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= 022713
(293 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1NK2|P Chain P, VndNK-2 HomeodomainDNA COMPLEX, NMR, 20 STRUCTURES
pdb|1NK3|P Chain P, VndNK-2 HomeodomainDNA COMPLEX, NMR, MINIMIZED AVERAGE
Structure
pdb|1VND|A Chain A, VndNK-2 Protein (Homeodomain), Nmr
Length = 77
Score = 48.5 bits (114), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 28/72 (38%), Positives = 41/72 (56%), Gaps = 3/72 (4%)
Query: 143 DGVNARKKLR---LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRA 199
DG+ +K+ R TK Q+ LE F+Q L+ +++ LA + L P QV++WFQN R
Sbjct: 3 DGLPNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRY 62
Query: 200 RTKLKQTEVDCE 211
+TK Q E E
Sbjct: 63 KTKRAQNEKGYE 74
>pdb|1MH3|A Chain A, Maltose Binding-A1 Homeodomain Protein Chimera, Crystal
Form I
pdb|1MH4|A Chain A, Maltose Binding-A1 Homeodomain Protein Chimera, Crystal
Form Ii
Length = 421
Score = 47.8 bits (112), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 34/50 (68%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
++ + A LE+ F++ +LN K+K+ +A++ + P QV VWF N+R R+K
Sbjct: 372 ISPQARAFLEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 421
>pdb|1QRY|A Chain A, Homeobox Protein Vnd (Ventral Nervous System Defective
Protein)
Length = 80
Score = 47.4 bits (111), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 40/72 (55%), Gaps = 3/72 (4%)
Query: 143 DGVNARKKLR---LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRA 199
DG+ +K+ R TK Q+ LE F+Q L+ +++ L + L P QV++WFQN R
Sbjct: 6 DGLPNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLTSLIRLTPTQVKIWFQNHRY 65
Query: 200 RTKLKQTEVDCE 211
+TK Q E E
Sbjct: 66 KTKRAQNEKGYE 77
>pdb|2E1O|A Chain A, Solution Structure Of Rsgi Ruh-028, A Homeobox Domain From
Human Cdna
Length = 70
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 36/53 (67%)
Query: 150 KLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
++R + +Q+ LE+ F+ L+P +++ LA+ L L RQV+ WFQNRRA+ +
Sbjct: 11 QVRFSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRAKWR 63
>pdb|1LE8|A Chain A, Crystal Structure Of The Mata1MATALPHA2-3a Heterodimer
Bound To Dna Complex
Length = 53
Score = 46.2 bits (108), Expect = 2e-05, Method: Composition-based stats.
Identities = 20/53 (37%), Positives = 35/53 (66%)
Query: 150 KLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
K ++ + A LE+ F++ +LN K+K+ +A++ + P QV VWF N+R R+K
Sbjct: 1 KSSISPQARAFLEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 53
>pdb|1AKH|A Chain A, Mat A1ALPHA2DNA TERNARY COMPLEX
Length = 61
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 31/44 (70%)
Query: 159 ALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
A LEE F++ +LN K+K+ +A++ + P QV VWF N+R R+K
Sbjct: 18 AFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 61
>pdb|2LP0|A Chain A, The Solution Structure Of Homeodomain-Protein Complex
Length = 60
Score = 46.2 bits (108), Expect = 2e-05, Method: Composition-based stats.
Identities = 23/55 (41%), Positives = 34/55 (61%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
+K+ TK Q+ LE+ F + L ++ +AR LNL RQV++WFQNRR + K
Sbjct: 3 KKRCPYTKYQTLELEKEFLFNMYLTRDRRYEVARVLNLTERQVKIWFQNRRMKMK 57
>pdb|1PUF|A Chain A, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound To
Dna
Length = 77
Score = 45.8 bits (107), Expect = 3e-05, Method: Composition-based stats.
Identities = 23/55 (41%), Positives = 34/55 (61%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
+K+ TK Q+ LE+ F + L ++ +AR LNL RQV++WFQNRR + K
Sbjct: 15 KKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQNRRMKMK 69
>pdb|1B8I|A Chain A, Structure Of The Homeotic UbxEXDDNA TERNARY COMPLEX
Length = 81
Score = 45.1 bits (105), Expect = 5e-05, Method: Composition-based stats.
Identities = 20/60 (33%), Positives = 36/60 (60%)
Query: 143 DGVNARKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
+G+ R + T+ Q+ LE+ F + L +++ +A L+L RQ+++WFQNRR + K
Sbjct: 17 NGLRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQIKIWFQNRRMKLK 76
>pdb|1YRN|A Chain A, Crystal Structure Of The Mata1MATALPHA2 HOMEODOMAIN
Heterodimer Bound To Dna
pdb|1F43|A Chain A, Solution Structure Of The Mata1 Homeodomain
Length = 61
Score = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 31/44 (70%)
Query: 159 ALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
A LE+ F++ +LN K+K+ +A++ + P QV VWF N+R R+K
Sbjct: 18 AFLEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 61
>pdb|1FTT|A Chain A, Thyroid Transcription Factor 1 Homeodomain (Rattus
Norvegicus)
Length = 68
Score = 44.7 bits (104), Expect = 6e-05, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 34/55 (61%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
++++ ++ Q LE FKQ L+ +++ LA ++L P QV++WFQN R + K
Sbjct: 4 KRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKMK 58
>pdb|2R5Y|A Chain A, Structure Of ScrEXD COMPLEX BOUND TO A CONSENSUS HOX-Exd
Site
pdb|2R5Z|A Chain A, Structure Of ScrEXD COMPLEX BOUND TO A DNA SEQUENCE
Derived From The Fkh Gene
Length = 88
Score = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 21/65 (32%), Positives = 38/65 (58%)
Query: 138 SDEDEDGVNARKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNR 197
S + +G R++ T+ Q+ LE+ F + L +++ +A L+L RQ+++WFQNR
Sbjct: 20 STVNANGETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNR 79
Query: 198 RARTK 202
R + K
Sbjct: 80 RMKWK 84
>pdb|3RKQ|A Chain A, Nkx2.5 Homeodomain Dimer Bound To Anf-242 Dna
pdb|3RKQ|B Chain B, Nkx2.5 Homeodomain Dimer Bound To Anf-242 Dna
Length = 58
Score = 43.1 bits (100), Expect = 2e-04, Method: Composition-based stats.
Identities = 23/58 (39%), Positives = 34/58 (58%), Gaps = 2/58 (3%)
Query: 147 ARKKLRLTKEQSAL--LEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
R+K R+ Q+ + LE FKQ L+ ++ LA L L QV++WFQNRR ++K
Sbjct: 1 GRRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNRRYKSK 58
>pdb|2K40|A Chain A, Nmr Structure Of Hesx-1 Homeodomain Double Mutant R31lE42L
Length = 67
Score = 42.7 bits (99), Expect = 2e-04, Method: Composition-based stats.
Identities = 23/66 (34%), Positives = 39/66 (59%), Gaps = 2/66 (3%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTKLKQTE 207
R + T+ Q +LE F+ + + LA++LNL ++++WFQNRRA KLK++
Sbjct: 3 RPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNRRA--KLKRSH 60
Query: 208 VDCEFL 213
+ +FL
Sbjct: 61 RESQFL 66
>pdb|2H1K|A Chain A, Crystal Structure Of The Pdx1 Homeodomain In Complex With
Dna
pdb|2H1K|B Chain B, Crystal Structure Of The Pdx1 Homeodomain In Complex With
Dna
Length = 63
Score = 42.7 bits (99), Expect = 3e-04, Method: Composition-based stats.
Identities = 21/62 (33%), Positives = 35/62 (56%)
Query: 144 GVNARKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTKL 203
G N R + T+ Q LE+ F + ++ ++ LA LNL R +++WFQNRR + K
Sbjct: 1 GSNKRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNRRMKWKK 60
Query: 204 KQ 205
++
Sbjct: 61 EE 62
>pdb|1FTZ|A Chain A, Nuclear Magnetic Resonance Solution Structure Of The Fushi
Tarazu Homeodomain From Drosophila And Comparison With
The Antennapedia Homeodomain
Length = 70
Score = 41.6 bits (96), Expect = 5e-04, Method: Composition-based stats.
Identities = 19/59 (32%), Positives = 36/59 (61%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTKLKQT 206
R + T+ Q+ LE+ F + + +++ +A L+L RQ+++WFQNRR ++K +T
Sbjct: 5 RTRQTYTRYQTLELEKEFHFNRYITRRRRIDIANALSLSERQIKIWFQNRRMKSKKDRT 63
>pdb|2VI6|A Chain A, Crystal Structure Of The Nanog Homeodomain
pdb|2VI6|B Chain B, Crystal Structure Of The Nanog Homeodomain
pdb|2VI6|C Chain C, Crystal Structure Of The Nanog Homeodomain
pdb|2VI6|D Chain D, Crystal Structure Of The Nanog Homeodomain
pdb|2VI6|E Chain E, Crystal Structure Of The Nanog Homeodomain
pdb|2VI6|F Chain F, Crystal Structure Of The Nanog Homeodomain
pdb|2VI6|G Chain G, Crystal Structure Of The Nanog Homeodomain
pdb|2VI6|H Chain H, Crystal Structure Of The Nanog Homeodomain
Length = 62
Score = 41.6 bits (96), Expect = 6e-04, Method: Composition-based stats.
Identities = 22/60 (36%), Positives = 37/60 (61%), Gaps = 2/60 (3%)
Query: 148 RKKLRLTKEQSAL--LEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTKLKQ 205
++K+R Q+ L L++ F++ L+ +Q Q L+ LNL +QV+ WFQN+R + K Q
Sbjct: 3 KQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRMKCKRWQ 62
>pdb|2DMU|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Goosecoid
Length = 70
Score = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 32/50 (64%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
T EQ LE F++ + ++ LAR+++LR +VEVWF+NRRA+ +
Sbjct: 14 FTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNRRAKWR 63
>pdb|2L9R|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Homeobox
Protein Nkx-3.1 From Homo Sapiens, Northeast Structural
Genomics Consortium Target Hr6470a
Length = 69
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 27/45 (60%)
Query: 161 LEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTKLKQ 205
LE F L+ ++ LA+ L L QV++WFQNRR +TK KQ
Sbjct: 19 LERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRKQ 63
>pdb|9ANT|A Chain A, Antennapedia Homeodomain-Dna Complex
pdb|9ANT|B Chain B, Antennapedia Homeodomain-Dna Complex
Length = 62
Score = 41.2 bits (95), Expect = 8e-04, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 33/55 (60%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
R + T+ Q+ LE+ F + L +++ +A L+L RQ+++WFQNRR + K
Sbjct: 5 RGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWK 59
>pdb|1AHD|P Chain P, Determination Of The Nmr Solution Structure Of An
Antennapedia Homeodomain-Dna Complex
pdb|2HOA|A Chain A, Structure Determination Of The Antp(C39->s) Homeodomain
From Nuclear Magnetic Resonance Data In Solution Using A
Novel Strategy For The Structure Calculation With The
Programs Diana, Caliba, Habas And Glomsa
Length = 68
Score = 40.0 bits (92), Expect = 0.001, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 33/55 (60%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
R + T+ Q+ LE+ F + L +++ +A L+L RQ+++WFQNRR + K
Sbjct: 4 RGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWK 58
>pdb|1HDD|C Chain C, Crystal Structure Of An Engrailed Homeodomain-Dna Complex
At 2.8 Angstroms Resolution: A Framework For
Understanding Homeodomain-Dna Interactions
pdb|1HDD|D Chain D, Crystal Structure Of An Engrailed Homeodomain-Dna Complex
At 2.8 Angstroms Resolution: A Framework For
Understanding Homeodomain-Dna Interactions
pdb|2JWT|A Chain A, Solution Structure Of Engrailed Homeodomain Wt
Length = 61
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 32/50 (64%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
+ EQ A L+ F ++ L +++Q L+ +L L Q+++WFQN+RA+ K
Sbjct: 10 FSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAKIK 59
>pdb|1SAN|A Chain A, The Des(1-6)antennapedia Homeodomain: Comparison Of The
Nmr Solution Structure And The Dna Binding Affinity With
The Intact Antennapedia Homeodomain
Length = 62
Score = 40.0 bits (92), Expect = 0.001, Method: Composition-based stats.
Identities = 18/49 (36%), Positives = 31/49 (63%)
Query: 154 TKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
T+ Q+ LE+ F + L +++ +A L+L RQ+++WFQNRR + K
Sbjct: 4 TRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWK 52
>pdb|3HDD|A Chain A, Engrailed Homeodomain Dna Complex
pdb|3HDD|B Chain B, Engrailed Homeodomain Dna Complex
Length = 60
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 32/50 (64%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
+ EQ A L+ F ++ L +++Q L+ +L L Q+++WFQN+RA+ K
Sbjct: 8 FSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAKIK 57
>pdb|2M34|A Chain A, Nmr Structure Of The Homeodomain Transcription Factor Gbx1
From Homo Sapiens
Length = 71
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 33/59 (55%)
Query: 144 GVNARKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
G + R++ T EQ LE+ F L+ ++ +A L L QV++WFQNRRA+ K
Sbjct: 5 GKSRRRRTAFTSEQLLELEKEFHCKKYLSLTERSQIAHALKLSEVQVKIWFQNRRAKWK 63
>pdb|2L7Z|A Chain A, Nmr Structure Of A13 Homedomain
Length = 73
Score = 39.7 bits (91), Expect = 0.002, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 31/55 (56%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
+K++ TK Q LE + + + +++ ++ NL RQV +WFQNRR + K
Sbjct: 9 KKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEK 63
>pdb|2LD5|A Chain A, Solution Nmr-Derived Complex Structure Of Hoxa13 Dna
Binding Domain Bound To Dna
Length = 67
Score = 39.3 bits (90), Expect = 0.002, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 31/55 (56%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
+K++ TK Q LE + + + +++ ++ NL RQV +WFQNRR + K
Sbjct: 3 KKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEK 57
>pdb|1HOM|A Chain A, Determination Of The Three-Dimensional Structure Of The
Antennapedia Homeodomain From Drosophila In Solution By
1h Nuclear Magnetic Resonance Spectroscopy
Length = 68
Score = 39.3 bits (90), Expect = 0.003, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 32/55 (58%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
R + T+ Q+ LE+ F + L +++ +A L L RQ+++WFQNRR + K
Sbjct: 4 RGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWK 58
>pdb|1ZQ3|P Chain P, Nmr Solution Structure Of The Bicoid Homeodomain Bound To
The Consensus Dna Binding Site Taatcc
Length = 68
Score = 39.3 bits (90), Expect = 0.003, Method: Composition-based stats.
Identities = 21/60 (35%), Positives = 32/60 (53%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTKLKQTE 207
R + T Q A LE+ F Q L + L+ +L L QV++WF+NRR R K++ +
Sbjct: 4 RTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRRHKIQSDQ 63
>pdb|1P7J|A Chain A, Crystal Structure Of Engrailed Homeodomain Mutant K52e
pdb|1P7J|B Chain B, Crystal Structure Of Engrailed Homeodomain Mutant K52e
pdb|1P7J|C Chain C, Crystal Structure Of Engrailed Homeodomain Mutant K52e
pdb|1P7J|D Chain D, Crystal Structure Of Engrailed Homeodomain Mutant K52e
Length = 59
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 31/50 (62%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
+ EQ A L+ F ++ L +++Q L+ +L L Q+++WFQN RA+ K
Sbjct: 8 FSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNERAKIK 57
>pdb|3A01|A Chain A, Crystal Structure Of Aristaless And Clawless Homeodomains
Bo
pdb|3A01|E Chain E, Crystal Structure Of Aristaless And Clawless Homeodomains
Bo
Length = 93
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 41/75 (54%), Gaps = 3/75 (4%)
Query: 148 RKKLR--LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTKLKQ 205
RKK R T+ Q A LE+ F + L ++ ALAR L + QV+ WFQNRR + + +Q
Sbjct: 17 RKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQVKTWFQNRRTKWR-RQ 75
Query: 206 TEVDCEFLKKCCETL 220
T + E ++ L
Sbjct: 76 TAEEREAERQAANRL 90
>pdb|2HDD|A Chain A, Engrailed Homeodomain Q50k Variant Dna Complex
pdb|2HDD|B Chain B, Engrailed Homeodomain Q50k Variant Dna Complex
Length = 61
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 32/50 (64%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
+ EQ A L+ F ++ L +++Q L+ +L L Q+++WF+N+RA+ K
Sbjct: 10 FSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKNKRAKIK 59
>pdb|1FJL|A Chain A, Homeodomain From The Drosophila Paired Protein Bound To A
Dna Oligonucleotide
pdb|1FJL|B Chain B, Homeodomain From The Drosophila Paired Protein Bound To A
Dna Oligonucleotide
pdb|1FJL|C Chain C, Homeodomain From The Drosophila Paired Protein Bound To A
Dna Oligonucleotide
Length = 81
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 24/74 (32%), Positives = 42/74 (56%), Gaps = 5/74 (6%)
Query: 140 EDEDGVNARKKLRLTK-----EQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWF 194
E E G+ ++K R ++ Q LE +F++ + ++ LA++ NL +++VWF
Sbjct: 7 ESEPGIALKRKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQVWF 66
Query: 195 QNRRARTKLKQTEV 208
QNRRAR + + T V
Sbjct: 67 QNRRARLRKQHTSV 80
>pdb|1ENH|A Chain A, Structural Studies Of The Engrailed Homeodomain
Length = 54
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 31/48 (64%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+ EQ A L+ F ++ L +++Q L+ +L L Q+++WFQN+RA+
Sbjct: 6 FSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAK 53
>pdb|1P7I|A Chain A, Crystal Structure Of Engrailed Homeodomain Mutant K52a
pdb|1P7I|B Chain B, Crystal Structure Of Engrailed Homeodomain Mutant K52a
pdb|1P7I|C Chain C, Crystal Structure Of Engrailed Homeodomain Mutant K52a
pdb|1P7I|D Chain D, Crystal Structure Of Engrailed Homeodomain Mutant K52a
Length = 59
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 31/50 (62%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
+ EQ A L+ F ++ L +++Q L+ +L L Q+++WFQN RA+ K
Sbjct: 8 FSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNARAKIK 57
>pdb|2L7M|P Chain P, Solution Structure Of The Pitx2 Homeodomain R24h Mutant
Length = 68
Score = 38.5 bits (88), Expect = 0.005, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 35/62 (56%)
Query: 144 GVNARKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTKL 203
G R++ T +Q LE +F+++ + ++ +A NL +V VWF+NRRA+ +
Sbjct: 1 GSQRRQRTHFTSQQLQELEATFQRNHYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRK 60
Query: 204 KQ 205
++
Sbjct: 61 RE 62
>pdb|2L7F|P Chain P, Solution Structure Of The Pitx2 Homeodomain
pdb|2LKX|A Chain A, Nmr Structure Of The Homeodomain Of Pitx2 In Complex With
A Taatcc Dna Binding Site
Length = 68
Score = 38.1 bits (87), Expect = 0.005, Method: Composition-based stats.
Identities = 18/62 (29%), Positives = 35/62 (56%)
Query: 144 GVNARKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTKL 203
G R++ T +Q LE +F+++ + ++ +A NL +V VWF+NRRA+ +
Sbjct: 1 GSQRRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRK 60
Query: 204 KQ 205
++
Sbjct: 61 RE 62
>pdb|1AU7|A Chain A, Pit-1 MutantDNA COMPLEX
pdb|1AU7|B Chain B, Pit-1 MutantDNA COMPLEX
Length = 146
Score = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 32/62 (51%), Gaps = 3/62 (4%)
Query: 144 GVNARKKLRLTKEQSAL---LEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
G N RK+ R T A LE F +HS + ++ +A +LNL V VWF NRR R
Sbjct: 82 GANERKRKRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKEVVRVWFCNRRQR 141
Query: 201 TK 202
K
Sbjct: 142 EK 143
>pdb|2KT0|A Chain A, Solution Structure Of Human Stem Cell Transcription Factor
Nanog Homeodomain Fragment
Length = 84
Score = 37.7 bits (86), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 39/67 (58%), Gaps = 1/67 (1%)
Query: 137 ASDEDEDGVNARK-KLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQ 195
A ED+ V +K + + Q +L + F++ L+ +Q Q L+ LNL +QV+ WFQ
Sbjct: 12 AKKEDKVPVKKQKTRTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQVKTWFQ 71
Query: 196 NRRARTK 202
N+R ++K
Sbjct: 72 NQRMKSK 78
>pdb|1DU0|A Chain A, Engrailed Homeodomain Q50a Variant Dna Complex
pdb|1DU0|B Chain B, Engrailed Homeodomain Q50a Variant Dna Complex
Length = 57
Score = 37.7 bits (86), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 31/50 (62%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
+ EQ A L+ F ++ L +++Q L+ +L L Q+++WF N+RA+ K
Sbjct: 6 FSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFANKRAKIK 55
>pdb|1IG7|A Chain A, Msx-1 HomeodomainDNA COMPLEX STRUCTURE
Length = 58
Score = 37.4 bits (85), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 28/50 (56%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
T Q LE F+Q L+ ++ + L+L QV++WFQNRRA+ K
Sbjct: 7 FTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQNRRAKAK 56
>pdb|3A03|A Chain A, Crystal Structure Of Hox11l1 Homeodomain
Length = 56
Score = 37.4 bits (85), Expect = 0.011, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 26/48 (54%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
++ Q LE F + L ++ ALA+ L + QV+ WFQNRR +
Sbjct: 4 FSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVKTWFQNRRTK 51
>pdb|1ZTR|A Chain A, Solution Structure Of Engrailed Homeodomain L16a Mutant
Length = 61
Score = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 31/50 (62%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
+ EQ A + F ++ L +++Q L+ +L L Q+++WFQN+RA+ +
Sbjct: 10 FSSEQLARAKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAKIR 59
>pdb|3CMY|A Chain A, Structure Of A Homeodomain In Complex With Dna
Length = 61
Score = 37.0 bits (84), Expect = 0.014, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 30/53 (56%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
R + T EQ LE +F++ + ++ LA++ L +V+VWF NRRAR
Sbjct: 4 RSRTTFTAEQLEELERAFERTHYPDIYTREELAQRAKLTEARVQVWFSNRRAR 56
>pdb|2P81|A Chain A, Engrailed Homeodomain Helix-Turn-Helix Motif
Length = 44
Score = 36.6 bits (83), Expect = 0.015, Method: Composition-based stats.
Identities = 14/41 (34%), Positives = 27/41 (65%)
Query: 162 EESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
+ F ++ L +++Q L+ +L L Q+++WFQN+RA+ K
Sbjct: 2 KREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAKIK 42
>pdb|2M0C|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Human Alx4,
Northeast Structural Genomics Consortium (Nesg) Target
Hr4490c
Length = 75
Score = 36.2 bits (82), Expect = 0.021, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 34/62 (54%)
Query: 144 GVNARKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTKL 203
G R + T Q LE+ F++ + ++ LA + +L +V+VWFQNRRA+ +
Sbjct: 7 GKKRRNRTTFTSYQLEELEKVFQKTHYPDVYAREQLAMRTDLTEARVQVWFQNRRAKWRK 66
Query: 204 KQ 205
++
Sbjct: 67 RE 68
>pdb|1JGG|A Chain A, Even-Skipped Homeodomain Complexed To At-Rich Dna
pdb|1JGG|B Chain B, Even-Skipped Homeodomain Complexed To At-Rich Dna
Length = 60
Score = 36.2 bits (82), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 31/50 (62%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
T++Q LE+ F + + ++ ++ LA QLNL ++VWFQNRR + K
Sbjct: 8 FTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMKDK 57
>pdb|2HOS|A Chain A, Phage-selected Homeodomain Bound To Unmodified Dna
pdb|2HOS|B Chain B, Phage-selected Homeodomain Bound To Unmodified Dna
pdb|2HOT|A Chain A, Phage Selected Homeodomain Bound To Modified Dna
pdb|2HOT|B Chain B, Phage Selected Homeodomain Bound To Modified Dna
Length = 63
Score = 35.8 bits (81), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 30/50 (60%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
+ EQ A L+ F ++ L +++Q L+ +L L QV+ WF+N RA+ K
Sbjct: 11 FSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQVKGWFKNMRAKIK 60
>pdb|3LNQ|A Chain A, Structure Of Aristaless Homeodomain In Complex With Dna
Length = 58
Score = 35.4 bits (80), Expect = 0.038, Method: Composition-based stats.
Identities = 17/58 (29%), Positives = 33/58 (56%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTKLKQ 205
R + T Q LE++F + + ++ LA ++ L +++VWFQNRRA+ + ++
Sbjct: 1 RYRTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQE 58
>pdb|2DA3|A Chain A, Solution Structure Of The Third Homeobox Domain Of At-
Binding Transcription Factor 1 (Atbf1)
Length = 80
Score = 35.4 bits (80), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 32/56 (57%), Gaps = 2/56 (3%)
Query: 149 KKLR--LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
K+LR +T EQ +L + + S K +A ++ L+ R V+VWFQN RAR +
Sbjct: 18 KRLRTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQVWFQNTRARER 73
>pdb|3A02|A Chain A, Crystal Structure Of Aristaless Homeodomain
Length = 60
Score = 35.0 bits (79), Expect = 0.043, Method: Composition-based stats.
Identities = 19/58 (32%), Positives = 34/58 (58%), Gaps = 1/58 (1%)
Query: 151 LRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTKLKQTEV 208
+ T Q LE++F + + ++ LA ++ L +++VWFQNRRA+ + KQ +V
Sbjct: 4 MTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWR-KQEKV 60
>pdb|2CRA|A Chain A, Solution Structure Of The Homeobox Domain Of Human Homeo
Box B13
Length = 70
Score = 35.0 bits (79), Expect = 0.047, Method: Composition-based stats.
Identities = 15/55 (27%), Positives = 31/55 (56%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
+K++ +K Q LE + + + +++ ++ +L RQ+ +WFQNRR + K
Sbjct: 9 KKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNRRVKEK 63
>pdb|3A01|B Chain B, Crystal Structure Of Aristaless And Clawless Homeodomains
Bo
pdb|3A01|F Chain F, Crystal Structure Of Aristaless And Clawless Homeodomains
Bo
Length = 67
Score = 35.0 bits (79), Expect = 0.049, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 35/61 (57%), Gaps = 1/61 (1%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTKLKQTE 207
R + T Q LE++F + + ++ LA ++ L +++VWFQNRRA+ + KQ +
Sbjct: 8 RYRTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWR-KQEK 66
Query: 208 V 208
V
Sbjct: 67 V 67
>pdb|1B72|A Chain A, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 97
Score = 35.0 bits (79), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 30/55 (54%)
Query: 153 LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTKLKQTE 207
T Q LE+ F + L+ ++ +A L L QV++WFQNRR + K ++ E
Sbjct: 41 FTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQVKIWFQNRRMKQKKRERE 95
>pdb|1E3O|C Chain C, Crystal Structure Of Oct-1 Pou Dimer Bound To More
Length = 160
Score = 34.7 bits (78), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 143 DGVNARKKLRLTKEQS--ALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+G++ R+K R + E + LE+SF ++ + +A QLN+ + VWF NRR +
Sbjct: 96 EGLSRRRKKRTSIETNIRVALEKSFMENQKPTSEDITLIAEQLNMEKEVIRVWFSNRRQK 155
Query: 201 TK 202
K
Sbjct: 156 EK 157
>pdb|1HF0|A Chain A, Crystal Structure Of The Dna-Binding Domain Of Oct-1 Bound
To Dna As A Dimer
pdb|1HF0|B Chain B, Crystal Structure Of The Dna-Binding Domain Of Oct-1 Bound
To Dna As A Dimer
pdb|1GT0|C Chain C, Crystal Structure Of A PouHMGDNA TERNARY COMPLEX
Length = 159
Score = 34.7 bits (78), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 143 DGVNARKKLRLTKEQS--ALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+G++ R+K R + E + LE+SF ++ ++ +A QLN+ + VWF NRR +
Sbjct: 95 EGLSRRRKKRTSIETNIRVALEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFSNRRQK 154
Query: 201 TK 202
K
Sbjct: 155 EK 156
>pdb|2DMS|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Otx2
Length = 80
Score = 34.7 bits (78), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 33/55 (60%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
R++ T+ Q +LE F + + ++ +A ++NL +V+VWF+NRRA+ +
Sbjct: 9 RERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKCR 63
>pdb|2DJN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Dlx-5
Length = 70
Score = 34.7 bits (78), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 27/46 (58%)
Query: 157 QSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
Q A L+ F++ L ++ LA L L QV++WFQN+R++ K
Sbjct: 18 QLAALQRRFQKTQYLALPERAELAASLGLTQTQVKIWFQNKRSKIK 63
>pdb|1B8I|B Chain B, Structure Of The Homeotic UbxEXDDNA TERNARY COMPLEX
pdb|2R5Y|B Chain B, Structure Of ScrEXD COMPLEX BOUND TO A CONSENSUS HOX-Exd
Site
pdb|2R5Z|B Chain B, Structure Of ScrEXD COMPLEX BOUND TO A DNA SEQUENCE
Derived From The Fkh Gene
Length = 63
Score = 34.7 bits (78), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 32/59 (54%), Gaps = 5/59 (8%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNP----KQKQALARQLNLRPRQVEVWFQNRRARTK 202
RK+ +K+ S +L E F H + NP + K+ LAR+ + QV WF N+R R K
Sbjct: 3 RKRRNFSKQASEILNEYFYSHLS-NPYPSEEAKEELARKCGITVSQVSNWFGNKRIRYK 60
>pdb|1O4X|A Chain A, Ternary Complex Of The Dna Binding Domains Of The Oct1 And
Sox2 Transcription Factors With A 19mer Oligonucleotide
From The Hoxb1 Regulatory Element
Length = 167
Score = 34.3 bits (77), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 143 DGVNARKKLRLTKEQS--ALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+G++ R+K R + E + LE+SF ++ ++ +A QLN+ + VWF NRR +
Sbjct: 99 EGLSERRKKRTSIETNIRVALEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFCNRRQK 158
Query: 201 TK 202
K
Sbjct: 159 EK 160
>pdb|2DMT|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Barh-Like 1
Length = 80
Score = 33.9 bits (76), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 33/65 (50%), Gaps = 4/65 (6%)
Query: 142 EDGVNARKKLR----LTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNR 197
E G A+K R T+ Q LE+ F++ L+ + LA L L QV+ W+QNR
Sbjct: 9 EPGTKAKKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVKTWYQNR 68
Query: 198 RARTK 202
R + K
Sbjct: 69 RMKWK 73
>pdb|1POG|A Chain A, Solution Structure Of The Oct-1 Pou-Homeo Domain
Determined By Nmr And Restrained Molecular Dynamics
Length = 67
Score = 33.9 bits (76), Expect = 0.11, Method: Composition-based stats.
Identities = 19/57 (33%), Positives = 31/57 (54%), Gaps = 2/57 (3%)
Query: 148 RKKLRLTKEQS--ALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
R+K R + E + LE+SF ++ ++ +A QLN+ + VWF NRR + K
Sbjct: 7 RRKKRTSIETNIRVALEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFCNRRQKEK 63
>pdb|4EGC|A Chain A, Crystal Structure Of Mbp-fused Human Six1 Bound To Human
Eya2 Eya Domain
Length = 559
Score = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 155 KEQS-ALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
KE+S +L E + + +P++K+ LA L QV WF+NRR R +
Sbjct: 502 KEKSRGVLREWYAHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDR 550
>pdb|1CQT|A Chain A, Crystal Structure Of A Ternary Complex Containing An Oca-B
Peptide, The Oct-1 Pou Domain, And An Octamer Element
pdb|1CQT|B Chain B, Crystal Structure Of A Ternary Complex Containing An Oca-B
Peptide, The Oct-1 Pou Domain, And An Octamer Element
Length = 163
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 143 DGVNARKKLRLTKEQS--ALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+G++ R+K R + E + LE+SF ++ ++ +A QLN+ + VWF NRR +
Sbjct: 98 EGLSRRRKKRTSIETNIRVALEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFCNRRQK 157
Query: 201 TK 202
K
Sbjct: 158 EK 159
>pdb|1OCT|C Chain C, Crystal Structure Of The Oct-1 Pou Domain Bound To An
Octamer Site: Dna Recognition With Tethered Dna-Binding
Modules
Length = 156
Score = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 35/62 (56%), Gaps = 2/62 (3%)
Query: 143 DGVNARKKLRLTKEQS--ALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRAR 200
+G++ R+K R + E + LE+SF ++ ++ +A QLN+ + VWF NRR +
Sbjct: 91 EGLSRRRKKRTSIETNIRVALEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFCNRRQK 150
Query: 201 TK 202
K
Sbjct: 151 EK 152
>pdb|1B72|B Chain B, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 87
Score = 32.7 bits (73), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 31/59 (52%), Gaps = 5/59 (8%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNP----KQKQALARQLNLRPRQVEVWFQNRRARTK 202
RK+ K+ + +L E F H + NP + K+ LA++ + QV WF N+R R K
Sbjct: 3 RKRRNFNKQATEILNEYFYSHLS-NPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYK 60
>pdb|2CUE|A Chain A, Solution Structure Of The Homeobox Domain Of The Human
Paired Box Protein Pax-6
Length = 80
Score = 32.7 bits (73), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 33/55 (60%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
R + T+EQ LE+ F++ + ++ LA +++L +++VWF NRRA+ +
Sbjct: 9 RNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRRAKWR 63
>pdb|2DA2|A Chain A, Solution Structure Of The Second Homeobox Domain Of At-
Binding Transcription Factor 1 (Atbf1)
Length = 70
Score = 32.3 bits (72), Expect = 0.32, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 27/51 (52%)
Query: 152 RLTKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTK 202
R T Q +L++ F ++ + + L+ LNL R + VWFQN R + +
Sbjct: 13 RFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNARQKAR 63
>pdb|1LFU|P Chain P, Nmr Solution Stucture Of The Extended Pbx Homeodomain
Bound To Dna
Length = 82
Score = 32.0 bits (71), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 31/59 (52%), Gaps = 5/59 (8%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNP----KQKQALARQLNLRPRQVEVWFQNRRARTK 202
RK+ K+ + +L E F H + NP + K+ LA++ + QV WF N+R R K
Sbjct: 4 RKRRNFNKQATEILNEYFYSHLS-NPYPSEEAKEELAKKSGITVSQVSNWFGNKRIRYK 61
>pdb|1PUF|B Chain B, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound To
Dna
Length = 73
Score = 31.6 bits (70), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 31/59 (52%), Gaps = 5/59 (8%)
Query: 148 RKKLRLTKEQSALLEESFKQHSTLNP----KQKQALARQLNLRPRQVEVWFQNRRARTK 202
RK+ K+ + +L E F H + NP + K+ LA++ + QV WF N+R R K
Sbjct: 3 RKRRNFNKQATEILNEYFYSHLS-NPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYK 60
>pdb|1DU6|A Chain A, Solution Structure Of The Truncated Pbx Homeodomain
Length = 64
Score = 31.2 bits (69), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 5/54 (9%)
Query: 153 LTKEQSALLEESFKQHSTLNP----KQKQALARQLNLRPRQVEVWFQNRRARTK 202
+ K+ + +L E F H + NP + K+ LA++ + QV WF N+R R K
Sbjct: 10 MNKQATEILNEYFYSHLS-NPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYK 62
>pdb|2ECB|A Chain A, The Solution Structure Of The Third Homeobox Domain Of
Human Zinc Fingers And Homeoboxes Protein
Length = 89
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 30/58 (51%)
Query: 154 TKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTKLKQTEVDCE 211
T EQ +L+ SF S L ++ L Q L R+++ WF ++ LK+ +++ +
Sbjct: 19 TAEQLRVLQASFLNSSVLTDEELNRLRAQTKLTRREIDAWFTEKKKSKALKEEKMEID 76
>pdb|3T5P|A Chain A, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|B Chain B, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|C Chain C, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|D Chain D, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|E Chain E, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|F Chain F, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|G Chain G, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|H Chain H, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|I Chain I, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|J Chain J, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|K Chain K, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
pdb|3T5P|L Chain L, Crystal Structure Of A Putative Diacylglycerol Kinase From
Bacillus Anthracis Str. Sterne
Length = 306
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 42 LPKGTCFEPSLSLGLPGEIYPEAATATTKKNSNSIDVNK 80
+P GTC + S +LG+P I EAA TK++ +DV K
Sbjct: 99 IPGGTCNDFSRTLGVPQNI-AEAAKLITKEHVKPVDVAK 136
>pdb|3S40|A Chain A, The Crystal Structure Of A Diacylglycerol Kinases From
Bacillus Anthracis Str. Sterne
pdb|3S40|B Chain B, The Crystal Structure Of A Diacylglycerol Kinases From
Bacillus Anthracis Str. Sterne
pdb|3S40|C Chain C, The Crystal Structure Of A Diacylglycerol Kinases From
Bacillus Anthracis Str. Sterne
pdb|3S40|D Chain D, The Crystal Structure Of A Diacylglycerol Kinases From
Bacillus Anthracis Str. Sterne
Length = 304
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 42 LPKGTCFEPSLSLGLPGEIYPEAATATTKKNSNSIDVNK 80
+P GTC + S +LG+P I EAA TK++ +DV K
Sbjct: 95 IPGGTCNDFSRTLGVPQNI-AEAAKLITKEHVKPVDVAK 132
>pdb|1BW5|A Chain A, The Nmr Solution Structure Of The Homeodomain Of The Rat
Insulin Gene Enhancer Protein Isl-1, 50 Structures
Length = 66
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 176 KQALARQLNLRPRQVEVWFQNRRARTK 202
K+ L L PR + VWFQN+R + K
Sbjct: 33 KEQLVEMTGLSPRVIRVWFQNKRCKDK 59
>pdb|2DMP|A Chain A, Solution Structure Of The Third Homeobox Domain Of Zinc
Fingers And Homeoboxes Protein 2
Length = 89
Score = 29.3 bits (64), Expect = 3.0, Method: Composition-based stats.
Identities = 17/57 (29%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 154 TKEQSALLEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNRRA-RTKLKQTEVD 209
T+ Q +LE+SF + S + L + L R+++ WF RR R ++Q +D
Sbjct: 21 TQGQVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDSWFSERRKLRDSMEQAVLD 77
>pdb|1Y1U|A Chain A, Structure Of Unphosphorylated Stat5a
pdb|1Y1U|B Chain B, Structure Of Unphosphorylated Stat5a
pdb|1Y1U|C Chain C, Structure Of Unphosphorylated Stat5a
Length = 585
Score = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 43/78 (55%), Gaps = 13/78 (16%)
Query: 142 EDGVNARKKLRLTKE-------QSALLEESFKQHSTLNPKQKQALARQLNLRPRQV--EV 192
+D N KKL+ T+E +S ++ F Q LNP+++ ++R+ L+ +QV E
Sbjct: 29 QDTENELKKLQQTQEYFIIQYQESLRIQAQFAQLGQLNPQER--MSRETALQQKQVSLET 86
Query: 193 WFQNRRARTKLKQTEVDC 210
W Q R A+T L+Q V+
Sbjct: 87 WLQ-REAQT-LQQYRVEL 102
>pdb|1X2M|A Chain A, Solution Structure Of The Homeobox Domain Of Mouse Lag1
Longevity Assurance Homolog 6
Length = 64
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 31/51 (60%), Gaps = 3/51 (5%)
Query: 154 TKEQSALLEESFKQHSTLNPKQK--QALARQLNLRPRQVEVWFQNRRARTK 202
T + +A+LE+ F T +P +K + L++QL+ R ++ WF+ RR + K
Sbjct: 8 TAQPNAILEKVFT-AITKHPDEKRLEGLSKQLDWDVRSIQRWFRQRRNQEK 57
>pdb|2WMG|A Chain A, Crystal Structure Of The Catalytic Module Of A Family 98
Glycoside Hydrolase From Streptococcus Pneumoniae Tigr4
( Sp4gh98) In Complex With The Lewisy Pentasaccharide
Blood Group Antigen
Length = 581
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 32/68 (47%), Gaps = 5/68 (7%)
Query: 11 LVLGLGFASAIETTPTNKANNINIVNHQQLQLPKGTCFEPSLSLGLPGEIYPEAATATTK 70
L G G+A + + +N NI +QQ+ LP T SLSL L Y A K
Sbjct: 417 LYEGDGYAQRVGNSWYIYNSNANINKNQQVMLPMYTNNTKSLSLDLTPHTY-----AVVK 471
Query: 71 KNSNSIDV 78
+N N++ +
Sbjct: 472 ENPNNLHI 479
>pdb|2WMF|A Chain A, Crystal Structure Of The Catalytic Module Of A Family 98
Glycoside Hydrolase From Streptococcus Pneumoniae Tigr4
( Sp4gh98) In Its Native Form
Length = 581
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 32/68 (47%), Gaps = 5/68 (7%)
Query: 11 LVLGLGFASAIETTPTNKANNINIVNHQQLQLPKGTCFEPSLSLGLPGEIYPEAATATTK 70
L G G+A + + +N NI +QQ+ LP T SLSL L Y A K
Sbjct: 417 LYEGDGYAQRVGNSWYIYNSNANINKNQQVMLPMYTNNTKSLSLDLTPHTY-----AVVK 471
Query: 71 KNSNSIDV 78
+N N++ +
Sbjct: 472 ENPNNLHI 479
>pdb|2WMH|A Chain A, Crystal Structure Of The Catalytic Module Of A Family 98
Glycoside Hydrolase From Streptococcus Pneumoniae Tigr4
In Complex With The H-Disaccharide Blood Group Antigen
Length = 581
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 32/68 (47%), Gaps = 5/68 (7%)
Query: 11 LVLGLGFASAIETTPTNKANNINIVNHQQLQLPKGTCFEPSLSLGLPGEIYPEAATATTK 70
L G G+A + + +N NI +QQ+ LP T SLSL L Y A K
Sbjct: 417 LYEGDGYAQRVGNSWYIYNSNANINKNQQVMLPMYTNNTKSLSLDLTPHTY-----AVVK 471
Query: 71 KNSNSIDV 78
+N N++ +
Sbjct: 472 ENPNNLHI 479
>pdb|1KI9|A Chain A, Adenylate Kinase From Methanococcus Thermolithotrophicus
pdb|1KI9|B Chain B, Adenylate Kinase From Methanococcus Thermolithotrophicus
pdb|1KI9|C Chain C, Adenylate Kinase From Methanococcus Thermolithotrophicus
Length = 192
Score = 28.1 bits (61), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 17/70 (24%), Positives = 31/70 (44%), Gaps = 7/70 (10%)
Query: 37 HQQLQLPKGTCFEPSLSLGLPGEIYPEAATATTKKNSNSI-----DVNKGYEESAAAGVA 91
H ++ PKG + P L + + E+ P+ + D + + AG+
Sbjct: 92 HSTIKTPKG--YLPGLPVWVLNELNPDIIIVVETSGDEILIRRLNDETRNRDLETTAGIE 149
Query: 92 EYQILNRQAS 101
E+QI+NR A+
Sbjct: 150 EHQIMNRAAA 159
>pdb|2DMQ|A Chain A, Solution Structure Of The Homeobox Domain Of LimHOMEOBOX
Protein Lhx9
Length = 80
Score = 27.7 bits (60), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 12/52 (23%)
Query: 161 LEESFKQHS----------TLNPKQK--QALARQLNLRPRQVEVWFQNRRAR 200
+ SFK H NP K + LA++ L R ++VWFQN RA+
Sbjct: 10 MRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARAK 61
>pdb|3L1P|A Chain A, Pou Protein:dna Complex
pdb|3L1P|B Chain B, Pou Protein:dna Complex
Length = 155
Score = 27.7 bits (60), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 31/65 (47%), Gaps = 2/65 (3%)
Query: 140 EDEDGVNARKKLRLTKEQSAL--LEESFKQHSTLNPKQKQALARQLNLRPRQVEVWFQNR 197
+ E V ARK+ R + E LE F + + +Q +A QL L V VWF NR
Sbjct: 88 KSETLVQARKRKRTSIENRVRWSLETMFLKSPKPSLQQITHIANQLGLEKDVVRVWFSNR 147
Query: 198 RARTK 202
R + K
Sbjct: 148 RQKGK 152
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
0.314 0.130 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,618,876
Number of Sequences: 62578
Number of extensions: 262446
Number of successful extensions: 533
Number of sequences better than 100.0: 90
Number of HSP's better than 100.0 without gapping: 74
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 455
Number of HSP's gapped (non-prelim): 94
length of query: 293
length of database: 14,973,337
effective HSP length: 98
effective length of query: 195
effective length of database: 8,840,693
effective search space: 1723935135
effective search space used: 1723935135
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (24.3 bits)