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= psy7434
         (91 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|2DMU|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
          Protein Goosecoid
          Length = 70

 Score = 65.9 bits (159), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 32/45 (71%), Positives = 37/45 (82%)

Query: 46 RRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
          RRHRTIFT+EQLE LE  F++T YPDV  REQLA KV L+EE+VE
Sbjct: 8  RRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVE 52


>pdb|2M0C|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Human Alx4,
          Northeast Structural Genomics Consortium (Nesg) Target
          Hr4490c
          Length = 75

 Score = 65.1 bits (157), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 30/47 (63%), Positives = 37/47 (78%)

Query: 44 RKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
          +KRR+RT FT  QLE+LE  F+KTHYPDV  REQLA++ DL E RV+
Sbjct: 8  KKRRNRTTFTSYQLEELEKVFQKTHYPDVYAREQLAMRTDLTEARVQ 54


>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 = 62.0 bits (149), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 27/50 (54%), Positives = 38/50 (76%)

Query: 41 PPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
          P +++RR+RT FT  QLE+LE  F +THYPDV  RE+LA+K+ L E R++
Sbjct: 2  PKRKQRRYRTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQ 51


>pdb|2CUE|A Chain A, Solution Structure Of The Homeobox Domain Of The Human
          Paired Box Protein Pax-6
          Length = 80

 Score = 60.8 bits (146), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 27/44 (61%), Positives = 35/44 (79%)

Query: 47 RHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
          R+RT FT+EQ+E LE  FE+THYPDV  RE+LA K+DL E R++
Sbjct: 9  RNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQ 52


>pdb|2DMS|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
          Protein Otx2
          Length = 80

 Score = 58.5 bits (140), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 26/45 (57%), Positives = 34/45 (75%)

Query: 46 RRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
          RR RT FT  QL+ LEA F KT YPD+ +RE++ALK++L E RV+
Sbjct: 8  RRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQ 52


>pdb|3CMY|A Chain A, Structure Of A Homeodomain In Complex With Dna
          Length = 61

 Score = 57.8 bits (138), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 27/46 (58%), Positives = 34/46 (73%)

Query: 45 KRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
          +RR RT FT EQLE+LE  FE+THYPD+  RE+LA +  L E RV+
Sbjct: 2  QRRSRTTFTAEQLEELERAFERTHYPDIYTREELAQRAKLTEARVQ 47


>pdb|3LNQ|A Chain A, Structure Of Aristaless Homeodomain In Complex With Dna
          Length = 58

 Score = 56.6 bits (135), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 25/44 (56%), Positives = 33/44 (75%)

Query: 47 RHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
          R+RT FT  QLE+LE  F +THYPDV  RE+LA+K+ L E R++
Sbjct: 1  RYRTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQ 44


>pdb|2L7M|P Chain P, Solution Structure Of The Pitx2 Homeodomain R24h Mutant
          Length = 68

 Score = 55.5 bits (132), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 24/45 (53%), Positives = 35/45 (77%)

Query: 45 KRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
          +RR RT FT +QL++LEATF++ HYPD+  RE++A+  +L E RV
Sbjct: 3  QRRQRTHFTSQQLQELEATFQRNHYPDMSTREEIAVWTNLTEARV 47


>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 = 52.4 bits (124), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 22/48 (45%), Positives = 35/48 (72%)

Query: 43 KRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
          +++RR RT F+  QL++LE  FE+T YPD+  RE+LA + +L E R++
Sbjct: 16 RKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQ 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 = 52.0 bits (123), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 23/45 (51%), Positives = 34/45 (75%)

Query: 45 KRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
          +RR RT FT +QL++LEATF++  YPD+  RE++A+  +L E RV
Sbjct: 3  QRRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARV 47


>pdb|3A02|A Chain A, Crystal Structure Of Aristaless Homeodomain
          Length = 60

 Score = 50.8 bits (120), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 22/39 (56%), Positives = 29/39 (74%)

Query: 52 FTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
          FT  QLE+LE  F +THYPDV  RE+LA+K+ L E R++
Sbjct: 6  FTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQ 44


>pdb|2K40|A Chain A, Nmr Structure Of Hesx-1 Homeodomain Double Mutant
          R31lE42L
          Length = 67

 Score = 38.5 bits (88), Expect = 0.001,   Method: Compositional matrix adjust.
 Identities = 19/45 (42%), Positives = 29/45 (64%)

Query: 46 RRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
          RR RT FT+ Q+E LE  F    YP + + E LA K++L+ +R++
Sbjct: 2  RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQ 46


>pdb|2M34|A Chain A, Nmr Structure Of The Homeodomain Transcription Factor
          Gbx1 From Homo Sapiens
          Length = 71

 Score = 35.8 bits (81), Expect = 0.005,   Method: Compositional matrix adjust.
 Identities = 20/51 (39%), Positives = 27/51 (52%)

Query: 40 PPPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
           P  + RR RT FT EQL +LE  F    Y  +  R Q+A  + L E +V+
Sbjct: 2  APGGKSRRRRTAFTSEQLLELEKEFHCKKYLSLTERSQIAHALKLSEVQVK 52


>pdb|2DMT|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
          Protein Barh-Like 1
          Length = 80

 Score = 35.4 bits (80), Expect = 0.009,   Method: Compositional matrix adjust.
 Identities = 22/42 (52%), Positives = 25/42 (59%), Gaps = 4/42 (9%)

Query: 43 KRKRRHRTIFTEEQLEQLEATFEKTHY---PDVV-LREQLAL 80
          K+ RR RT+FTE QL  LE  FEK  Y   PD + L E L L
Sbjct: 15 KKGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGL 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 = 32.0 bits (71), Expect = 0.091,   Method: Compositional matrix adjust.
 Identities = 18/45 (40%), Positives = 28/45 (62%)

Query: 46 RRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
          RR+RT FT +QL +LE  F K +Y     R +LA +++L E  ++
Sbjct: 2  RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIK 46


>pdb|2DJN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human
          Homeobox Protein Dlx-5
          Length = 70

 Score = 31.2 bits (69), Expect = 0.17,   Method: Compositional matrix adjust.
 Identities = 16/45 (35%), Positives = 27/45 (60%)

Query: 46 RRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
          R+ RTI++  QL  L+  F+KT Y  +  R +LA  + L + +V+
Sbjct: 8  RKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVK 52


>pdb|2DMQ|A Chain A, Solution Structure Of The Homeobox Domain Of LimHOMEOBOX
          Protein Lhx9
          Length = 80

 Score = 30.0 bits (66), Expect = 0.39,   Method: Compositional matrix adjust.
 Identities = 15/39 (38%), Positives = 20/39 (51%)

Query: 46 RRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDL 84
          +R RT F   QL  +++ F   H PD    +QLA K  L
Sbjct: 8  KRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGL 46


>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 = 29.3 bits (64), Expect = 0.56,   Method: Compositional matrix adjust.
 Identities = 14/29 (48%), Positives = 18/29 (62%)

Query: 42  PKRKRRHRTIFTEEQLEQLEATFEKTHYP 70
           P +KR+ RT FT + +E L A FEK   P
Sbjct: 90  PSKKRKRRTSFTPQAIEALNAYFEKNPLP 118


>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 = 29.3 bits (64), Expect = 0.60,   Method: Compositional matrix adjust.
 Identities = 16/45 (35%), Positives = 27/45 (60%)

Query: 46 RRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
          +R RT F+ EQL +L+  F +  Y     R+QL+ ++ L E +V+
Sbjct: 5  KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQVK 49


>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 = 29.3 bits (64), Expect = 0.62,   Method: Compositional matrix adjust.
 Identities = 16/43 (37%), Positives = 23/43 (53%)

Query: 42 PKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDL 84
          P +KR+ R +FT+ Q  +LE  F +  Y     RE LA  + L
Sbjct: 6  PNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLASLIRL 48


>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 = 28.5 bits (62), Expect = 1.0,   Method: Compositional matrix adjust.
 Identities = 12/33 (36%), Positives = 18/33 (54%)

Query: 47 RHRTIFTEEQLEQLEATFEKTHYPDVVLREQLA 79
          R RT+  E+QL  L   +     PD +++EQL 
Sbjct: 5  RVRTVLNEKQLHTLRTCYAANPRPDALMKEQLV 37


>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 = 28.5 bits (62), Expect = 1.1,   Method: Compositional matrix adjust.
 Identities = 15/45 (33%), Positives = 27/45 (60%)

Query: 46 RRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
          +R RT F+ EQL +L+  F +  Y     R+QL+ ++ L E +++
Sbjct: 4  KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIK 48


>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 = 28.1 bits (61), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 15/44 (34%), Positives = 26/44 (59%)

Query: 47 RHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
          R RT F+ EQL +L+  F +  Y     R+QL+ ++ L E +++
Sbjct: 1  RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIK 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 = 28.1 bits (61), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 15/45 (33%), Positives = 27/45 (60%)

Query: 46 RRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
          +R RT F+ EQL +L+  F +  Y     R+QL+ ++ L E +++
Sbjct: 2  KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIK 46


>pdb|3HDD|A Chain A, Engrailed Homeodomain Dna Complex
 pdb|3HDD|B Chain B, Engrailed Homeodomain Dna Complex
          Length = 60

 Score = 28.1 bits (61), Expect = 1.4,   Method: Compositional matrix adjust.
 Identities = 15/45 (33%), Positives = 27/45 (60%)

Query: 46 RRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
          +R RT F+ EQL +L+  F +  Y     R+QL+ ++ L E +++
Sbjct: 2  KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIK 46


>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 = 27.7 bits (60), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 15/45 (33%), Positives = 27/45 (60%)

Query: 46 RRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
          +R RT F+ EQL +L+  F +  Y     R+QL+ ++ L E +++
Sbjct: 4  KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIK 48


>pdb|1ENH|A Chain A, Structural Studies Of The Engrailed Homeodomain
          Length = 54

 Score = 27.7 bits (60), Expect = 1.5,   Method: Compositional matrix adjust.
 Identities = 14/42 (33%), Positives = 25/42 (59%)

Query: 49 RTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
          RT F+ EQL +L+  F +  Y     R+QL+ ++ L E +++
Sbjct: 3  RTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIK 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 = 27.7 bits (60), Expect = 1.6,   Method: Compositional matrix adjust.
 Identities = 15/44 (34%), Positives = 26/44 (59%)

Query: 46 RRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERV 89
          +R RT F+ EQL +L+  F +  Y     R+QL+ ++ L E ++
Sbjct: 2  KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQI 45


>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 = 27.7 bits (60), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 19/50 (38%), Positives = 27/50 (54%), Gaps = 1/50 (2%)

Query: 41 PPKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
          PPKRK+  RT FT  Q+ +LE  F K  Y     R  LA  + + + +V+
Sbjct: 14 PPKRKK-PRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQVK 62


>pdb|1QRY|A Chain A, Homeobox Protein Vnd (Ventral Nervous System Defective
          Protein)
          Length = 80

 Score = 27.3 bits (59), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 15/43 (34%), Positives = 22/43 (51%)

Query: 42 PKRKRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDL 84
          P +KR+ R +FT+ Q  +LE  F +  Y     RE L   + L
Sbjct: 9  PNKKRKRRVLFTKAQTYELERRFRQQRYLSAPEREHLTSLIRL 51


>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 = 26.2 bits (56), Expect = 4.8,   Method: Compositional matrix adjust.
 Identities = 13/47 (27%), Positives = 29/47 (61%)

Query: 45 KRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVEP 91
          K++ RT+F++ QL  L+  F+K  Y  +   ++L+  ++L  ++V+ 
Sbjct: 3  KQKMRTVFSQAQLCALKDRFQKQKYLSLQQMQELSSILNLSYKQVKT 49


>pdb|1ZTR|A Chain A, Solution Structure Of Engrailed Homeodomain L16a Mutant
          Length = 61

 Score = 26.2 bits (56), Expect = 5.4,   Method: Compositional matrix adjust.
 Identities = 14/45 (31%), Positives = 26/45 (57%)

Query: 46 RRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
          +R RT F+ EQL + +  F +  Y     R+QL+ ++ L E +++
Sbjct: 4  KRPRTAFSSEQLARAKREFNENRYLTERRRQQLSSELGLNEAQIK 48


>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 = 25.4 bits (54), Expect = 9.4,   Method: Compositional matrix adjust.
 Identities = 14/46 (30%), Positives = 27/46 (58%)

Query: 45 KRRHRTIFTEEQLEQLEATFEKTHYPDVVLREQLALKVDLKEERVE 90
          +R+ R +F++ Q+ +LE  F++  Y     R+QLA  + L   +V+
Sbjct: 2  RRKPRVLFSQAQVYELERRFKQQRYLSAPERDQLASVLKLTSTQVK 47


  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
   0.317    0.134    0.385 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,149,419
Number of Sequences: 62578
Number of extensions: 53924
Number of successful extensions: 137
Number of sequences better than 100.0: 40
Number of HSP's better than 100.0 without gapping: 40
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 97
Number of HSP's gapped (non-prelim): 40
length of query: 91
length of database: 14,973,337
effective HSP length: 58
effective length of query: 33
effective length of database: 11,343,813
effective search space: 374345829
effective search space used: 374345829
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)