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= psy9869
(111 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1B8I|A Chain A, Structure Of The Homeotic UbxEXDDNA TERNARY COMPLEX
Length = 81
Score = 97.4 bits (241), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 47/48 (97%), Positives = 47/48 (97%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKEIQA 83
ELEKEFHTNHYLTRRRRIEMAHAL LTERQIKIWFQNRRMKLKKEIQA
Sbjct: 34 ELEKEFHTNHYLTRRRRIEMAHALSLTERQIKIWFQNRRMKLKKEIQA 81
>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 = 85.5 bits (210), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 41/45 (91%), Positives = 42/45 (93%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKE 80
ELEKEFH N YLTRRRRIE+AHALCLTERQIKIWFQNRRMK KKE
Sbjct: 16 ELEKEFHFNRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWKKE 60
>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 = 4e-17, Method: Compositional matrix adjust.
Identities = 40/45 (88%), Positives = 41/45 (91%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKE 80
ELEKEFH N YLTRRRRIE+AHAL LTERQIKIWFQNRRMK KKE
Sbjct: 42 ELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKE 86
>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 = 82.4 bits (202), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 40/45 (88%), Positives = 41/45 (91%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKE 80
ELEKEFH N YLTRRRRIE+AHAL LTERQIKIWFQNRRMK KKE
Sbjct: 16 ELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKE 60
>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 = 82.0 bits (201), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 40/45 (88%), Positives = 41/45 (91%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKE 80
ELEKEFH N YLTRRRRIE+AHAL LTERQIKIWFQNRRMK KKE
Sbjct: 10 ELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKE 54
>pdb|9ANT|A Chain A, Antennapedia Homeodomain-Dna Complex
pdb|9ANT|B Chain B, Antennapedia Homeodomain-Dna Complex
Length = 62
Score = 81.6 bits (200), Expect = 9e-17, Method: Compositional matrix adjust.
Identities = 40/45 (88%), Positives = 41/45 (91%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKE 80
ELEKEFH N YLTRRRRIE+AHAL LTERQIKIWFQNRRMK KKE
Sbjct: 17 ELEKEFHFNRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKKE 61
>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 = 75.9 bits (185), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 35/45 (77%), Positives = 41/45 (91%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKE 80
ELEKEFH N Y+TRRRRI++A+AL L+ERQIKIWFQNRRMK KK+
Sbjct: 17 ELEKEFHFNRYITRRRRIDIANALSLSERQIKIWFQNRRMKSKKD 61
>pdb|1B72|A Chain A, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 97
Score = 65.9 bits (159), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 31/44 (70%), Positives = 35/44 (79%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
ELEKEFH N YL+R RR+E+A L L E Q+KIWFQNRRMK KK
Sbjct: 48 ELEKEFHFNKYLSRARRVEIAATLELNETQVKIWFQNRRMKQKK 91
>pdb|2LP0|A Chain A, The Solution Structure Of Homeodomain-Protein Complex
Length = 60
Score = 65.9 bits (159), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 33/44 (75%), Positives = 36/44 (81%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
ELEKEF N YLTR RR E+A L LTERQ+KIWFQNRRMK+KK
Sbjct: 15 ELEKEFLFNMYLTRDRRYEVARVLNLTERQVKIWFQNRRMKMKK 58
>pdb|1PUF|A Chain A, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound
To Dna
Length = 77
Score = 64.7 bits (156), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 33/44 (75%), Positives = 36/44 (81%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
ELEKEF N YLTR RR E+A L LTERQ+KIWFQNRRMK+KK
Sbjct: 27 ELEKEFLFNMYLTRDRRYEVARLLNLTERQVKIWFQNRRMKMKK 70
>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 = 64.3 bits (155), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/45 (71%), Positives = 36/45 (80%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKE 80
ELEKEF N Y++R RR+E+A L LTER IKIWFQNRRMK KKE
Sbjct: 17 ELEKEFLFNKYISRPRRVELAVMLNLTERHIKIWFQNRRMKWKKE 61
>pdb|2M34|A Chain A, Nmr Structure Of The Homeodomain Transcription Factor
Gbx1 From Homo Sapiens
Length = 71
Score = 57.0 bits (136), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 27/44 (61%), Positives = 33/44 (75%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
ELEKEFH YL+ R ++AHAL L+E Q+KIWFQNRR K K+
Sbjct: 21 ELEKEFHCKKYLSLTERSQIAHALKLSEVQVKIWFQNRRAKWKR 64
>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 = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 25/43 (58%), Positives = 33/43 (76%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
L++EF+ N YLT RRR +++ L L E QIKIWFQN+R K+KK
Sbjct: 18 LKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAKIKK 60
>pdb|3HDD|A Chain A, Engrailed Homeodomain Dna Complex
pdb|3HDD|B Chain B, Engrailed Homeodomain Dna Complex
Length = 60
Score = 55.1 bits (131), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 25/43 (58%), Positives = 33/43 (76%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
L++EF+ N YLT RRR +++ L L E QIKIWFQN+R K+KK
Sbjct: 16 LKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAKIKK 58
>pdb|2CRA|A Chain A, Solution Structure Of The Homeobox Domain Of Human Homeo
Box B13
Length = 70
Score = 54.3 bits (129), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 23/44 (52%), Positives = 34/44 (77%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
ELE+E+ N ++T+ +R +++ A L+ERQI IWFQNRR+K KK
Sbjct: 21 ELEREYAANKFITKDKRRKISAATSLSERQITIWFQNRRVKEKK 64
>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 = 53.9 bits (128), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 25/43 (58%), Positives = 32/43 (74%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
L++EF+ N YLT RRR +++ L L E QIKIWFQN R K+KK
Sbjct: 16 LKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNERAKIKK 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 = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 25/44 (56%), Positives = 33/44 (75%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKE 80
LEKEF+ +Y++R RR E+A L L E IK+WFQNRRMK K++
Sbjct: 16 LEKEFYKENYVSRPRRCELAAQLNLPESTIKVWFQNRRMKDKRQ 59
>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 = 53.5 bits (127), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 25/43 (58%), Positives = 32/43 (74%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
L++EF+ N YLT RRR +++ L L E QIKIWFQN R K+KK
Sbjct: 16 LKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNARAKIKK 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 = 53.1 bits (126), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 24/43 (55%), Positives = 33/43 (76%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
L++EF+ N YLT RRR +++ L L E QIKIWF+N+R K+KK
Sbjct: 18 LKREFNENRYLTERRRQQLSSELGLNEAQIKIWFKNKRAKIKK 60
>pdb|2P81|A Chain A, Engrailed Homeodomain Helix-Turn-Helix Motif
Length = 44
Score = 53.1 bits (126), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 24/42 (57%), Positives = 32/42 (76%)
Query: 38 EKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
++EF+ N YLT RRR +++ L L E QIKIWFQN+R K+KK
Sbjct: 2 KREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAKIKK 43
>pdb|2LD5|A Chain A, Solution Nmr-Derived Complex Structure Of Hoxa13 Dna
Binding Domain Bound To Dna
Length = 67
Score = 52.4 bits (124), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 24/50 (48%), Positives = 36/50 (72%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKEIQAIK 85
ELE+E+ TN ++T+ +R ++ L+ERQ+ IWFQNRR+K KK I +K
Sbjct: 15 ELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEKKVINKLK 64
>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 = 52.4 bits (124), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 24/43 (55%), Positives = 32/43 (74%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
L++EF+ N YLT RRR +++ L L E QIKIWF N+R K+KK
Sbjct: 14 LKREFNENRYLTERRRQQLSSELGLNEAQIKIWFANKRAKIKK 56
>pdb|2L7Z|A Chain A, Nmr Structure Of A13 Homedomain
Length = 73
Score = 52.0 bits (123), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 24/50 (48%), Positives = 36/50 (72%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKEIQAIK 85
ELE+E+ TN ++T+ +R ++ L+ERQ+ IWFQNRR+K KK I +K
Sbjct: 21 ELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKEKKVINKLK 70
>pdb|1ZTR|A Chain A, Solution Structure Of Engrailed Homeodomain L16a Mutant
Length = 61
Score = 51.2 bits (121), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 22/42 (52%), Positives = 32/42 (76%)
Query: 38 EKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
++EF+ N YLT RRR +++ L L E QIKIWFQN+R K+++
Sbjct: 19 KREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAKIRR 60
>pdb|1ENH|A Chain A, Structural Studies Of The Engrailed Homeodomain
Length = 54
Score = 51.2 bits (121), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 23/41 (56%), Positives = 31/41 (75%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKL 77
L++EF+ N YLT RRR +++ L L E QIKIWFQN+R K+
Sbjct: 14 LKREFNENRYLTERRRQQLSSELGLNEAQIKIWFQNKRAKI 54
>pdb|2DJN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Dlx-5
Length = 70
Score = 51.2 bits (121), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 21/44 (47%), Positives = 29/44 (65%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKE 80
L++ F YL R E+A +L LT+ Q+KIWFQN+R K+KK
Sbjct: 22 LQRRFQKTQYLALPERAELAASLGLTQTQVKIWFQNKRSKIKKS 65
>pdb|2DMT|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Barh-Like 1
Length = 80
Score = 50.8 bits (120), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 22/43 (51%), Positives = 30/43 (69%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
LEK F YL+ RI++A +L L++ Q+K W+QNRRMK KK
Sbjct: 32 LEKRFEKQKYLSTPDRIDLAESLGLSQLQVKTWYQNRRMKWKK 74
>pdb|2E1O|A Chain A, Solution Structure Of Rsgi Ruh-028, A Homeobox Domain
From Human Cdna
Length = 70
Score = 50.4 bits (119), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 23/44 (52%), Positives = 30/44 (68%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
ELEK+F T YL+ R +A L L+ERQ+K WFQNRR K ++
Sbjct: 21 ELEKKFETQKYLSPPERKRLAKMLQLSERQVKTWFQNRRAKWRR 64
>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 = 48.9 bits (115), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 22/43 (51%), Positives = 31/43 (72%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
L++EF+ N YLT RRR +++ L L E Q+K WF+N R K+KK
Sbjct: 19 LKREFNENRYLTERRRQQLSSELGLNEAQVKGWFKNMRAKIKK 61
>pdb|1IG7|A Chain A, Msx-1 HomeodomainDNA COMPLEX STRUCTURE
Length = 58
Score = 48.9 bits (115), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 22/43 (51%), Positives = 29/43 (67%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
LE++F YL+ R E + +L LTE Q+KIWFQNRR K K+
Sbjct: 15 LERKFRQKQYLSIAERAEFSSSLSLTETQVKIWFQNRRAKAKR 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 = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 28/46 (60%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKEI 81
ELEK FH YL R +A L +T+ Q+K WFQNRR K +++
Sbjct: 31 ELEKRFHKQKYLASAERAALARGLKMTDAQVKTWFQNRRTKWRRQT 76
>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 = 46.6 bits (109), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 23/45 (51%), Positives = 30/45 (66%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKE 80
ELE++F YL+ R +A L LTE Q+KIWFQNRR K K++
Sbjct: 18 ELERKFSHQKYLSAPERAHLAKNLKLTETQVKIWFQNRRYKTKRK 62
>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 = 45.8 bits (107), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 22/43 (51%), Positives = 27/43 (62%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLK 78
ELE+ F YL+ R ++A L LT Q+KIWFQNRR K K
Sbjct: 16 ELERRFKQQRYLSAPERDQLASVLKLTSTQVKIWFQNRRYKSK 58
>pdb|3A02|A Chain A, Crystal Structure Of Aristaless Homeodomain
Length = 60
Score = 44.3 bits (103), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/45 (48%), Positives = 29/45 (64%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKE 80
ELEK F HY R E+A + LTE +I++WFQNRR K +K+
Sbjct: 13 ELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQ 57
>pdb|3LNQ|A Chain A, Structure Of Aristaless Homeodomain In Complex With Dna
Length = 58
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/45 (48%), Positives = 29/45 (64%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKE 80
ELEK F HY R E+A + LTE +I++WFQNRR K +K+
Sbjct: 13 ELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQ 57
>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 = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 22/45 (48%), Positives = 29/45 (64%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKE 80
ELEK F HY R E+A + LTE +I++WFQNRR K +K+
Sbjct: 20 ELEKAFSRTHYPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQ 64
>pdb|3A03|A Chain A, Crystal Structure Of Hox11l1 Homeodomain
Length = 56
Score = 43.5 bits (101), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 28/45 (62%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKE 80
ELE+ F YL R +A AL +T+ Q+K WFQNRR K +++
Sbjct: 11 ELERRFLRQKYLASAERAALAKALRMTDAQVKTWFQNRRTKWRRQ 55
>pdb|1FTT|A Chain A, Thyroid Transcription Factor 1 Homeodomain (Rattus
Norvegicus)
Length = 68
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 28/45 (62%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKE 80
ELE+ F YL+ R +A + LT Q+KIWFQN R K+K++
Sbjct: 16 ELERRFKQQKYLSAPEREHLASMIHLTPTQVKIWFQNHRYKMKRQ 60
>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 = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 28/45 (62%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKE 80
ELE+ F Y R E+A LTE +I++WFQNRR +L+K+
Sbjct: 32 ELERAFERTQYPDIYTREELAQRTNLTEARIQVWFQNRRARLRKQ 76
>pdb|2L7M|P Chain P, Solution Structure Of The Pitx2 Homeodomain R24h Mutant
Length = 68
Score = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 27/44 (61%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
ELE F NHY R E+A LTE ++++WF+NRR K +K
Sbjct: 17 ELEATFQRNHYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRK 60
>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 = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 26/44 (59%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
ELE+ F YL+ R +A + LT Q+KIWFQN R K K+
Sbjct: 23 ELERRFRQQRYLSAPEREHLASLIRLTPTQVKIWFQNHRYKTKR 66
>pdb|2M0C|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Human Alx4,
Northeast Structural Genomics Consortium (Nesg) Target
Hr4490c
Length = 75
Score = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 27/44 (61%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
ELEK F HY R ++A LTE ++++WFQNRR K +K
Sbjct: 23 ELEKVFQKTHYPDVYAREQLAMRTDLTEARVQVWFQNRRAKWRK 66
>pdb|2CUE|A Chain A, Solution Structure Of The Homeobox Domain Of The Human
Paired Box Protein Pax-6
Length = 80
Score = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 26/44 (59%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKE 80
LEKEF HY R +A + L E +I++WF NRR K ++E
Sbjct: 22 LEKEFERTHYPDVFARERLAAKIDLPEARIQVWFSNRRAKWRRE 65
>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 = 6e-04, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 26/43 (60%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLK 78
ELE+ F YLT R +++ L L Q+KIWF+NRR + K
Sbjct: 16 ELEQHFLQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRRHK 58
>pdb|1QRY|A Chain A, Homeobox Protein Vnd (Ventral Nervous System Defective
Protein)
Length = 80
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 25/44 (56%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
ELE+ F YL+ R + + LT Q+KIWFQN R K K+
Sbjct: 26 ELERRFRQQRYLSAPEREHLTSLIRLTPTQVKIWFQNHRYKTKR 69
>pdb|3CMY|A Chain A, Structure Of A Homeodomain In Complex With Dna
Length = 61
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 27/45 (60%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKE 80
ELE+ F HY R E+A LTE ++++WF NRR + +K+
Sbjct: 16 ELERAFERTHYPDIYTREELAQRAKLTEARVQVWFSNRRARWRKQ 60
>pdb|2KT0|A Chain A, Solution Structure Of Human Stem Cell Transcription
Factor Nanog Homeodomain Fragment
Length = 84
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 28/43 (65%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
L F YL+ ++ E+++ L L+ +Q+K WFQN+RMK K+
Sbjct: 37 LNDRFQRQKYLSLQQMQELSNILNLSYKQVKTWFQNQRMKSKR 79
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 28/43 (65%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
L+ F YL+ ++ E++ L L+ +Q+K WFQN+RMK K+
Sbjct: 18 LKDRFQKQKYLSLQQMQELSSILNLSYKQVKTWFQNQRMKCKR 60
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 26/44 (59%)
Query: 36 ELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
ELE F N Y R E+A LTE ++++WF+NRR K +K
Sbjct: 17 ELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRK 60
>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 = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 15/18 (83%), Positives = 16/18 (88%)
Query: 64 RQIKIWFQNRRMKLKKEI 81
RQIKIWFQNRRMK KK +
Sbjct: 1 RQIKIWFQNRRMKWKKRV 18
>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 = 34.3 bits (77), Expect = 0.016, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 24/42 (57%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLK 78
LE+ F L + + E+A +T Q+++WF N+RM+ K
Sbjct: 380 LEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 421
>pdb|4EGC|A Chain A, Crystal Structure Of Mbp-fused Human Six1 Bound To Human
Eya2 Eya Domain
Length = 559
Score = 33.5 bits (75), Expect = 0.030, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 23/40 (57%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMK 76
L + + N Y + R + E+A A LT Q+ WF+NRR +
Sbjct: 509 LREWYAHNPYPSPREKRELAEATGLTTTQVSNWFKNRRQR 548
>pdb|1KZ0|A Chain A, Solution Structure Of The Third Helix Of Antennapedia
Homeodomain
Length = 16
Score = 33.5 bits (75), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 15/16 (93%), Positives = 15/16 (93%)
Query: 64 RQIKIWFQNRRMKLKK 79
RQIKIWFQNRRMK KK
Sbjct: 1 RQIKIWFQNRRMKWKK 16
>pdb|2K40|A Chain A, Nmr Structure Of Hesx-1 Homeodomain Double Mutant
R31lE42L
Length = 67
Score = 32.3 bits (72), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 24/43 (55%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
LE F N Y ++A L L +I+IWFQNRR KLK+
Sbjct: 16 LENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNRRAKLKR 58
>pdb|1B72|B Chain B, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 87
Score = 32.3 bits (72), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 24/44 (54%)
Query: 43 TNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKEIQAIKE 86
+N Y + + E+A +T Q+ WF N+R++ KK I +E
Sbjct: 25 SNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNIGKFQE 68
>pdb|1PUF|B Chain B, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound
To Dna
Length = 73
Score = 32.3 bits (72), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 24/44 (54%)
Query: 43 TNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKEIQAIKE 86
+N Y + + E+A +T Q+ WF N+R++ KK I +E
Sbjct: 25 SNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKNIGKFQE 68
>pdb|1LFU|P Chain P, Nmr Solution Stucture Of The Extended Pbx Homeodomain
Bound To Dna
Length = 82
Score = 32.0 bits (71), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 24/44 (54%)
Query: 43 TNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKEIQAIKE 86
+N Y + + E+A +T Q+ WF N+R++ KK I +E
Sbjct: 26 SNPYPSEEAKEELAKKSGITVSQVSNWFGNKRIRYKKNIGKFQE 69
>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 = 32.0 bits (71), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 24/42 (57%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLK 78
LE+ F L + + E+A +T Q+++WF N+RM+ K
Sbjct: 20 LEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 61
>pdb|1OMQ|A Chain A, Structure Of Penetratin In Bicellar Solution
Length = 16
Score = 31.6 bits (70), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 14/15 (93%), Positives = 14/15 (93%)
Query: 65 QIKIWFQNRRMKLKK 79
QIKIWFQNRRMK KK
Sbjct: 2 QIKIWFQNRRMKWKK 16
>pdb|1AKH|A Chain A, Mat A1ALPHA2DNA TERNARY COMPLEX
Length = 61
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 24/42 (57%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLK 78
LE+ F L + + E+A +T Q+++WF N+RM+ K
Sbjct: 20 LEEVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 61
>pdb|1LE8|A Chain A, Crystal Structure Of The Mata1MATALPHA2-3a Heterodimer
Bound To Dna Complex
Length = 53
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 24/42 (57%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLK 78
LE+ F L + + E+A +T Q+++WF N+RM+ K
Sbjct: 12 LEQVFRRKQSLNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 53
>pdb|2DMQ|A Chain A, Solution Structure Of The Homeobox Domain Of LimHOMEOBOX
Protein Lhx9
Length = 80
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 13/45 (28%), Positives = 25/45 (55%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKEI 81
++ F NH + ++A LT+R +++WFQN R K ++ +
Sbjct: 22 MKSYFAINHNPDAKDLKQLAQKTGLTKRVLQVWFQNARAKFRRNL 66
>pdb|1KZ2|A Chain A, Solution Structure Of The Third Helix Of Antennapedia
Homeodomain Derivative [w6f,W14f]
Length = 16
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 14/16 (87%), Positives = 15/16 (93%)
Query: 64 RQIKIWFQNRRMKLKK 79
RQIKI+FQNRRMK KK
Sbjct: 1 RQIKIFFQNRRMKFKK 16
>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 = 0.22, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 22/39 (56%)
Query: 43 TNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKEI 81
+N Y + + E+A +T Q+ WF N+R++ KK I
Sbjct: 25 SNPYPSEEAKEELARKCGITVSQVSNWFGNKRIRYKKNI 63
>pdb|1DU6|A Chain A, Solution Structure Of The Truncated Pbx Homeodomain
Length = 64
Score = 30.4 bits (67), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 21/37 (56%)
Query: 43 TNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
+N Y + + E+A +T Q+ WF N+R++ KK
Sbjct: 27 SNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKK 63
>pdb|2DA2|A Chain A, Solution Structure Of The Second Homeobox Domain Of At-
Binding Transcription Factor 1 (Atbf1)
Length = 70
Score = 30.0 bits (66), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 22/44 (50%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKKE 80
L+ F N Y ++++ L L R I +WFQN R K +K
Sbjct: 22 LQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNARQKARKS 65
>pdb|2DMU|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Goosecoid
Length = 70
Score = 30.0 bits (66), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 24/43 (55%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
LE F Y R ++A + L E ++++WF+NRR K ++
Sbjct: 22 LENLFQETKYPDVGTREQLARKVHLREEKVEVWFKNRRAKWRR 64
>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 = 30.0 bits (66), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 22/43 (51%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
LEK F N T +A L + + I++WF NRR K K+
Sbjct: 115 LEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFSNRRQKEKR 157
>pdb|1E3O|C Chain C, Crystal Structure Of Oct-1 Pou Dimer Bound To More
Length = 160
Score = 30.0 bits (66), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 22/43 (51%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
LEK F N T +A L + + I++WF NRR K K+
Sbjct: 116 LEKSFMENQKPTSEDITLIAEQLNMEKEVIRVWFSNRRQKEKR 158
>pdb|2DMS|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Otx2
Length = 80
Score = 30.0 bits (66), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 23/42 (54%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLK 78
LE F Y R E+A + L E ++++WF+NRR K +
Sbjct: 22 LEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAKCR 63
>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 = 28.9 bits (63), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 22/43 (51%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
LEK F N T +A L + + I++WF NRR K K+
Sbjct: 119 LEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFCNRRQKEKR 161
>pdb|2DA3|A Chain A, Solution Structure Of The Third Homeobox Domain Of At-
Binding Transcription Factor 1 (Atbf1)
Length = 80
Score = 28.9 bits (63), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 18/25 (72%)
Query: 55 MAHALCLTERQIKIWFQNRRMKLKK 79
+AH + L +R +++WFQN R + +K
Sbjct: 50 IAHEVGLKKRVVQVWFQNTRARERK 74
>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 = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 22/43 (51%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
LEK F N T +A L + + I++WF NRR K K+
Sbjct: 118 LEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFCNRRQKEKR 160
>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 = 28.1 bits (61), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 22/43 (51%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
LEK F N T +A L + + I++WF NRR K K+
Sbjct: 111 LEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFCNRRQKEKR 153
>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 = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 15/19 (78%)
Query: 61 LTERQIKIWFQNRRMKLKK 79
L+ R I++WFQN+R K KK
Sbjct: 42 LSPRVIRVWFQNKRCKDKK 60
>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 = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
LEK F N T + +A L + + I++WF NRR K K+
Sbjct: 16 LEKSFLANQKPTSEEILLIAEQLHMEKEVIRVWFCNRRQKEKR 58
>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 = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 17/38 (44%)
Query: 41 FHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLK 78
F N T + E A L +++WF NRR LK
Sbjct: 112 FEKNPLPTGQEITEXAKELNYDREVVRVWFSNRRQTLK 149
>pdb|1POG|A Chain A, Solution Structure Of The Oct-1 Pou-Homeo Domain
Determined By Nmr And Restrained Molecular Dynamics
Length = 67
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 22/43 (51%)
Query: 37 LEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNRRMKLKK 79
LEK F N T +A L + + I++WF NRR K K+
Sbjct: 22 LEKSFLENQKPTSEEITMIADQLNMEKEVIRVWFCNRRQKEKR 64
>pdb|1AU7|A Chain A, Pit-1 MutantDNA COMPLEX
pdb|1AU7|B Chain B, Pit-1 MutantDNA COMPLEX
Length = 146
Score = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 28/66 (42%)
Query: 14 EDEGANXXXXXXXXXXXXXXXXELEKEFHTNHYLTRRRRIEMAHALCLTERQIKIWFQNR 73
E GAN LE+ F + + + + MA L L + +++WF NR
Sbjct: 79 EKVGANERKRKRRTTISIAAKDALERHFGEHSKPSSQEIMRMAEELNLEKEVVRVWFCNR 138
Query: 74 RMKLKK 79
R + K+
Sbjct: 139 RQREKR 144
>pdb|2JT9|B Chain B, Nmr Structure Of Immunosuppressory Peptide Containing
Cyclolinopeptide X And Antennapedia(43-58) Sequences
Length = 17
Score = 26.2 bits (56), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 13/16 (81%), Positives = 13/16 (81%)
Query: 64 RQIKIWFQNRRMKLKK 79
RQIKI FQNRR K KK
Sbjct: 1 RQIKIXFQNRRXKXKK 16
>pdb|3L1P|A Chain A, Pou Protein:dna Complex
pdb|3L1P|B Chain B, Pou Protein:dna Complex
Length = 155
Score = 25.8 bits (55), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 17/25 (68%)
Query: 55 MAHALCLTERQIKIWFQNRRMKLKK 79
+A+ L L + +++WF NRR K K+
Sbjct: 129 IANQLGLEKDVVRVWFSNRRQKGKR 153
>pdb|2XSD|C Chain C, Crystal Structure Of The Dimeric Oct-6 (Pou3f1) Pou Domain
Bound To Palindromic More Dna
Length = 164
Score = 25.8 bits (55), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 29/78 (37%)
Query: 6 SSDLMTNLEDEGANXXXXXXXXXXXXXXXXELEKEFHTNHYLTRRRRIEMAHALCLTERQ 65
SS TNL+ A LE F + +A +L L +
Sbjct: 83 SSGSPTNLDKIAAQGRKRKKRTSIEVGVKGALESHFLKCPKPSAHEITGLADSLQLEKEV 142
Query: 66 IKIWFQNRRMKLKKEIQA 83
+++WF NRR K K+ A
Sbjct: 143 VRVWFCNRRQKEKRMTPA 160
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
0.322 0.132 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,899,620
Number of Sequences: 62578
Number of extensions: 48421
Number of successful extensions: 149
Number of sequences better than 100.0: 83
Number of HSP's better than 100.0 without gapping: 82
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 67
Number of HSP's gapped (non-prelim): 83
length of query: 111
length of database: 14,973,337
effective HSP length: 75
effective length of query: 36
effective length of database: 10,279,987
effective search space: 370079532
effective search space used: 370079532
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)