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= psy16796
(166 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 66.2 bits (160), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 31/46 (67%), Positives = 36/46 (78%)
Query: 76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
G +R RTAYT QLLELEKEF FNKY+ RPRR+E+A L+LTER
Sbjct: 1 GSNKRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERH 46
>pdb|1B72|A Chain A, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 97
Score = 65.9 bits (159), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 31/46 (67%), Positives = 35/46 (76%)
Query: 76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
G P LRT +T QL ELEKEFHFNKYL R RR+EIAA+L+L E Q
Sbjct: 32 GSPSGLRTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQ 77
>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 = 65.1 bits (157), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 32/46 (69%), Positives = 36/46 (78%)
Query: 76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
G +R RT+YT Q LELEKEFHFN+YL R RRIEIA +L LTERQ
Sbjct: 26 GETKRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQ 71
>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 = 60.8 bits (146), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 30/43 (69%), Positives = 33/43 (76%)
Query: 79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
+R R YT Q LELEKEFHFN+YL R RRIEIA +L LTERQ
Sbjct: 3 KRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQ 45
>pdb|9ANT|A Chain A, Antennapedia Homeodomain-Dna Complex
pdb|9ANT|B Chain B, Antennapedia Homeodomain-Dna Complex
Length = 62
Score = 60.8 bits (146), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 30/43 (69%), Positives = 33/43 (76%)
Query: 79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
+R R YT Q LELEKEFHFN+YL R RRIEIA +L LTERQ
Sbjct: 4 KRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQ 46
>pdb|1B8I|A Chain A, Structure Of The Homeotic UbxEXDDNA TERNARY COMPLEX
Length = 81
Score = 60.5 bits (145), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 31/46 (67%), Positives = 33/46 (71%)
Query: 76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
GL RR R YT Q LELEKEFH N YL R RRIE+A +L LTERQ
Sbjct: 18 GLRRRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQ 63
>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 = 58.9 bits (141), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 30/45 (66%), Positives = 34/45 (75%)
Query: 77 LPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
+ +R R YT Q LELEKEFHFN+YL R RRIEIA +L LTERQ
Sbjct: 1 MRKRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALCLTERQ 45
>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 = 58.2 bits (139), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 28/38 (73%), Positives = 30/38 (78%)
Query: 84 AYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
YT Q LELEKEFHFN+YL R RRIEIA +L LTERQ
Sbjct: 2 TYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQ 39
>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 = 57.8 bits (138), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 27/43 (62%), Positives = 33/43 (76%)
Query: 79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
+R R YT Q LELEKEFHFN+Y+ R RRI+IA +L L+ERQ
Sbjct: 4 KRTRQTYTRYQTLELEKEFHFNRYITRRRRIDIANALSLSERQ 46
>pdb|2M34|A Chain A, Nmr Structure Of The Homeodomain Transcription Factor Gbx1
From Homo Sapiens
Length = 71
Score = 51.2 bits (121), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 27/46 (58%), Positives = 32/46 (69%)
Query: 76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
G RR RTA+T+ QLLELEKEFH KYL R +IA +L L+E Q
Sbjct: 5 GKSRRRRTAFTSEQLLELEKEFHCKKYLSLTERSQIAHALKLSEVQ 50
>pdb|2LP0|A Chain A, The Solution Structure Of Homeodomain-Protein Complex
Length = 60
Score = 50.8 bits (120), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 27/43 (62%), Positives = 30/43 (69%)
Query: 79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
R+ R YT Q LELEKEF FN YL R RR E+A L+LTERQ
Sbjct: 2 RKKRCPYTKYQTLELEKEFLFNMYLTRDRRYEVARVLNLTERQ 44
>pdb|1PUF|A Chain A, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound To
Dna
Length = 77
Score = 50.4 bits (119), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 27/43 (62%), Positives = 30/43 (69%)
Query: 79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
R+ R YT Q LELEKEF FN YL R RR E+A L+LTERQ
Sbjct: 14 RKKRCPYTKHQTLELEKEFLFNMYLTRDRRYEVARLLNLTERQ 56
>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 = 48.1 bits (113), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/41 (58%), Positives = 29/41 (70%)
Query: 79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTE 119
RR RTA+T QL LEKEF+ Y+ RPRR E+AA L+L E
Sbjct: 2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPE 42
>pdb|2DMT|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Barh-Like 1
Length = 80
Score = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/48 (47%), Positives = 29/48 (60%)
Query: 79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQSDCKY 126
RR RT +T QL+ LEK F KYL P RI++A SL L++ Q Y
Sbjct: 18 RRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVKTWY 65
>pdb|2DJN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Dlx-5
Length = 70
Score = 42.4 bits (98), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/43 (46%), Positives = 28/43 (65%)
Query: 79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
R+ RT Y++ QL L++ F +YL P R E+AASL LT+ Q
Sbjct: 8 RKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQ 50
>pdb|2LD5|A Chain A, Solution Nmr-Derived Complex Structure Of Hoxa13 Dna
Binding Domain Bound To Dna
Length = 67
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 30/43 (69%)
Query: 79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
R+ R YT QL ELE+E+ NK++ + +R I+A+ +L+ERQ
Sbjct: 2 RKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQ 44
>pdb|2L7Z|A Chain A, Nmr Structure Of A13 Homedomain
Length = 73
Score = 42.0 bits (97), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 30/43 (69%)
Query: 79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
R+ R YT QL ELE+E+ NK++ + +R I+A+ +L+ERQ
Sbjct: 8 RKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQ 50
>pdb|2CRA|A Chain A, Solution Structure Of The Homeobox Domain Of Human Homeo
Box B13
Length = 70
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 30/43 (69%)
Query: 79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
R+ R Y+ QL ELE+E+ NK++ + +R +I+A+ L+ERQ
Sbjct: 8 RKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQ 50
>pdb|1ZQ3|P Chain P, Nmr Solution Structure Of The Bicoid Homeodomain Bound To
The Consensus Dna Binding Site Taatcc
Length = 68
Score = 40.8 bits (94), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 28/44 (63%)
Query: 78 PRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
PRR RT +T++Q+ ELE+ F +YL PR +++A L L Q
Sbjct: 2 PRRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQ 45
>pdb|2E1O|A Chain A, Solution Structure Of Rsgi Ruh-028, A Homeobox Domain From
Human Cdna
Length = 70
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 24/37 (64%)
Query: 85 YTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
++N Q +ELEK+F KYL P R +A L L+ERQ
Sbjct: 14 FSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQ 50
>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 = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 24/40 (60%)
Query: 82 RTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
RT++T Q+ ELEK FH KYL R +A L +T+ Q
Sbjct: 21 RTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQ 60
>pdb|1IG7|A Chain A, Msx-1 HomeodomainDNA COMPLEX STRUCTURE
Length = 58
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/43 (46%), Positives = 27/43 (62%)
Query: 79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
R+ RT +T QLL LE++F +YL R E ++SL LTE Q
Sbjct: 1 RKPRTPFTTAQLLALERKFRQKQYLSIAERAEFSSSLSLTETQ 43
>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 = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 30/43 (69%)
Query: 79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
+R RTA+++ QL L++EF+ N+YL RR ++++ L L E Q
Sbjct: 5 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQ 47
>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 = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 30/43 (69%)
Query: 79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
+R RTA+++ QL L++EF+ N+YL RR ++++ L L E Q
Sbjct: 4 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQ 46
>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 = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 30/43 (69%)
Query: 79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
+R RTA+++ QL L++EF+ N+YL RR ++++ L L E Q
Sbjct: 4 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQ 46
>pdb|3HDD|A Chain A, Engrailed Homeodomain Dna Complex
pdb|3HDD|B Chain B, Engrailed Homeodomain Dna Complex
Length = 60
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 30/43 (69%)
Query: 79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
+R RTA+++ QL L++EF+ N+YL RR ++++ L L E Q
Sbjct: 2 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQ 44
>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 = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 30/43 (69%)
Query: 79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
+R RTA+++ QL L++EF+ N+YL RR ++++ L L E Q
Sbjct: 2 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQ 44
>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 = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 30/43 (69%)
Query: 79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
+R RTA+++ QL L++EF+ N+YL RR ++++ L L E Q
Sbjct: 2 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQ 44
>pdb|1ZTR|A Chain A, Solution Structure Of Engrailed Homeodomain L16a Mutant
Length = 61
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 30/46 (65%)
Query: 76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
G +R RTA+++ QL ++EF+ N+YL RR ++++ L L E Q
Sbjct: 1 GDEKRPRTAFSSEQLARAKREFNENRYLTERRRQQLSSELGLNEAQ 46
>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 = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 29/42 (69%)
Query: 80 RLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
R RTA+++ QL L++EF+ N+YL RR ++++ L L E Q
Sbjct: 1 RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQ 42
>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 = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 23/34 (67%)
Query: 88 TQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
TQ++ELE++F KYL P R +A +L LTE Q
Sbjct: 14 TQVIELERKFSHQKYLSAPERAHLAKNLKLTETQ 47
>pdb|1ENH|A Chain A, Structural Studies Of The Engrailed Homeodomain
Length = 54
Score = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 29/42 (69%)
Query: 80 RLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
R RTA+++ QL L++EF+ N+YL RR ++++ L L E Q
Sbjct: 1 RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQ 42
>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 = 36.2 bits (82), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 21/44 (47%), Positives = 25/44 (56%)
Query: 76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTE 119
G RR RT +T+ QL ELE F N+Y R EIA +LTE
Sbjct: 1 GSQRRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTE 44
>pdb|2L7M|P Chain P, Solution Structure Of The Pitx2 Homeodomain R24h Mutant
Length = 68
Score = 35.0 bits (79), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 21/44 (47%), Positives = 24/44 (54%)
Query: 76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTE 119
G RR RT +T+ QL ELE F N Y R EIA +LTE
Sbjct: 1 GSQRRQRTHFTSQQLQELEATFQRNHYPDMSTREEIAVWTNLTE 44
>pdb|3A03|A Chain A, Crystal Structure Of Hox11l1 Homeodomain
Length = 56
Score = 33.5 bits (75), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 25/39 (64%)
Query: 83 TAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
T+++ +Q+LELE+ F KYL R +A +L +T+ Q
Sbjct: 2 TSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQ 40
>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 = 33.1 bits (74), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 25/43 (58%)
Query: 79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
R+ R ++ Q+ ELE+ F +YL P R ++A+ L LT Q
Sbjct: 3 RKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQ 45
>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 = 32.3 bits (72), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 26/49 (53%), Gaps = 3/49 (6%)
Query: 76 GLP---RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
GLP R+ R +T Q ELE+ F +YL P R +A+ + LT Q
Sbjct: 4 GLPNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRLTPTQ 52
>pdb|1FTT|A Chain A, Thyroid Transcription Factor 1 Homeodomain (Rattus
Norvegicus)
Length = 68
Score = 32.0 bits (71), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 24/43 (55%)
Query: 79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
R+ R ++ Q+ ELE+ F KYL P R +A+ + LT Q
Sbjct: 3 RKRRVLFSQAQVYELERRFKQQKYLSAPEREHLASMIHLTPTQ 45
>pdb|2M0C|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Human Alx4,
Northeast Structural Genomics Consortium (Nesg) Target
Hr4490c
Length = 75
Score = 31.6 bits (70), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 24/44 (54%)
Query: 76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTE 119
G RR RT +T+ QL ELEK F Y R ++A DLTE
Sbjct: 7 GKKRRNRTTFTSYQLEELEKVFQKTHYPDVYAREQLAMRTDLTE 50
>pdb|1QRY|A Chain A, Homeobox Protein Vnd (Ventral Nervous System Defective
Protein)
Length = 80
Score = 30.4 bits (67), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 3/49 (6%)
Query: 76 GLP---RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
GLP R+ R +T Q ELE+ F +YL P R + + + LT Q
Sbjct: 7 GLPNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLTSLIRLTPTQ 55
>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 = 30.4 bits (67), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 27/46 (58%)
Query: 76 GLPRRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTERQ 121
G +++RT ++ QL L+ F KYL + E+++ L+L+ +Q
Sbjct: 1 GTKQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQ 46
>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 = 30.0 bits (66), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 19/41 (46%), Positives = 23/41 (56%)
Query: 79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTE 119
RR RT +T+ QL ELEK F Y R E+A + LTE
Sbjct: 7 RRYRTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTE 47
>pdb|2CUE|A Chain A, Solution Structure Of The Homeobox Domain Of The Human
Paired Box Protein Pax-6
Length = 80
Score = 29.6 bits (65), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 24/43 (55%), Gaps = 6/43 (13%)
Query: 80 RLRTAYTNTQLLELEKEF---HFNKYLCRPRRIEIAASLDLTE 119
R RT++T Q+ LEKEF H+ R R +AA +DL E
Sbjct: 9 RNRTSFTQEQIEALEKEFERTHYPDVFARER---LAAKIDLPE 48
>pdb|3LNQ|A Chain A, Structure Of Aristaless Homeodomain In Complex With Dna
Length = 58
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 22/40 (55%)
Query: 80 RLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTE 119
R RT +T+ QL ELEK F Y R E+A + LTE
Sbjct: 1 RYRTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTE 40
>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 = 27.7 bits (60), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 24/41 (58%)
Query: 79 RRLRTAYTNTQLLELEKEFHFNKYLCRPRRIEIAASLDLTE 119
RR RT ++ +QL ELE+ F +Y R E+A +LTE
Sbjct: 19 RRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTE 59
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 0.135 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,113,077
Number of Sequences: 62578
Number of extensions: 41398
Number of successful extensions: 141
Number of sequences better than 100.0: 48
Number of HSP's better than 100.0 without gapping: 48
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 93
Number of HSP's gapped (non-prelim): 48
length of query: 166
length of database: 14,973,337
effective HSP length: 92
effective length of query: 74
effective length of database: 9,216,161
effective search space: 681995914
effective search space used: 681995914
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 47 (22.7 bits)