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= psy447
(417 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1VTN|C Chain C, Co-Crystal Structure Of The Hnf-3FORK HEAD DNA-Recognition
Motif Resembles Histone H5
Length = 102
Score = 196 bits (499), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 88/100 (88%), Positives = 94/100 (94%)
Query: 121 HAKPPYSYISLITMAIQNSPTKMLTLSEIYQFIMDLFPFYRQNQQRWQNSIRHSLSFNDC 180
HAKPPYSYISLITMAIQ +P KMLTLSEIYQ+IMDLFP+YR+NQQRWQNSIRHSLSFNDC
Sbjct: 1 HAKPPYSYISLITMAIQQAPGKMLTLSEIYQWIMDLFPYYRENQQRWQNSIRHSLSFNDC 60
Query: 181 FVKVPRTPDKPGKGSFWTLHKDSGNMFENGCYLRRQKRFK 220
FVKV R+PDKPGKGS+W LH SGNMFENGCYLRRQKRFK
Sbjct: 61 FVKVARSPDKPGKGSYWALHPSSGNMFENGCYLRRQKRFK 100
>pdb|1D5V|A Chain A, Solution Structure Of The Forkhead Domain Of The
Adipocyte- Transcription Factor Freac-11 (S12)
Length = 94
Score = 150 bits (380), Expect = 1e-36, Method: Compositional matrix adjust.
Identities = 68/92 (73%), Positives = 78/92 (84%)
Query: 122 AKPPYSYISLITMAIQNSPTKMLTLSEIYQFIMDLFPFYRQNQQRWQNSIRHSLSFNDCF 181
KPPYSYI+LITMAIQN+P K +TL+ IYQFIMD FPFYR+N+Q WQNSIRH+LS N+CF
Sbjct: 3 VKPPYSYIALITMAIQNAPEKKITLNGIYQFIMDRFPFYRENKQGWQNSIRHNLSLNECF 62
Query: 182 VKVPRTPDKPGKGSFWTLHKDSGNMFENGCYL 213
VKVPR KPGKGS+WTL DS NMFENG +L
Sbjct: 63 VKVPRDDKKPGKGSYWTLDPDSYNMFENGSFL 94
>pdb|2HDC|A Chain A, Structure Of Transcription Factor GenesisDNA COMPLEX
Length = 97
Score = 134 bits (338), Expect = 6e-32, Method: Compositional matrix adjust.
Identities = 62/96 (64%), Positives = 75/96 (78%)
Query: 123 KPPYSYISLITMAIQNSPTKMLTLSEIYQFIMDLFPFYRQNQQRWQNSIRHSLSFNDCFV 182
KPPYSYI+LITMAI SP K LTLS I +FI + FP+YR+ WQNSIRH+LS NDCFV
Sbjct: 2 KPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCFV 61
Query: 183 KVPRTPDKPGKGSFWTLHKDSGNMFENGCYLRRQKR 218
K+PR P PGKG++WTL S +MF+NG +LRR+KR
Sbjct: 62 KIPREPGNPGKGNYWTLDPQSEDMFDNGSFLRRRKR 97
>pdb|2HFH|A Chain A, The Nmr Structures Of A Winged Helix Protein: Genesis, 20
Structures
Length = 109
Score = 124 bits (311), Expect = 9e-29, Method: Compositional matrix adjust.
Identities = 57/89 (64%), Positives = 68/89 (76%)
Query: 122 AKPPYSYISLITMAIQNSPTKMLTLSEIYQFIMDLFPFYRQNQQRWQNSIRHSLSFNDCF 181
KPPYSYI+LITMAI SP K LTLS I +FI + FP+YR+ WQNSIRH+LS NDCF
Sbjct: 2 VKPPYSYIALITMAILQSPQKKLTLSGICEFISNRFPYYREKFPAWQNSIRHNLSLNDCF 61
Query: 182 VKVPRTPDKPGKGSFWTLHKDSGNMFENG 210
VK+PR P PGKG++WTL S +MF+NG
Sbjct: 62 VKIPREPGNPGKGNYWTLDPQSEDMFDNG 90
>pdb|1KQ8|A Chain A, Solution Structure Of Winged Helix Protein Hfh-1
Length = 100
Score = 109 bits (272), Expect = 3e-24, Method: Composition-based stats.
Identities = 51/98 (52%), Positives = 71/98 (72%), Gaps = 1/98 (1%)
Query: 123 KPPYSYISLITMAIQNSPTKMLTLSEIYQFIMDLFPFYRQNQQRWQNSIRHSLSFNDCFV 182
KPPYSYI+LITMAI++S LTL+EI +++M FPF+R + W+NS+RH+LS NDCFV
Sbjct: 2 KPPYSYIALITMAIRDSAGGRLTLAEINEYLMGKFPFFRGSYTGWRNSVRHNLSLNDCFV 61
Query: 183 KVPRTPDKP-GKGSFWTLHKDSGNMFENGCYLRRQKRF 219
KV R P +P GK ++W L+ +S F +G + RR+ R
Sbjct: 62 KVLRDPSRPWGKDNYWMLNPNSEYTFADGVFRRRRYRL 99
>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 = 98.6 bits (244), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 46/99 (46%), Positives = 63/99 (63%)
Query: 120 THAKPPYSYISLITMAIQNSPTKMLTLSEIYQFIMDLFPFYRQNQQRWQNSIRHSLSFND 179
+ +KPPYSY LI AI +P K LTL+ IY I +P+YR + WQNSIRH+LS N
Sbjct: 13 SDSKPPYSYAQLIVQAITMAPDKQLTLNGIYTHITKNYPYYRTADKGWQNSIRHNLSLNR 72
Query: 180 CFVKVPRTPDKPGKGSFWTLHKDSGNMFENGCYLRRQKR 218
F+KVPR+ ++PGKGSFW + S + + +R+ R
Sbjct: 73 YFIKVPRSQEEPGKGSFWRIDPASESKLIEQAFRKRRPR 111
>pdb|1JXS|A Chain A, Solution Structure Of The Dna-Binding Domain Of
Interleukin Enhancer Binding Factor
Length = 98
Score = 97.4 bits (241), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 46/97 (47%), Positives = 62/97 (63%)
Query: 122 AKPPYSYISLITMAIQNSPTKMLTLSEIYQFIMDLFPFYRQNQQRWQNSIRHSLSFNDCF 181
+KPPYSY LI AI +P K LTL+ IY I +P+YR + WQNSIRH+LS N F
Sbjct: 2 SKPPYSYAQLIVQAITMAPDKQLTLNGIYTHITKNYPYYRTADKGWQNSIRHNLSLNRYF 61
Query: 182 VKVPRTPDKPGKGSFWTLHKDSGNMFENGCYLRRQKR 218
+KVPR+ ++PGKGSFW + S + + +R+ R
Sbjct: 62 IKVPRSQEEPGKGSFWRIDPASESKLIEQAFRKRRPR 98
>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 = 95.1 bits (235), Expect = 6e-20, Method: Composition-based stats.
Identities = 45/97 (46%), Positives = 62/97 (63%)
Query: 122 AKPPYSYISLITMAIQNSPTKMLTLSEIYQFIMDLFPFYRQNQQRWQNSIRHSLSFNDCF 181
+KPPYSY LI AI ++ + LTLS IY I +P+YR + WQNSIRH+LS N F
Sbjct: 2 SKPPYSYAQLIVQAISSAQDRQLTLSGIYAHITKHYPYYRTADKGWQNSIRHNLSLNRYF 61
Query: 182 VKVPRTPDKPGKGSFWTLHKDSGNMFENGCYLRRQKR 218
+KVPR+ ++PGKGSFW + S + +R++R
Sbjct: 62 IKVPRSQEEPGKGSFWRIDPASEAKLVEQAFRKRRQR 98
>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 = 80.1 bits (196), Expect = 2e-15, Method: Composition-based stats.
Identities = 34/77 (44%), Positives = 51/77 (66%), Gaps = 5/77 (6%)
Query: 123 KPPYSYISLITMAIQNSPTKMLTLSEIYQFIMDLFPFYRQNQQRWQNSIRHSLSFNDCFV 182
+PP++Y SLI AI SP K LTL+EIY + +FP++R+N W+N++RH+LS + FV
Sbjct: 4 RPPFTYASLIRQAILESPEKQLTLNEIYNWFTRMFPYFRRNAATWKNAVRHNLSLHKYFV 63
Query: 183 KVPRTPDKPGKGSFWTL 199
+V KG+ WT+
Sbjct: 64 RVENV-----KGAVWTV 75
>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 = 75.5 bits (184), Expect = 5e-14, Method: Composition-based stats.
Identities = 32/77 (41%), Positives = 50/77 (64%), Gaps = 5/77 (6%)
Query: 123 KPPYSYISLITMAIQNSPTKMLTLSEIYQFIMDLFPFYRQNQQRWQNSIRHSLSFNDCFV 182
+PP++Y +LI AI +P K TL+EIY + +F F+R + W+N+IRH+LS + CFV
Sbjct: 2 RPPFTYATLIRWAILEAPEKQRTLNEIYHWFTRMFAFFRNHPATWKNAIRHNLSLHKCFV 61
Query: 183 KVPRTPDKPGKGSFWTL 199
+V + KG+ WT+
Sbjct: 62 RV-----ESEKGAVWTV 73
>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 = 75.1 bits (183), Expect = 6e-14, Method: Composition-based stats.
Identities = 31/77 (40%), Positives = 49/77 (63%), Gaps = 5/77 (6%)
Query: 123 KPPYSYISLITMAIQNSPTKMLTLSEIYQFIMDLFPFYRQNQQRWQNSIRHSLSFNDCFV 182
+PP++Y +LI AI S + LTL+EIY + F ++R+N W+N++RH+LS + CFV
Sbjct: 3 RPPFTYATLIRQAIMESSDRQLTLNEIYSWFTRTFAYFRRNAATWKNAVRHNLSLHKCFV 62
Query: 183 KVPRTPDKPGKGSFWTL 199
+V KG+ WT+
Sbjct: 63 RVENV-----KGAVWTV 74
>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 = 73.6 bits (179), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 36/79 (45%), Positives = 53/79 (67%), Gaps = 4/79 (5%)
Query: 123 KPPYSYISLITMAIQNSPTKMLTLSEIYQFIMDLFPFYRQNQQR-WQNSIRHSLSFNDCF 181
+PPYSY+++I AI ++ K +TL +IY +I D FP+++ + W+NSIRH+LS +D F
Sbjct: 18 RPPYSYMAMIQFAINSTERKRMTLKDIYTWIEDHFPYFKHIAKPGWKNSIRHNLSLHDMF 77
Query: 182 VKVPRTPDKPGKGSFWTLH 200
V R GK SFWT+H
Sbjct: 78 V---RETSANGKVSFWTIH 93
>pdb|1E17|A Chain A, Solution Structure Of The Dna Binding Domain Of The Human
Forkhead Transcription Factor Afx (Foxo4)
Length = 150
Score = 67.4 bits (163), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 36/107 (33%), Positives = 63/107 (58%), Gaps = 10/107 (9%)
Query: 127 SYISLITMAIQNSPTKMLTLSEIYQFIMDLFPFYRQNQQR-----WQNSIRHSLSFNDCF 181
SY LI+ AI+++P K LTL++IY++++ P+++ W+NSIRH+LS + F
Sbjct: 44 SYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKF 103
Query: 182 VKVPRTPDKPGKGSFWTLHKDSGNMFENGCYLRRQKRFKDDKKEVIR 228
+KV + GK S+W L+ + G ++G RR+ D +++R
Sbjct: 104 IKVHN--EATGKSSWWMLNPEGG---KSGKAPRRRAASMDSSSKLLR 145
>pdb|2K86|A Chain A, Solution Structure Of Foxo3a Forkhead Domain
Length = 103
Score = 65.9 bits (159), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 33/83 (39%), Positives = 52/83 (62%), Gaps = 7/83 (8%)
Query: 127 SYISLITMAIQNSPTKMLTLSEIYQFIMDLFPFYRQNQQR-----WQNSIRHSLSFNDCF 181
SY LIT AI++SP K LTLS+IY++++ P+++ W+NSIRH+LS + F
Sbjct: 13 SYADLITRAIESSPDKRLTLSQIYEWMVRCVPYFKDKGDSNSSAGWKNSIRHNLSLHSRF 72
Query: 182 VKVPRTPDKPGKGSFWTLHKDSG 204
++V + GK S+W ++ D G
Sbjct: 73 MRV--QNEGTGKSSWWIINPDGG 93
>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 = 65.5 bits (158), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 33/83 (39%), Positives = 52/83 (62%), Gaps = 7/83 (8%)
Query: 127 SYISLITMAIQNSPTKMLTLSEIYQFIMDLFPFYRQNQQR-----WQNSIRHSLSFNDCF 181
SY LIT AI++SP K LTLS+IY++++ P+++ W+NSIRH+LS + F
Sbjct: 5 SYADLITRAIESSPDKRLTLSQIYEWMVRCVPYFKDKGDSNSSAGWKNSIRHNLSLHSRF 64
Query: 182 VKVPRTPDKPGKGSFWTLHKDSG 204
++V + GK S+W ++ D G
Sbjct: 65 MRVQN--EGTGKSSWWIINPDGG 85
>pdb|3L2C|A Chain A, Crystal Structure Of The Dna Binding Domain Of Foxo4 Bound
To Dna
Length = 110
Score = 65.1 bits (157), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 31/83 (37%), Positives = 52/83 (62%), Gaps = 7/83 (8%)
Query: 127 SYISLITMAIQNSPTKMLTLSEIYQFIMDLFPFYRQNQQR-----WQNSIRHSLSFNDCF 181
SY LI+ AI+++P K LTL++IY++++ P+++ W+NSIRH+LS + F
Sbjct: 28 SYAELISQAIESAPEKRLTLAQIYEWMVRTVPYFKDKGDSNSSAGWKNSIRHNLSLHSKF 87
Query: 182 VKVPRTPDKPGKGSFWTLHKDSG 204
+KV + GK S+W L+ + G
Sbjct: 88 IKVHN--EATGKSSWWMLNPEGG 108
>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 = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 32/83 (38%), Positives = 51/83 (61%), Gaps = 7/83 (8%)
Query: 127 SYISLITMAIQNSPTKMLTLSEIYQFIMDLFPFYRQNQQR-----WQNSIRHSLSFNDCF 181
SY LIT AI++S K LTLS+IY++++ P+++ W+NSIRH+LS + F
Sbjct: 15 SYADLITKAIESSAEKRLTLSQIYEWMVKSVPYFKDKGDSNSSAGWKNSIRHNLSLHSKF 74
Query: 182 VKVPRTPDKPGKGSFWTLHKDSG 204
++V + GK S+W L+ + G
Sbjct: 75 IRVQN--EGTGKSSWWMLNPEGG 95
>pdb|3CO6|C Chain C, Crystal Structure Of Foxo1 Dbd Bound To Dbe1 Dna
Length = 100
Score = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 32/83 (38%), Positives = 51/83 (61%), Gaps = 7/83 (8%)
Query: 127 SYISLITMAIQNSPTKMLTLSEIYQFIMDLFPFYRQNQQR-----WQNSIRHSLSFNDCF 181
SY LIT AI++S K LTLS+IY++++ P+++ W+NSIRH+LS + F
Sbjct: 15 SYADLITKAIESSAEKRLTLSQIYEWMVKSVPYFKDKGDSNSSAGWKNSIRHNLSLHSKF 74
Query: 182 VKVPRTPDKPGKGSFWTLHKDSG 204
++V + GK S+W L+ + G
Sbjct: 75 IRVQN--EGTGKSSWWMLNPEGG 95
>pdb|3RBB|A Chain A, Hiv-1 Nef Protein In Complex With Engineered Hck Sh3
Domain
pdb|3RBB|C Chain C, Hiv-1 Nef Protein In Complex With Engineered Hck Sh3
Domain
pdb|3REA|A Chain A, Hiv-1 Nef Protein In Complex With Engineered Hck-Sh3
Domain
pdb|3REA|C Chain C, Hiv-1 Nef Protein In Complex With Engineered Hck-Sh3
Domain
pdb|3REB|A Chain A, Hiv-1 Nef Protein In Complex With Engineered Hck-Sh3
Domain
pdb|3REB|C Chain C, Hiv-1 Nef Protein In Complex With Engineered Hck-Sh3
Domain
Length = 166
Score = 33.5 bits (75), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 28/53 (52%), Gaps = 6/53 (11%)
Query: 144 LTLSEIYQFIMDLFPFYRQNQ-QRWQN-----SIRHSLSFNDCFVKVPRTPDK 190
L S+ Q I+DL+ ++ Q WQN IR+ L+F CF VP P+K
Sbjct: 60 LIWSQRRQEILDLWIYHTQGYFPDWQNYTPGPGIRYPLTFGWCFKLVPVEPEK 112
>pdb|3TB8|A Chain A, Crystal Structure Of Full-Length Myristoylated Hiv-1 Nef
Length = 206
Score = 32.3 bits (72), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 28/53 (52%), Gaps = 6/53 (11%)
Query: 144 LTLSEIYQFIMDLFPFYRQNQ-QRWQN-----SIRHSLSFNDCFVKVPRTPDK 190
L S+ Q I+DL+ ++ Q WQN IR+ L+F C+ VP PDK
Sbjct: 100 LIHSQRRQDILDLWIYHTQGYFPDWQNYTPGPGIRYPLTFGWCYKLVPVEPDK 152
>pdb|4EN2|B Chain B, Hiv-1 Nef In Complex With Mhc-I Cytoplasmic Domain And Mu1
Adaptin Subunit Of Ap1 Adaptor (Second Domain)
pdb|4EN2|C Chain C, Hiv-1 Nef In Complex With Mhc-I Cytoplasmic Domain And Mu1
Adaptin Subunit Of Ap1 Adaptor (Second Domain)
Length = 206
Score = 32.0 bits (71), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 6/53 (11%)
Query: 144 LTLSEIYQFIMDLFPFYRQNQ-QRWQN-----SIRHSLSFNDCFVKVPRTPDK 190
L S+ Q I+DL+ ++ Q WQN +R+ L+F C+ VP PDK
Sbjct: 100 LIHSQRRQDILDLWIYHTQGYFPDWQNYTPGPGVRYPLTFGWCYKLVPVEPDK 152
>pdb|4EMZ|C Chain C, Hiv-1 Nef In Complex With Mhc-I Cytoplasmic Domain And Mu1
Adaptin Subunit Of Ap1 Adaptor (Second Domain)
pdb|4EMZ|B Chain B, Hiv-1 Nef In Complex With Mhc-I Cytoplasmic Domain And Mu1
Adaptin Subunit Of Ap1 Adaptor (Second Domain)
Length = 206
Score = 31.6 bits (70), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 6/53 (11%)
Query: 144 LTLSEIYQFIMDLFPFYRQNQ-QRWQN-----SIRHSLSFNDCFVKVPRTPDK 190
L S+ Q I+DL+ ++ Q WQN +R+ L+F C+ VP PDK
Sbjct: 100 LIHSQRRQDILDLWIYHTQGYFPDWQNYTPGPGVRYPLTFGWCYKLVPVEPDK 152
>pdb|1AVZ|A Chain A, V-1 Nef Protein In Complex With Wild Type Fyn Sh3 Domain
pdb|1AVZ|B Chain B, V-1 Nef Protein In Complex With Wild Type Fyn Sh3 Domain
pdb|1AVV|A Chain A, Hiv-1 Nef Protein, Unliganded Core Domain
pdb|4D8D|B Chain B, Crystal Structure Of Hiv-1 Nef Fyn-sh3 R96w Variant
pdb|4D8D|D Chain D, Crystal Structure Of Hiv-1 Nef Fyn-sh3 R96w Variant
Length = 151
Score = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 6/53 (11%)
Query: 144 LTLSEIYQFIMDLFPFYRQNQ-QRWQN-----SIRHSLSFNDCFVKVPRTPDK 190
L S+ Q I+DL+ ++ Q WQN +R+ L+F C+ VP PDK
Sbjct: 45 LIHSQRRQDILDLWIYHTQGYFPDWQNYTPGPGVRYPLTFGWCYKLVPVEPDK 97
>pdb|1EFN|B Chain B, Hiv-1 Nef Protein In Complex With R96i Mutant Fyn Sh3
Domain
pdb|1EFN|D Chain D, Hiv-1 Nef Protein In Complex With R96i Mutant Fyn Sh3
Domain
Length = 152
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 6/53 (11%)
Query: 144 LTLSEIYQFIMDLFPFYRQNQ-QRWQN-----SIRHSLSFNDCFVKVPRTPDK 190
L S+ Q I+DL+ ++ Q WQN +R+ L+F C+ VP PDK
Sbjct: 47 LIHSQRRQDILDLWIYHTQGYFPDWQNYTPGPGVRYPLTFGWCYKLVPVEPDK 99
>pdb|2NEF|A Chain A, Hiv-1 Nef (Regulatory Factor), Nmr, 40 Structures
Length = 136
Score = 29.6 bits (65), Expect = 3.4, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 28/53 (52%), Gaps = 6/53 (11%)
Query: 144 LTLSEIYQFIMDLFPFYRQNQ-QRWQN-----SIRHSLSFNDCFVKVPRTPDK 190
L S+ Q I+DL+ ++ Q WQN IR+ L+F C+ VP P+K
Sbjct: 45 LIHSQRRQDILDLWIYHTQGYFPDWQNYTPGPGIRYPLTFGWCYKLVPVEPEK 97
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
0.315 0.129 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,373,240
Number of Sequences: 62578
Number of extensions: 430718
Number of successful extensions: 729
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 701
Number of HSP's gapped (non-prelim): 30
length of query: 417
length of database: 14,973,337
effective HSP length: 101
effective length of query: 316
effective length of database: 8,652,959
effective search space: 2734335044
effective search space used: 2734335044
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: 53 (25.0 bits)