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= psy16800
(221 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1B72|A Chain A, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 97
Score = 113 bits (283), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 58/95 (61%), Positives = 69/95 (72%), Gaps = 1/95 (1%)
Query: 104 HPTSPSTDYTTPLTALKYPPPAALSQHQSLLNNSG-RTNFTNKQLTELEKEFHFNKYLTR 162
P +P+ + + PP A L + SG RTNFT +QLTELEKEFHFNKYL+R
Sbjct: 2 EPNTPTARTFDWMKVKRNPPKTAKVSEPGLGSPSGLRTNFTTRQLTELEKEFHFNKYLSR 61
Query: 163 ARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKEG 197
ARR+EIA+ L+LNETQVKIWFQNRRMKQKKR +EG
Sbjct: 62 ARRVEIAATLELNETQVKIWFQNRRMKQKKREREG 96
>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 = 82.8 bits (203), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 44/77 (57%), Positives = 51/77 (66%), Gaps = 5/77 (6%)
Query: 121 YPPPAALSQHQSLLNNSG-----RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLN 175
YP + S +N +G RT++T Q ELEKEFHFN+YLTR RRIEIA L L
Sbjct: 9 YPWMKRVHLGTSTVNANGETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLT 68
Query: 176 ETQVKIWFQNRRMKQKK 192
E Q+KIWFQNRRMK KK
Sbjct: 69 ERQIKIWFQNRRMKWKK 85
>pdb|9ANT|A Chain A, Antennapedia Homeodomain-Dna Complex
pdb|9ANT|B Chain B, Antennapedia Homeodomain-Dna Complex
Length = 62
Score = 82.4 bits (202), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 39/55 (70%), Positives = 42/55 (76%)
Query: 138 GRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
GR +T Q ELEKEFHFN+YLTR RRIEIA L L E Q+KIWFQNRRMK KK
Sbjct: 6 GRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKK 60
>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 = 82.0 bits (201), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 39/59 (66%), Positives = 43/59 (72%)
Query: 134 LNNSGRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
+ GR +T Q ELEKEFHFN+YLTR RRIEIA L L E Q+KIWFQNRRMK KK
Sbjct: 1 MRKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKK 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 = 82.0 bits (201), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 39/55 (70%), Positives = 42/55 (76%)
Query: 138 GRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
GR +T Q ELEKEFHFN+YLTR RRIEIA L L E Q+KIWFQNRRMK KK
Sbjct: 5 GRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKK 59
>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 = 79.7 bits (195), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 36/54 (66%), Positives = 43/54 (79%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
R +T Q ELEKEFHFN+Y+TR RRI+IA+ L L+E Q+KIWFQNRRMK KK
Sbjct: 7 RQTYTRYQTLELEKEFHFNRYITRRRRIDIANALSLSERQIKIWFQNRRMKSKK 60
>pdb|1B8I|A Chain A, Structure Of The Homeotic UbxEXDDNA TERNARY COMPLEX
Length = 81
Score = 79.0 bits (193), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 39/62 (62%), Positives = 43/62 (69%)
Query: 134 LNNSGRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKR 193
L GR +T Q ELEKEFH N YLTR RRIE+A L L E Q+KIWFQNRRMK KK
Sbjct: 19 LRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQIKIWFQNRRMKLKKE 78
Query: 194 IK 195
I+
Sbjct: 79 IQ 80
>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 = 78.6 bits (192), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 37/51 (72%), Positives = 40/51 (78%)
Query: 142 FTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
+T Q ELEKEFHFN+YLTR RRIEIA L L E Q+KIWFQNRRMK KK
Sbjct: 3 YTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKK 53
>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 = 76.6 bits (187), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 36/58 (62%), Positives = 43/58 (74%)
Query: 135 NNSGRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
N RT +T QL ELEKEF FNKY++R RR+E+A +L L E +KIWFQNRRMK KK
Sbjct: 3 NKRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNRRMKWKK 60
>pdb|2M34|A Chain A, Nmr Structure Of The Homeodomain Transcription Factor Gbx1
From Homo Sapiens
Length = 71
Score = 73.9 bits (180), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 38/59 (64%), Positives = 44/59 (74%), Gaps = 1/59 (1%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKEG 197
RT FT++QL ELEKEFH KYL+ R +IA L+L+E QVKIWFQNRR K KRIK G
Sbjct: 11 RTAFTSEQLLELEKEFHCKKYLSLTERSQIAHALKLSEVQVKIWFQNRRAKW-KRIKAG 68
>pdb|1PUF|A Chain A, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound To
Dna
Length = 77
Score = 72.0 bits (175), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 36/54 (66%), Positives = 39/54 (72%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
R +T Q ELEKEF FN YLTR RR E+A +L L E QVKIWFQNRRMK KK
Sbjct: 17 RCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQNRRMKMKK 70
>pdb|2LP0|A Chain A, The Solution Structure Of Homeodomain-Protein Complex
Length = 60
Score = 71.6 bits (174), Expect = 3e-13, Method: Composition-based stats.
Identities = 37/54 (68%), Positives = 39/54 (72%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
R +T Q ELEKEF FN YLTR RR E+A VL L E QVKIWFQNRRMK KK
Sbjct: 5 RCPYTKYQTLELEKEFLFNMYLTRDRRYEVARVLNLTERQVKIWFQNRRMKMKK 58
>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 = 63.5 bits (153), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 30/54 (55%), Positives = 39/54 (72%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT FT QL LEKEF+ Y++R RR E+A+ L L E+ +K+WFQNRRMK K+
Sbjct: 5 RTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMKDKR 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 = 62.8 bits (151), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 30/54 (55%), Positives = 42/54 (77%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT F+++QL L++EF+ N+YLT RR +++S L LNE Q+KIWFQN+R K KK
Sbjct: 7 RTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAKIKK 60
>pdb|3HDD|A Chain A, Engrailed Homeodomain Dna Complex
pdb|3HDD|B Chain B, Engrailed Homeodomain Dna Complex
Length = 60
Score = 62.8 bits (151), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 30/54 (55%), Positives = 42/54 (77%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT F+++QL L++EF+ N+YLT RR +++S L LNE Q+KIWFQN+R K KK
Sbjct: 5 RTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAKIKK 58
>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 = 62.0 bits (149), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 30/54 (55%), Positives = 41/54 (75%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT F+++QL L++EF+ N+YLT RR +++S L LNE Q+KIWFQN R K KK
Sbjct: 5 RTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNERAKIKK 58
>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 = 61.6 bits (148), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 30/54 (55%), Positives = 41/54 (75%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT F+++QL L++EF+ N+YLT RR +++S L LNE Q+KIWFQN R K KK
Sbjct: 5 RTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNARAKIKK 58
>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 = 61.2 bits (147), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 29/54 (53%), Positives = 42/54 (77%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT F+++QL L++EF+ N+YLT RR +++S L LNE Q+KIWF+N+R K KK
Sbjct: 7 RTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKNKRAKIKK 60
>pdb|1IG7|A Chain A, Msx-1 HomeodomainDNA COMPLEX STRUCTURE
Length = 58
Score = 61.2 bits (147), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 31/54 (57%), Positives = 37/54 (68%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT FT QL LE++F +YL+ A R E +S L L ETQVKIWFQNRR K K+
Sbjct: 4 RTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQNRRAKAKR 57
>pdb|1ENH|A Chain A, Structural Studies Of The Engrailed Homeodomain
Length = 54
Score = 60.8 bits (146), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 28/51 (54%), Positives = 40/51 (78%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMK 189
RT F+++QL L++EF+ N+YLT RR +++S L LNE Q+KIWFQN+R K
Sbjct: 3 RTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAK 53
>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 = 60.5 bits (145), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 29/54 (53%), Positives = 41/54 (75%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT F+++QL L++EF+ N+YLT RR +++S L LNE Q+KIWF N+R K KK
Sbjct: 3 RTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIKIWFANKRAKIKK 56
>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 = 60.1 bits (144), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 29/58 (50%), Positives = 38/58 (65%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKE 196
RT+FT Q+ ELEK FH KYL A R +A L++ + QVK WFQNRR K +++ E
Sbjct: 21 RTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQVKTWFQNRRTKWRRQTAE 78
>pdb|1ZTR|A Chain A, Solution Structure Of Engrailed Homeodomain L16a Mutant
Length = 61
Score = 59.7 bits (143), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 27/51 (52%), Positives = 39/51 (76%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMK 189
RT F+++QL ++EF+ N+YLT RR +++S L LNE Q+KIWFQN+R K
Sbjct: 7 RTAFSSEQLARAKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAK 57
>pdb|2CRA|A Chain A, Solution Structure Of The Homeobox Domain Of Human Homeo
Box B13
Length = 70
Score = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 25/54 (46%), Positives = 40/54 (74%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
R ++ QL ELE+E+ NK++T+ +R +I++ L+E Q+ IWFQNRR+K+KK
Sbjct: 11 RIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQITIWFQNRRVKEKK 64
>pdb|2DMT|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Barh-Like 1
Length = 80
Score = 58.5 bits (140), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 30/54 (55%), Positives = 36/54 (66%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT FT QL LEK F KYL+ RI++A L L++ QVK W+QNRRMK KK
Sbjct: 21 RTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVKTWYQNRRMKWKK 74
>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 = 57.8 bits (138), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 29/54 (53%), Positives = 40/54 (74%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT F+++QL L++EF+ N+YLT RR +++S L LNE QVK WF+N R K KK
Sbjct: 8 RTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQVKGWFKNMRAKIKK 61
>pdb|2L7Z|A Chain A, Nmr Structure Of A13 Homedomain
Length = 73
Score = 57.4 bits (137), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 28/56 (50%), Positives = 40/56 (71%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRI 194
R +T QL ELE+E+ NK++T+ +R I++ L+E QV IWFQNRR+K+KK I
Sbjct: 11 RVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEKKVI 66
>pdb|2LD5|A Chain A, Solution Nmr-Derived Complex Structure Of Hoxa13 Dna
Binding Domain Bound To Dna
Length = 67
Score = 57.4 bits (137), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 27/53 (50%), Positives = 39/53 (73%)
Query: 142 FTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRI 194
+T QL ELE+E+ NK++T+ +R I++ L+E QV IWFQNRR+K+KK I
Sbjct: 8 YTKVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEKKVI 60
>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 = 57.0 bits (136), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 28/53 (52%), Positives = 36/53 (67%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQK 191
R F+ Q+ ELE+ F +YL+ R ++ASVL+L TQVKIWFQNRR K K
Sbjct: 6 RVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNRRYKSK 58
>pdb|2E1O|A Chain A, Solution Structure Of Rsgi Ruh-028, A Homeobox Domain From
Human Cdna
Length = 70
Score = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 27/51 (52%), Positives = 35/51 (68%)
Query: 142 FTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
F+N Q ELEK+F KYL+ R +A +LQL+E QVK WFQNRR K ++
Sbjct: 14 FSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRAKWRR 64
>pdb|2DJN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Dlx-5
Length = 70
Score = 54.7 bits (130), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 26/54 (48%), Positives = 36/54 (66%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT +++ QL L++ F +YL R E+A+ L L +TQVKIWFQN+R K KK
Sbjct: 11 RTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVKIWFQNKRSKIKK 64
>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 = 54.7 bits (130), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 26/48 (54%), Positives = 34/48 (70%)
Query: 146 QLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKR 193
Q+ ELE++F KYL+ R +A L+L ETQVKIWFQNRR K K++
Sbjct: 15 QVIELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRK 62
>pdb|1FTT|A Chain A, Thyroid Transcription Factor 1 Homeodomain (Rattus
Norvegicus)
Length = 68
Score = 53.5 bits (127), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 27/63 (42%), Positives = 38/63 (60%)
Query: 134 LNNSGRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKR 193
+ R F+ Q+ ELE+ F KYL+ R +AS++ L TQVKIWFQN R K K++
Sbjct: 1 MRRKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKMKRQ 60
Query: 194 IKE 196
K+
Sbjct: 61 AKD 63
>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 = 53.1 bits (126), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 27/55 (49%), Positives = 37/55 (67%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKR 193
RT+FT++QL ELE F N+Y + R EIA L E +V++WF+NRR K +KR
Sbjct: 7 RTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKR 61
>pdb|1ZQ3|P Chain P, Nmr Solution Structure Of The Bicoid Homeodomain Bound To
The Consensus Dna Binding Site Taatcc
Length = 68
Score = 53.1 bits (126), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 25/53 (47%), Positives = 35/53 (66%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQK 191
RT FT+ Q+ ELE+ F +YLT R ++++ L L QVKIWF+NRR + K
Sbjct: 6 RTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRRHK 58
>pdb|2L7M|P Chain P, Solution Structure Of The Pitx2 Homeodomain R24h Mutant
Length = 68
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 27/55 (49%), Positives = 36/55 (65%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKR 193
RT+FT++QL ELE F N Y + R EIA L E +V++WF+NRR K +KR
Sbjct: 7 RTHFTSQQLQELEATFQRNHYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRKR 61
>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 = 51.6 bits (122), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 26/54 (48%), Positives = 34/54 (62%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
R FT Q ELE+ F +YL+ R +AS+++L TQVKIWFQN R K K+
Sbjct: 13 RVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRYKTKR 66
>pdb|3A03|A Chain A, Crystal Structure Of Hox11l1 Homeodomain
Length = 56
Score = 51.2 bits (121), Expect = 4e-07, Method: Composition-based stats.
Identities = 24/54 (44%), Positives = 35/54 (64%)
Query: 140 TNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKR 193
T+F+ Q+ ELE+ F KYL A R +A L++ + QVK WFQNRR K +++
Sbjct: 2 TSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVKTWFQNRRTKWRRQ 55
>pdb|2P81|A Chain A, Engrailed Homeodomain Helix-Turn-Helix Motif
Length = 44
Score = 51.2 bits (121), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 24/41 (58%), Positives = 32/41 (78%)
Query: 152 KEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
+EF+ N+YLT RR +++S L LNE Q+KIWFQN+R K KK
Sbjct: 3 REFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAKIKK 43
>pdb|1QRY|A Chain A, Homeobox Protein Vnd (Ventral Nervous System Defective
Protein)
Length = 80
Score = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/54 (46%), Positives = 33/54 (61%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
R FT Q ELE+ F +YL+ R + S+++L TQVKIWFQN R K K+
Sbjct: 16 RVLFTKAQTYELERRFRQQRYLSAPEREHLTSLIRLTPTQVKIWFQNHRYKTKR 69
>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 = 50.1 bits (118), Expect = 1e-06, Method: Composition-based stats.
Identities = 25/54 (46%), Positives = 35/54 (64%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT F+ QL L+ F KYL+ + E++S+L L+ QVK WFQN+RMK K+
Sbjct: 7 RTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRMKCKR 60
>pdb|2M0C|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Human Alx4,
Northeast Structural Genomics Consortium (Nesg) Target
Hr4490c
Length = 75
Score = 47.8 bits (112), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 30/73 (41%), Positives = 41/73 (56%), Gaps = 5/73 (6%)
Query: 132 SLLNNSG-----RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNR 186
S ++N G RT FT+ QL ELEK F Y R ++A L E +V++WFQNR
Sbjct: 1 SHMSNKGKKRRNRTTFTSYQLEELEKVFQKTHYPDVYAREQLAMRTDLTEARVQVWFQNR 60
Query: 187 RMKQKKRIKEGIL 199
R K +KR + G +
Sbjct: 61 RAKWRKRERFGQM 73
>pdb|2KT0|A Chain A, Solution Structure Of Human Stem Cell Transcription Factor
Nanog Homeodomain Fragment
Length = 84
Score = 47.0 bits (110), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 24/54 (44%), Positives = 35/54 (64%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT F++ QL L F KYL+ + E++++L L+ QVK WFQN+RMK K+
Sbjct: 26 RTVFSSTQLCVLNDRFQRQKYLSLQQMQELSNILNLSYKQVKTWFQNQRMKSKR 79
>pdb|3LNQ|A Chain A, Structure Of Aristaless Homeodomain In Complex With Dna
Length = 58
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/54 (46%), Positives = 33/54 (61%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT FT+ QL ELEK F Y R E+A + L E ++++WFQNRR K +K
Sbjct: 3 RTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRK 56
>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 = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 26/57 (45%), Positives = 35/57 (61%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIK 195
RT FT+ QL ELEK F Y R E+A + L E ++++WFQNRR K +K+ K
Sbjct: 10 RTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQEK 66
>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 = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/55 (40%), Positives = 32/55 (58%)
Query: 138 GRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT F+ QL ELE+ F +Y R E+A L E ++++WFQNRR + +K
Sbjct: 21 SRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQVWFQNRRARLRK 75
>pdb|2CUE|A Chain A, Solution Structure Of The Homeobox Domain Of The Human
Paired Box Protein Pax-6
Length = 80
Score = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 34/57 (59%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIK 195
RT+FT +Q+ LEKEF Y R +A+ + L E ++++WF NRR K ++ K
Sbjct: 11 RTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRRAKWRREEK 67
>pdb|2DMU|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Goosecoid
Length = 70
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 22/54 (40%), Positives = 33/54 (61%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT FT++QL LE F KY R ++A + L E +V++WF+NRR K ++
Sbjct: 11 RTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNRRAKWRR 64
>pdb|3CMY|A Chain A, Structure Of A Homeodomain In Complex With Dna
Length = 61
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 23/55 (41%), Positives = 32/55 (58%)
Query: 138 GRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT FT +QL ELE+ F Y R E+A +L E +V++WF NRR + +K
Sbjct: 5 SRTTFTAEQLEELERAFERTHYPDIYTREELAQRAKLTEARVQVWFSNRRARWRK 59
>pdb|3A02|A Chain A, Crystal Structure Of Aristaless Homeodomain
Length = 60
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/55 (43%), Positives = 33/55 (60%)
Query: 141 NFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIK 195
FT+ QL ELEK F Y R E+A + L E ++++WFQNRR K +K+ K
Sbjct: 5 TFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQEK 59
>pdb|2DMS|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Otx2
Length = 80
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/51 (43%), Positives = 30/51 (58%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMK 189
RT FT QL LE F +Y R E+A + L E++V++WF+NRR K
Sbjct: 11 RTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAK 61
>pdb|2K40|A Chain A, Nmr Structure Of Hesx-1 Homeodomain Double Mutant R31lE42L
Length = 67
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 23/59 (38%), Positives = 31/59 (52%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRIKEG 197
RT FT Q+ LE F N Y ++A L L +++IWFQNRR K K+ +E
Sbjct: 5 RTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNRRAKLKRSHRES 63
>pdb|2NZZ|A Chain A, Nmr Structure Analysis Of The Penetratin Conjugated Gas
(374-394) Peptide
pdb|2O00|A Chain A, Nmr Structure Analysis Of The Penetratin Conjugated Gas
(374-394) Peptide
Length = 37
Score = 35.8 bits (81), Expect = 0.017, Method: Composition-based stats.
Identities = 14/17 (82%), Positives = 16/17 (94%)
Query: 178 QVKIWFQNRRMKQKKRI 194
Q+KIWFQNRRMK KKR+
Sbjct: 2 QIKIWFQNRRMKWKKRV 18
>pdb|1B72|B Chain B, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 87
Score = 34.3 bits (77), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 5/60 (8%)
Query: 139 RTNFTNKQLTELEKEFHF----NKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRI 194
R NF NKQ TE+ E+ + N Y + + E+A + +QV WF N+R++ KK I
Sbjct: 5 RRNF-NKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNI 63
>pdb|2DA2|A Chain A, Solution Structure Of The Second Homeobox Domain Of At-
Binding Transcription Factor 1 (Atbf1)
Length = 70
Score = 33.5 bits (75), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%)
Query: 140 TNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
T FT+ QL L+ F N Y +++++L L + +WFQN R K +K
Sbjct: 12 TRFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNARQKARK 64
>pdb|1PUF|B Chain B, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound To
Dna
Length = 73
Score = 33.5 bits (75), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 5/60 (8%)
Query: 139 RTNFTNKQLTELEKEFHF----NKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRI 194
R NF NKQ TE+ E+ + N Y + + E+A + +QV WF N+R++ KK I
Sbjct: 5 RRNF-NKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNI 63
>pdb|3PJZ|A Chain A, Crystal Structure Of The Potassium Transporter Trkh From
Vibrio Parahaemolyticus
pdb|3PJZ|B Chain B, Crystal Structure Of The Potassium Transporter Trkh From
Vibrio Parahaemolyticus
Length = 494
Score = 33.1 bits (74), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 22/34 (64%)
Query: 182 WFQNRRMKQKKRIKEGILIGVGEGSLMGAQGSSP 215
WF NRR K + + ++G LI V +++G+ GS P
Sbjct: 54 WFPNRRHKHELKSRDGFLIVVLFWTVLGSAGSLP 87
>pdb|1LFU|P Chain P, Nmr Solution Stucture Of The Extended Pbx Homeodomain
Bound To Dna
Length = 82
Score = 33.1 bits (74), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 33/60 (55%), Gaps = 5/60 (8%)
Query: 139 RTNFTNKQLTELEKEFHF----NKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRI 194
R NF NKQ TE+ E+ + N Y + + E+A + +QV WF N+R++ KK I
Sbjct: 6 RRNF-NKQATEILNEYFYSHLSNPYPSEEAKEELAKKSGITVSQVSNWFGNKRIRYKKNI 64
>pdb|1OMQ|A Chain A, Structure Of Penetratin In Bicellar Solution
Length = 16
Score = 32.7 bits (73), Expect = 0.17, Method: Composition-based stats.
Identities = 13/15 (86%), Positives = 14/15 (93%)
Query: 178 QVKIWFQNRRMKQKK 192
Q+KIWFQNRRMK KK
Sbjct: 2 QIKIWFQNRRMKWKK 16
>pdb|1DU6|A Chain A, Solution Structure Of The Truncated Pbx Homeodomain
Length = 64
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 29/53 (54%), Gaps = 4/53 (7%)
Query: 144 NKQLTELEKEFHF----NKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
NKQ TE+ E+ + N Y + + E+A + +QV WF N+R++ KK
Sbjct: 11 NKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKK 63
>pdb|2DA3|A Chain A, Solution Structure Of The Third Homeobox Domain Of At-
Binding Transcription Factor 1 (Atbf1)
Length = 80
Score = 32.3 bits (72), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 30/54 (55%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT T +QL L +++ + TR IA + L + V++WFQN R +++K
Sbjct: 21 RTTITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQVWFQNTRARERK 74
>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 = 32.0 bits (71), Expect = 0.26, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 27/55 (49%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKR 193
RT KQL L + N + ++ + L+ +++WFQN+R K KKR
Sbjct: 7 RTVLNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDKKR 61
>pdb|1KZ0|A Chain A, Solution Structure Of The Third Helix Of Antennapedia
Homeodomain
Length = 16
Score = 32.0 bits (71), Expect = 0.29, Method: Composition-based stats.
Identities = 13/15 (86%), Positives = 14/15 (93%)
Query: 178 QVKIWFQNRRMKQKK 192
Q+KIWFQNRRMK KK
Sbjct: 2 QIKIWFQNRRMKWKK 16
>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 = 31.6 bits (70), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 27/54 (50%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT+ LEK F N+ T IA L + + +++WF NRR K+K+
Sbjct: 108 RTSIETNIRVALEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFCNRRQKEKR 161
>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 = 31.2 bits (69), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 24/43 (55%)
Query: 150 LEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
LEK F N+ T IA L + + +++WF NRR K+K+
Sbjct: 115 LEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFSNRRQKEKR 157
>pdb|2XSD|C Chain C, Crystal Structure Of The Dimeric Oct-6 (Pou3f1) Pou Domain
Bound To Palindromic More Dna
Length = 164
Score = 31.2 bits (69), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 168 IASVLQLNETQVKIWFQNRRMKQKK 192
+A LQL + V++WF NRR K+K+
Sbjct: 132 LADSLQLEKEVVRVWFCNRRQKEKR 156
>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 = 31.2 bits (69), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 27/54 (50%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT+ LEK F N+ T IA L + + +++WF NRR K+K+
Sbjct: 107 RTSIETNIRVALEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFCNRRQKEKR 160
>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 = 31.2 bits (69), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 23/42 (54%)
Query: 150 LEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQK 191
LE+ F + L + E+A + QV++WF N+RM+ K
Sbjct: 380 LEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 421
>pdb|1E3O|C Chain C, Crystal Structure Of Oct-1 Pou Dimer Bound To More
Length = 160
Score = 31.2 bits (69), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 24/43 (55%)
Query: 150 LEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
LEK F N+ T IA L + + +++WF NRR K+K+
Sbjct: 116 LEKSFMENQKPTSEDITLIAEQLNMEKEVIRVWFSNRRQKEKR 158
>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 = 30.8 bits (68), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 33/60 (55%), Gaps = 5/60 (8%)
Query: 139 RTNFTNKQLTELEKEFHF----NKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRI 194
R NF+ KQ +E+ E+ + N Y + + E+A + +QV WF N+R++ KK I
Sbjct: 5 RRNFS-KQASEILNEYFYSHLSNPYPSEEAKEELARKCGITVSQVSNWFGNKRIRYKKNI 63
>pdb|1HDP|A Chain A, Solution Structure Of A Pou-Specific Homeodomain: 3d-Nmr
Studies Of Human B-Cell Transcription Factor Oct-2
Length = 63
Score = 30.8 bits (68), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 25/43 (58%)
Query: 150 LEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
LEK F N+ T + IA L + + +++WF NRR K+K+
Sbjct: 16 LEKSFLANQKPTSEEILLIAEQLHMEKEVIRVWFCNRRQKEKR 58
>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 = 30.8 bits (68), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 24/43 (55%)
Query: 150 LEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
LEK F N+ T IA L + + +++WF NRR K+K+
Sbjct: 111 LEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFCNRRQKEKR 153
>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 = 30.4 bits (67), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 29/54 (53%)
Query: 138 GRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQK 191
G+++ + + LE+ F + L + E+A + QV++WF N+RM+ K
Sbjct: 8 GKSSISPQARAFLEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 61
>pdb|4EGC|A Chain A, Crystal Structure Of Mbp-fused Human Six1 Bound To Human
Eya2 Eya Domain
Length = 559
Score = 30.4 bits (67), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 24/50 (48%)
Query: 142 FTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQK 191
F K L + + N Y + + E+A L TQV WF+NRR + +
Sbjct: 501 FKEKSRGVLREWYAHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQRDR 550
>pdb|1AKH|A Chain A, Mat A1ALPHA2DNA TERNARY COMPLEX
Length = 61
Score = 30.4 bits (67), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 29/54 (53%)
Query: 138 GRTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQK 191
G+++ + + LE+ F + L + E+A + QV++WF N+RM+ K
Sbjct: 8 GKSSISPQARAFLEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 61
>pdb|2Z81|A Chain A, Crystal Structure Of The Tlr1-tlr2 Heterodimer Induced By
Binding Of A Tri-acylated Lipopeptide
pdb|2Z82|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 30.0 bits (66), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 48/94 (51%), Gaps = 6/94 (6%)
Query: 104 HPTSPSTDYTTPLTALKYPPPAALSQHQSLLNNSGRTNFTNKQLTELEKEFHFNKYLTRA 163
H +S S+ + PL++LKY + +Q+L S N TN Q + F++
Sbjct: 85 HLSSLSSSWFGPLSSLKYLNLMG-NPYQTLGVTSLFPNLTNLQTLRIGNVETFSE----I 139
Query: 164 RRIEIASVLQLNETQVK-IWFQNRRMKQKKRIKE 196
RRI+ A + LNE ++K + +N + + K I++
Sbjct: 140 RRIDFAGLTSLNELEIKALSLRNYQSQSLKSIRD 173
>pdb|3A79|A Chain A, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
pdb|3A7B|A Chain A, Crystal Structure Of Tlr2-Streptococcus Pneumoniae
Lipoteichoic Acid Complex
pdb|3A7C|A Chain A, Crystal Structure Of Tlr2-Pe-Dtpa Complex
Length = 580
Score = 30.0 bits (66), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 48/94 (51%), Gaps = 6/94 (6%)
Query: 104 HPTSPSTDYTTPLTALKYPPPAALSQHQSLLNNSGRTNFTNKQLTELEKEFHFNKYLTRA 163
H +S S+ + PL++LKY + +Q+L S N TN Q + F++
Sbjct: 111 HLSSLSSSWFGPLSSLKYLNLMG-NPYQTLGVTSLFPNLTNLQTLRIGNVETFSE----I 165
Query: 164 RRIEIASVLQLNETQVK-IWFQNRRMKQKKRIKE 196
RRI+ A + LNE ++K + +N + + K I++
Sbjct: 166 RRIDFAGLTSLNELEIKALSLRNYQSQSLKSIRD 199
>pdb|1POG|A Chain A, Solution Structure Of The Oct-1 Pou-Homeo Domain
Determined By Nmr And Restrained Molecular Dynamics
Length = 67
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 27/54 (50%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT+ LEK F N+ T IA L + + +++WF NRR K+K+
Sbjct: 11 RTSIETNIRVALEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFCNRRQKEKR 64
>pdb|1LE8|A Chain A, Crystal Structure Of The Mata1MATALPHA2-3a Heterodimer
Bound To Dna Complex
Length = 53
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 23/42 (54%)
Query: 150 LEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQK 191
LE+ F + L + E+A + QV++WF N+RM+ K
Sbjct: 12 LEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 53
>pdb|3D1N|I Chain I, Structure Of Human Brn-5 Transcription Factor In Complex
With Corticotrophin-Releasing Hormone Gene Promoter
pdb|3D1N|J Chain J, Structure Of Human Brn-5 Transcription Factor In Complex
With Corticotrophin-Releasing Hormone Gene Promoter
pdb|3D1N|K Chain K, Structure Of Human Brn-5 Transcription Factor In Complex
With Corticotrophin-Releasing Hormone Gene Promoter
pdb|3D1N|L Chain L, Structure Of Human Brn-5 Transcription Factor In Complex
With Corticotrophin-Releasing Hormone Gene Promoter
pdb|3D1N|M Chain M, Structure Of Human Brn-5 Transcription Factor In Complex
With Corticotrophin-Releasing Hormone Gene Promoter
pdb|3D1N|N Chain N, Structure Of Human Brn-5 Transcription Factor In Complex
With Corticotrophin-Releasing Hormone Gene Promoter
pdb|3D1N|O Chain O, Structure Of Human Brn-5 Transcription Factor In Complex
With Corticotrophin-Releasing Hormone Gene Promoter
pdb|3D1N|P Chain P, Structure Of Human Brn-5 Transcription Factor In Complex
With Corticotrophin-Releasing Hormone Gene Promoter
Length = 151
Score = 28.5 bits (62), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 23/49 (46%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRR 187
RT+FT + + L F N T E A L + V++WF NRR
Sbjct: 97 RTSFTPQAIEALNAYFEKNPLPTGQEITEXAKELNYDREVVRVWFSNRR 145
>pdb|2DA1|A Chain A, Solution Structure Of The First Homeobox Domain Of At-
Binding Transcription Factor 1 (Atbf1)
Length = 70
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKK 192
RT T+ QL L + F N + + E+A L + +K WF+N K+++
Sbjct: 11 RTRITDDQLRVLRQYFDINNSPSEEQIKEMADKSGLPQKVIKHWFRNTLFKERQ 64
>pdb|2DMQ|A Chain A, Solution Structure Of The Homeobox Domain Of LimHOMEOBOX
Protein Lhx9
Length = 80
Score = 27.7 bits (60), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 28/56 (50%)
Query: 139 RTNFTNKQLTELEKEFHFNKYLTRARRIEIASVLQLNETQVKIWFQNRRMKQKKRI 194
RT+F + QL ++ F N ++A L + +++WFQN R K ++ +
Sbjct: 11 RTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARAKFRRNL 66
>pdb|1AU7|A Chain A, Pit-1 MutantDNA COMPLEX
pdb|1AU7|B Chain B, Pit-1 MutantDNA COMPLEX
Length = 146
Score = 26.9 bits (58), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 18/27 (66%)
Query: 166 IEIASVLQLNETQVKIWFQNRRMKQKK 192
+ +A L L + V++WF NRR ++K+
Sbjct: 118 MRMAEELNLEKEVVRVWFCNRRQREKR 144
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 0.134 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,571,293
Number of Sequences: 62578
Number of extensions: 205556
Number of successful extensions: 614
Number of sequences better than 100.0: 96
Number of HSP's better than 100.0 without gapping: 84
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 529
Number of HSP's gapped (non-prelim): 96
length of query: 221
length of database: 14,973,337
effective HSP length: 95
effective length of query: 126
effective length of database: 9,028,427
effective search space: 1137581802
effective search space used: 1137581802
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: 49 (23.5 bits)