22/32 (68%), Gaps = 5/32 (15%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLD 35
N++RHNLSL+KCFV+V + KG W +D
Sbjct: 49 NAVRHNLSLHKCFVRV-----ENVKGAVWTVD 75
>pdb|1E17|A Chain A, Solution Structure Of The Dna Binding Domain Of The Human
Forkhead Transcription Factor Afx (Foxo4)
Length = 150
Score = 34.7 bits (78), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 31/53 (58%), Gaps = 6/53 (11%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLDLQKLEEGGGRYRNVRRKSSDI 56
NSIRHNLSL+ F+KV + GK +W L+ EGG + RR+++ +
Sbjct: 91 NSIRHNLSLHSKFIKV--HNEATGKSSWWMLN----PEGGKSGKAPRRRAASM 137
>pdb|3CO7|C Chain C, Crystal Structure Of Foxo1 Dbd Bound To Dbe2 Dna
pdb|3CO7|F Chain F, Crystal Structure Of Foxo1 Dbd Bound To Dbe2 Dna
pdb|3COA|C Chain C, Crystal Structure Of Foxo1 Dbd Bound To Ire Dna
pdb|3COA|F Chain F, Crystal Structure Of Foxo1 Dbd Bound To Ire Dna
Length = 117
Score = 34.7 bits (78), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 32/53 (60%), Gaps = 6/53 (11%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLDLQKLEEGGGRYRNVRRKSSDI 56
NSIRHNLSL+ F++V + GK +W L+ EGG ++ RR+++ +
Sbjct: 62 NSIRHNLSLHSKFIRVQ--NEGTGKSSWWMLN----PEGGKSGKSPRRRAASM 108
>pdb|2KIU|A Chain A, Solution Structure And Backbone Dynamics Of The
Dna-Binding Domain Of Foxp1: Insight Into Its Domain
Swapping
Length = 87
Score = 32.3 bits (72), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 21/32 (65%), Gaps = 5/32 (15%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLD 35
N++RHNLSL+K FV+V + KG W +D
Sbjct: 50 NAVRHNLSLHKYFVRV-----ENVKGAVWTVD 76
>pdb|3L2C|A Chain A, Crystal Structure Of The Dna Binding Domain Of Foxo4 Bound
To Dna
Length = 110
Score = 32.0 bits (71), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 21/32 (65%), Gaps = 2/32 (6%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLD 35
NSIRHNLSL+ F+KV + GK +W L+
Sbjct: 75 NSIRHNLSLHSKFIKV--HNEATGKSSWWMLN 104
>pdb|3CO6|C Chain C, Crystal Structure Of Foxo1 Dbd Bound To Dbe1 Dna
Length = 100
Score = 31.2 bits (69), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 24/39 (61%), Gaps = 2/39 (5%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLDLQKLEEG 42
NSIRHNLSL+ F++V + GK +W L+ + + G
Sbjct: 62 NSIRHNLSLHSKFIRVQN--EGTGKSSWWMLNPEGGKSG 98
>pdb|3G73|A Chain A, Structure Of The Foxm1 Dna Binding
pdb|3G73|B Chain B, Structure Of The Foxm1 Dna Binding
Length = 142
Score = 30.8 bits (68), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 16/31 (51%), Positives = 18/31 (58%), Gaps = 3/31 (9%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKL 34
NSIRHNLSL+ FV R GK FW +
Sbjct: 65 NSIRHNLSLHDMFV---RETSANGKVSFWTI 92
>pdb|2UZK|A Chain A, Crystal Structure Of The Human Foxo3a-Dbd Bound To Dna
pdb|2UZK|C Chain C, Crystal Structure Of The Human Foxo3a-Dbd Bound To Dna
Length = 97
Score = 28.9 bits (63), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 6/50 (12%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLDLQKLEEGGGRYRNVRRKS 53
NSIRHNLSL+ F++V + GK +W ++ +GG + RR++
Sbjct: 52 NSIRHNLSLHSRFMRV--QNEGTGKSSWWIIN----PDGGKSGKAPRRRA 95
>pdb|3T12|B Chain B, Mgla In Complex With Mglb In Transition State
pdb|3T12|C Chain C, Mgla In Complex With Mglb In Transition State
pdb|3T1Q|B Chain B, Mgla Bound To Gppnhp In Complex With Mglb
pdb|3T1Q|C Chain C, Mgla Bound To Gppnhp In Complex With Mglb
Length = 136
Score = 28.5 bits (62), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 37 QKLEEGGGRYRN-VRRKSSDIQHRKQAHRPKPAPSENLNTAYTNNNS 82
+ L E G RY + RK + H++ PKP P + L T +N +
Sbjct: 19 ETLRETGARYALLIDRKGFVLAHKEALWAPKPPPLDTLATLVASNAA 65
>pdb|3T1X|A Chain A, Mglb R124a E127a Monomer
Length = 136
Score = 28.5 bits (62), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 37 QKLEEGGGRYRN-VRRKSSDIQHRKQAHRPKPAPSENLNTAYTNNNS 82
+ L E G RY + RK + H++ PKP P + L T +N +
Sbjct: 19 ETLRETGARYALLIDRKGFVLAHKEALWAPKPPPLDTLATLVASNAA 65
>pdb|2K86|A Chain A, Solution Structure Of Foxo3a Forkhead Domain
Length = 103
Score = 28.5 bits (62), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 29/50 (58%), Gaps = 6/50 (12%)
Query: 4 NSIRHNLSLNKCFVKVPRSKDQPGKGGFWKLDLQKLEEGGGRYRNVRRKS 53
NSIRHNLSL+ F++V + GK +W ++ +GG + RR++
Sbjct: 60 NSIRHNLSLHSRFMRV--QNEGTGKSSWWIIN----PDGGKSGKAPRRRA 103
>pdb|3T1R|A Chain A, Mglb With Tetrameric Arrangement
pdb|3T1R|B Chain B, Mglb With Tetrameric Arrangement
pdb|3T1R|C Chain C, Mglb With Tetrameric Arrangement
pdb|3T1R|D Chain D, Mglb With Tetrameric Arrangement
Length = 165
Score = 28.1 bits (61), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 37 QKLEEGGGRYRN-VRRKSSDIQHRKQAHRPKPAPSENLNTAYTNNNS 82
+ L E G RY + RK + H++ PKP P + L T +N +
Sbjct: 24 ETLRETGARYALLIDRKGFVLAHKEALWAPKPPPLDTLATLVASNAA 70
>pdb|1J3W|A Chain A, Structure Of Gliding Protein-mglb From Thermus
Thermophilus Hb8
pdb|1J3W|B Chain B, Structure Of Gliding Protein-mglb From Thermus
Thermophilus Hb8
pdb|1J3W|C Chain C, Structure Of Gliding Protein-mglb From Thermus
Thermophilus Hb8
pdb|1J3W|D Chain D, Structure Of Gliding Protein-mglb From Thermus
Thermophilus Hb8
Length = 163
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 1/47 (2%)
Query: 37 QKLEEGGGRYRN-VRRKSSDIQHRKQAHRPKPAPSENLNTAYTNNNS 82
+ L E G RY + RK + H++ PKP P + L T N +
Sbjct: 22 ETLRETGARYALLIDRKGFVLAHKEALWAPKPPPLDTLATLVAGNAA 68
>pdb|3T1S|A Chain A, Mglb Homodimer
Length = 136
Score = 28.1 bits (61), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 27/57 (47%), Gaps = 3/57 (5%)
Query: 37 QKLEEGGGRYRN-VRRKSSDIQHRKQAHRPKPAPSENLNTAYTNNNSIAPGENLNKL 92
+ L E G RY + RK + H++ PKP P + L T +N A + L KL
Sbjct: 19 ETLRETGARYALLIDRKGFVLAHKEALWAPKPPPLDTLATLVASNA--AATQALAKL 73
>pdb|3GBD|A Chain A, Crystal Structure Of The Isomaltulose Synthase Smua From
Protaminobacter Rubrum
pdb|3GBE|A Chain A, Crystal Structure Of The Isomaltulose Synthase Smua From
Protaminobacter Rubrum In Complex With The Inhibitor
Deoxynojirimycin
Length = 558
Score = 26.6 bits (57), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 14/29 (48%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 6 IRHNLSLNKCFVKVPRSKDQPGKG-GFWK 33
I H N+ FVK SKD P +G FWK
Sbjct: 101 INHTSDQNEWFVKSKSSKDNPYRGYYFWK 129
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 0.134 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,797,895
Number of Sequences: 62578
Number of extensions: 194271
Number of successful extensions: 327
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 306
Number of HSP's gapped (non-prelim): 37
length of query: 147
length of database: 14,973,337
effective HSP length: 90
effective length of query: 57
effective length of database: 9,341,317
effective search space: 532455069
effective search space used: 532455069
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: 47 (22.7 bits)