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= psy12776
(435 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 64.7 bits (156), Expect = 9e-11, Method: Composition-based stats.
Identities = 29/47 (61%), Positives = 39/47 (82%)
Query: 231 KFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
K RR+RTTFS SQLDELE+ F+++ YP + TRE LA +T+L+EAR+Q
Sbjct: 17 KQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQ 63
>pdb|2M0C|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Human Alx4,
Northeast Structural Genomics Consortium (Nesg) Target
Hr4490c
Length = 75
Score = 64.3 bits (155), Expect = 1e-10, Method: Composition-based stats.
Identities = 31/47 (65%), Positives = 37/47 (78%)
Query: 231 KFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
K RRNRTTF+ QL+ELEK F K+HYP V RE+LA +T L+EARVQ
Sbjct: 8 KKRRNRTTFTSYQLEELEKVFQKTHYPDVYAREQLAMRTDLTEARVQ 54
Score = 33.1 bits (74), Expect = 0.32, Method: Composition-based stats.
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 343 VWFSNRRAKWRRHQRMNLLK 362
VWF NRRAKWR+ +R ++
Sbjct: 55 VWFQNRRAKWRKRERFGQMQ 74
>pdb|2CUE|A Chain A, Solution Structure Of The Homeobox Domain Of The Human
Paired Box Protein Pax-6
Length = 80
Score = 61.2 bits (147), Expect = 1e-09, Method: Composition-based stats.
Identities = 27/45 (60%), Positives = 36/45 (80%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
+RNRT+F+ Q++ LEKEF+++HYP V RERLAAK L EAR+Q
Sbjct: 8 QRNRTSFTQEQIEALEKEFERTHYPDVFARERLAAKIDLPEARIQ 52
Score = 36.6 bits (83), Expect = 0.029, Method: Composition-based stats.
Identities = 16/31 (51%), Positives = 22/31 (70%), Gaps = 3/31 (9%)
Query: 343 VWFSNRRAKWRRHQRMNLLKSRRANAANVSG 373
VWFSNRRAKWRR ++ L+++R + SG
Sbjct: 53 VWFSNRRAKWRREEK---LRNQRRQSGPSSG 80
>pdb|3CMY|A Chain A, Structure Of A Homeodomain In Complex With Dna
Length = 61
Score = 60.5 bits (145), Expect = 2e-09, Method: Composition-based stats.
Identities = 26/45 (57%), Positives = 36/45 (80%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
RR+RTTF+ QL+ELE+ F+++HYP + TRE LA + L+EARVQ
Sbjct: 3 RRSRTTFTAEQLEELERAFERTHYPDIYTREELAQRAKLTEARVQ 47
Score = 30.8 bits (68), Expect = 1.7, Method: Composition-based stats.
Identities = 10/13 (76%), Positives = 12/13 (92%)
Query: 343 VWFSNRRAKWRRH 355
VWFSNRRA+WR+
Sbjct: 48 VWFSNRRARWRKQ 60
>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 = 59.7 bits (143), Expect = 3e-09, Method: Composition-based stats.
Identities = 29/47 (61%), Positives = 35/47 (74%)
Query: 231 KFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
K RR RTTF+ QL+ELEK F ++HYP V TRE LA K L+EAR+Q
Sbjct: 5 KQRRYRTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQ 51
Score = 34.7 bits (78), Expect = 0.11, Method: Composition-based stats.
Identities = 13/28 (46%), Positives = 21/28 (75%), Gaps = 1/28 (3%)
Query: 331 LRIGRTDGHFKSVWFSNRRAKWRRHQRM 358
++IG T+ + VWF NRRAKWR+ +++
Sbjct: 41 MKIGLTEARIQ-VWFQNRRAKWRKQEKV 67
>pdb|3LNQ|A Chain A, Structure Of Aristaless Homeodomain In Complex With Dna
Length = 58
Score = 56.6 bits (135), Expect = 3e-08, Method: Composition-based stats.
Identities = 27/44 (61%), Positives = 33/44 (75%)
Query: 234 RNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
R RTTF+ QL+ELEK F ++HYP V TRE LA K L+EAR+Q
Sbjct: 1 RYRTTFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQ 44
Score = 33.5 bits (75), Expect = 0.26, Method: Composition-based stats.
Identities = 13/26 (50%), Positives = 19/26 (73%), Gaps = 1/26 (3%)
Query: 331 LRIGRTDGHFKSVWFSNRRAKWRRHQ 356
++IG T+ + VWF NRRAKWR+ +
Sbjct: 34 MKIGLTEARIQ-VWFQNRRAKWRKQE 58
>pdb|2L7M|P Chain P, Solution Structure Of The Pitx2 Homeodomain R24h Mutant
Length = 68
Score = 52.4 bits (124), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 25/45 (55%), Positives = 33/45 (73%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
RR RT F+ QL ELE F ++HYP +STRE +A T+L+EARV+
Sbjct: 4 RRQRTHFTSQQLQELEATFQRNHYPDMSTREEIAVWTNLTEARVR 48
Score = 28.5 bits (62), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 343 VWFSNRRAKWRRHQ 356
VWF NRRAKWR+ +
Sbjct: 49 VWFKNRRAKWRKRE 62
>pdb|3A02|A Chain A, Crystal Structure Of Aristaless Homeodomain
Length = 60
Score = 52.0 bits (123), Expect = 6e-07, Method: Composition-based stats.
Identities = 24/40 (60%), Positives = 30/40 (75%)
Query: 238 TFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
TF+ QL+ELEK F ++HYP V TRE LA K L+EAR+Q
Sbjct: 5 TFTSFQLEELEKAFSRTHYPDVFTREELAMKIGLTEARIQ 44
Score = 35.0 bits (79), Expect = 0.080, Method: Composition-based stats.
Identities = 13/28 (46%), Positives = 21/28 (75%), Gaps = 1/28 (3%)
Query: 331 LRIGRTDGHFKSVWFSNRRAKWRRHQRM 358
++IG T+ + VWF NRRAKWR+ +++
Sbjct: 34 MKIGLTEARIQ-VWFQNRRAKWRKQEKV 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 = 50.4 bits (119), Expect = 2e-06, Method: Composition-based stats.
Identities = 24/45 (53%), Positives = 32/45 (71%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
RR RT F+ QL ELE F ++ YP +STRE +A T+L+EARV+
Sbjct: 4 RRQRTHFTSQQLQELEATFQRNRYPDMSTREEIAVWTNLTEARVR 48
Score = 30.4 bits (67), Expect = 2.3, Method: Composition-based stats.
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 343 VWFSNRRAKWRRHQ 356
VWF NRRAKWR+ +
Sbjct: 49 VWFKNRRAKWRKRE 62
>pdb|2DMS|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Otx2
Length = 80
Score = 50.1 bits (118), Expect = 3e-06, Method: Composition-based stats.
Identities = 24/45 (53%), Positives = 31/45 (68%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
RR RTTF+ +QLD LE F K+ YP + RE +A K +L E+RVQ
Sbjct: 8 RRERTTFTRAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQ 52
>pdb|2DMU|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Goosecoid
Length = 70
Score = 46.6 bits (109), Expect = 3e-05, Method: Composition-based stats.
Identities = 22/45 (48%), Positives = 30/45 (66%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
RR+RT F+ QL+ LE F ++ YP V TRE+LA K L E +V+
Sbjct: 8 RRHRTIFTDEQLEALENLFQETKYPDVGTREQLARKVHLREEKVE 52
Score = 31.6 bits (70), Expect = 0.91, Method: Composition-based stats.
Identities = 11/12 (91%), Positives = 11/12 (91%)
Query: 343 VWFSNRRAKWRR 354
VWF NRRAKWRR
Sbjct: 53 VWFKNRRAKWRR 64
>pdb|2M34|A Chain A, Nmr Structure Of The Homeodomain Transcription Factor Gbx1
From Homo Sapiens
Length = 71
Score = 41.6 bits (96), Expect = 8e-04, Method: Composition-based stats.
Identities = 21/47 (44%), Positives = 28/47 (59%)
Query: 231 KFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
K RR RT F+ QL ELEKEF Y ++ R ++A LSE +V+
Sbjct: 6 KSRRRRTAFTSEQLLELEKEFHCKKYLSLTERSQIAHALKLSEVQVK 52
Score = 34.3 bits (77), Expect = 0.14, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 3/47 (6%)
Query: 314 HCGKFLTIIPTPSHTWDLRIGRTDGHFKSVWFSNRRAKWRRHQRMNL 360
HC K+L++ L++ +WF NRRAKW+R + N+
Sbjct: 27 HCKKYLSLTERSQIAHALKLSEVQ---VKIWFQNRRAKWKRIKAGNV 70
>pdb|6PAX|A Chain A, Crystal Structure Of The Human Pax-6 Paired Domain-Dna
Complex Reveals A General Model For Pax Protein-Dna
Interactions
Length = 133
Score = 40.8 bits (94), Expect = 0.002, Method: Composition-based stats.
Identities = 21/38 (55%), Positives = 24/38 (63%), Gaps = 5/38 (13%)
Query: 79 ETVPHIFPMKI-----IEGVCTNATAPSVSSINRILRN 111
+ P IF +I EGVCTN PSVSSINR+LRN
Sbjct: 89 QECPSIFAWEIRDRLLSEGVCTNDNIPSVSSINRVLRN 126
>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 = 38.9 bits (89), Expect = 0.005, Method: Composition-based stats.
Identities = 17/45 (37%), Positives = 31/45 (68%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
+R RT FS QL L++EF+++ Y R++L+++ L+EA+V+
Sbjct: 5 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQVK 49
>pdb|2HDD|A Chain A, Engrailed Homeodomain Q50k Variant Dna Complex
pdb|2HDD|B Chain B, Engrailed Homeodomain Q50k Variant Dna Complex
Length = 61
Score = 38.5 bits (88), Expect = 0.007, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 31/45 (68%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
+R RT FS QL L++EF+++ Y R++L+++ L+EA+++
Sbjct: 4 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIK 48
>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 = 38.5 bits (88), Expect = 0.008, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 31/45 (68%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
+R RT FS QL L++EF+++ Y R++L+++ L+EA+++
Sbjct: 4 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIK 48
>pdb|1P7I|A Chain A, Crystal Structure Of Engrailed Homeodomain Mutant K52a
pdb|1P7I|B Chain B, Crystal Structure Of Engrailed Homeodomain Mutant K52a
pdb|1P7I|C Chain C, Crystal Structure Of Engrailed Homeodomain Mutant K52a
pdb|1P7I|D Chain D, Crystal Structure Of Engrailed Homeodomain Mutant K52a
Length = 59
Score = 38.1 bits (87), Expect = 0.009, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 31/45 (68%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
+R RT FS QL L++EF+++ Y R++L+++ L+EA+++
Sbjct: 2 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIK 46
>pdb|1P7J|A Chain A, Crystal Structure Of Engrailed Homeodomain Mutant K52e
pdb|1P7J|B Chain B, Crystal Structure Of Engrailed Homeodomain Mutant K52e
pdb|1P7J|C Chain C, Crystal Structure Of Engrailed Homeodomain Mutant K52e
pdb|1P7J|D Chain D, Crystal Structure Of Engrailed Homeodomain Mutant K52e
Length = 59
Score = 38.1 bits (87), Expect = 0.010, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 31/45 (68%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
+R RT FS QL L++EF+++ Y R++L+++ L+EA+++
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 = 38.1 bits (87), Expect = 0.010, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 31/45 (68%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
+R RT FS QL L++EF+++ Y R++L+++ L+EA+++
Sbjct: 2 KRPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIK 46
>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 = 37.7 bits (86), Expect = 0.012, Method: Composition-based stats.
Identities = 20/45 (44%), Positives = 27/45 (60%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
RR RT F+ QL LEKEF K +Y R LAA+ +L E+ ++
Sbjct: 2 RRYRTAFTRDQLGRLEKEFYKENYVSRPRRCELAAQLNLPESTIK 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 = 0.018, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 30/44 (68%)
Query: 234 RNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
R RT FS QL L++EF+++ Y R++L+++ L+EA+++
Sbjct: 1 RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIK 44
>pdb|1ZQ3|P Chain P, Nmr Solution Structure Of The Bicoid Homeodomain Bound To
The Consensus Dna Binding Site Taatcc
Length = 68
Score = 37.0 bits (84), Expect = 0.020, Method: Composition-based stats.
Identities = 19/45 (42%), Positives = 27/45 (60%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
RR RTTF+ SQ+ ELE+ F + Y L+AK +L A+V+
Sbjct: 3 RRTRTTFTSSQIAELEQHFLQGRYLTAPRLADLSAKLALGTAQVK 47
>pdb|1ENH|A Chain A, Structural Studies Of The Engrailed Homeodomain
Length = 54
Score = 37.0 bits (84), Expect = 0.020, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 30/44 (68%)
Query: 234 RNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
R RT FS QL L++EF+++ Y R++L+++ L+EA+++
Sbjct: 1 RPRTAFSSEQLARLKREFNENRYLTERRRQQLSSELGLNEAQIK 44
>pdb|2CRA|A Chain A, Solution Structure Of The Homeobox Domain Of Human Homeo
Box B13
Length = 70
Score = 36.6 bits (83), Expect = 0.026, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 27/44 (61%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
R+ R +S QL ELE+E+ + + R +++A TSLSE ++
Sbjct: 8 RKKRIPYSKGQLRELEREYAANKFITKDKRRKISAATSLSERQI 51
>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 = 36.6 bits (83), Expect = 0.026, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 29/48 (60%)
Query: 230 PKFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
PK ++ RT+F+ Q+ ELEK F K Y + R LA +++A+V+
Sbjct: 15 PKRKKPRTSFTRIQVAELEKRFHKQKYLASAERAALARGLKMTDAQVK 62
Score = 30.4 bits (67), Expect = 2.3, Method: Composition-based stats.
Identities = 14/31 (45%), Positives = 16/31 (51%), Gaps = 1/31 (3%)
Query: 336 TDGHFKSVWFSNRRAKWRRHQRMNLLKSRRA 366
TD K+ WF NRR KWRR R+A
Sbjct: 57 TDAQVKT-WFQNRRTKWRRQTAEEREAERQA 86
>pdb|2K27|A Chain A, Solution Structure Of Human Pax8 Paired Box Domain
Length = 159
Score = 36.6 bits (83), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 16/22 (72%), Positives = 18/22 (81%)
Query: 89 IIEGVCTNATAPSVSSINRILR 110
+ EGVC N T PSVSSINRI+R
Sbjct: 112 LAEGVCDNDTVPSVSSINRIIR 133
>pdb|2DMT|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Barh-Like 1
Length = 80
Score = 36.2 bits (82), Expect = 0.035, Method: Composition-based stats.
Identities = 20/47 (42%), Positives = 26/47 (55%)
Query: 231 KFRRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
K RR+RT F+ QL LEK F+K Y R LA LS+ +V+
Sbjct: 16 KGRRSRTVFTELQLMGLEKRFEKQKYLSTPDRIDLAESLGLSQLQVK 62
>pdb|2K40|A Chain A, Nmr Structure Of Hesx-1 Homeodomain Double Mutant R31lE42L
Length = 67
Score = 36.2 bits (82), Expect = 0.039, Method: Composition-based stats.
Identities = 24/68 (35%), Positives = 33/68 (48%), Gaps = 3/68 (4%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQFLTIIPTPSHTYLPR 292
RR RT F+ +Q++ LE F + YP + E LA K +L R+Q I L R
Sbjct: 2 RRPRTAFTQNQIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQ---IWFQNRRAKLKR 58
Query: 293 IERNSTFM 300
R S F+
Sbjct: 59 SHRESQFL 66
>pdb|1ZTR|A Chain A, Solution Structure Of Engrailed Homeodomain L16a Mutant
Length = 61
Score = 35.8 bits (81), Expect = 0.042, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 30/45 (66%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
+R RT FS QL ++EF+++ Y R++L+++ L+EA+++
Sbjct: 4 KRPRTAFSSEQLARAKREFNENRYLTERRRQQLSSELGLNEAQIK 48
>pdb|2L7Z|A Chain A, Nmr Structure Of A13 Homedomain
Length = 73
Score = 35.8 bits (81), Expect = 0.046, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 27/44 (61%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
R+ R ++ QL ELE+E+ + + R R++A T+LSE +V
Sbjct: 8 RKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQV 51
>pdb|2LD5|A Chain A, Solution Nmr-Derived Complex Structure Of Hoxa13 Dna
Binding Domain Bound To Dna
Length = 67
Score = 35.8 bits (81), Expect = 0.046, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 27/44 (61%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARV 276
R+ R ++ QL ELE+E+ + + R R++A T+LSE +V
Sbjct: 2 RKKRVPYTKVQLKELEREYATNKFITKDKRRRISATTNLSERQV 45
>pdb|2DJN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Dlx-5
Length = 70
Score = 35.4 bits (80), Expect = 0.067, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 26/45 (57%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
R+ RT +S QL L++ F K+ Y + R LAA L++ +V+
Sbjct: 8 RKPRTIYSSFQLAALQRRFQKTQYLALPERAELAASLGLTQTQVK 52
>pdb|1B8I|A Chain A, Structure Of The Homeotic UbxEXDDNA TERNARY COMPLEX
Length = 81
Score = 35.0 bits (79), Expect = 0.084, Method: Composition-based stats.
Identities = 18/45 (40%), Positives = 26/45 (57%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
RR R T++ Q ELEKEF +HY R +A SL+E +++
Sbjct: 21 RRGRQTYTRYQTLELEKEFHTNHYLTRRRRIEMAHALSLTERQIK 65
>pdb|1B72|A Chain A, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 97
Score = 33.9 bits (76), Expect = 0.18, Method: Composition-based stats.
Identities = 18/42 (42%), Positives = 25/42 (59%)
Query: 236 RTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
RT F+ QL ELEKEF + Y + R +AA L+E +V+
Sbjct: 38 RTNFTTRQLTELEKEFHFNKYLSRARRVEIAATLELNETQVK 79
>pdb|1PDN|C Chain C, Crystal Structure Of A Paired Domain-Dna Complex At 2.5
Angstroms Resolution Reveals Structural Basis For Pax
Developmental Mutations
Length = 128
Score = 33.9 bits (76), Expect = 0.19, Method: Composition-based stats.
Identities = 14/22 (63%), Positives = 19/22 (86%)
Query: 89 IIEGVCTNATAPSVSSINRILR 110
I EGVC +TAPSVS+I+R++R
Sbjct: 104 IREGVCDRSTAPSVSAISRLVR 125
>pdb|1K78|A Chain A, Pax5(1-149)+ets-1(331-440)+dna
pdb|1K78|E Chain E, Pax5(1-149)+ets-1(331-440)+dna
pdb|1K78|I Chain I, Pax5(1-149)+ets-1(331-440)+dna
pdb|1MDM|A Chain A, Inhibited Fragment Of Ets-1 And Paired Domain Of Pax5
Bound To Dna
Length = 149
Score = 33.1 bits (74), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 15/22 (68%), Positives = 17/22 (77%)
Query: 89 IIEGVCTNATAPSVSSINRILR 110
+ E VC N T PSVSSINRI+R
Sbjct: 119 LAERVCDNDTVPSVSSINRIIR 140
>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 = 32.3 bits (72), Expect = 0.56, Method: Composition-based stats.
Identities = 17/45 (37%), Positives = 26/45 (57%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
+R RT ++ +QL ELEKEF + Y R LA +L+E ++
Sbjct: 4 KRTRTAYTRAQLLELEKEFLFNKYISRPRRVELAVMLNLTERHIK 48
Score = 28.9 bits (63), Expect = 5.5, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 15/21 (71%), Gaps = 1/21 (4%)
Query: 336 TDGHFKSVWFSNRRAKWRRHQ 356
T+ H K +WF NRR KW++ +
Sbjct: 43 TERHIK-IWFQNRRMKWKKEE 62
>pdb|3A03|A Chain A, Crystal Structure Of Hox11l1 Homeodomain
Length = 56
Score = 31.2 bits (69), Expect = 1.3, Method: Composition-based stats.
Identities = 12/20 (60%), Positives = 13/20 (65%), Gaps = 1/20 (5%)
Query: 336 TDGHFKSVWFSNRRAKWRRH 355
TD K+ WF NRR KWRR
Sbjct: 37 TDAQVKT-WFQNRRTKWRRQ 55
Score = 30.8 bits (68), Expect = 1.4, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 25/41 (60%)
Query: 237 TTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
T+FS SQ+ ELE+ F + Y + R LA +++A+V+
Sbjct: 2 TSFSRSQVLELERRFLRQKYLASAERAALAKALRMTDAQVK 42
>pdb|2E1O|A Chain A, Solution Structure Of Rsgi Ruh-028, A Homeobox Domain From
Human Cdna
Length = 70
Score = 30.8 bits (68), Expect = 1.5, Method: Composition-based stats.
Identities = 17/39 (43%), Positives = 22/39 (56%)
Query: 239 FSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
FS Q ELEK+F+ Y R+RLA LSE +V+
Sbjct: 14 FSNDQTIELEKKFETQKYLSPPERKRLAKMLQLSERQVK 52
Score = 29.6 bits (65), Expect = 3.3, Method: Composition-based stats.
Identities = 10/11 (90%), Positives = 10/11 (90%)
Query: 344 WFSNRRAKWRR 354
WF NRRAKWRR
Sbjct: 54 WFQNRRAKWRR 64
>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 = 29.6 bits (65), Expect = 3.6, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 25/45 (55%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
+R R T++ Q ELEKEF + Y R +A SL+E +++
Sbjct: 3 KRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIK 47
>pdb|9ANT|A Chain A, Antennapedia Homeodomain-Dna Complex
pdb|9ANT|B Chain B, Antennapedia Homeodomain-Dna Complex
Length = 62
Score = 29.6 bits (65), Expect = 3.6, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 25/45 (55%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
+R R T++ Q ELEKEF + Y R +A SL+E +++
Sbjct: 4 KRGRQTYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIK 48
>pdb|2DMQ|A Chain A, Solution Structure Of The Homeobox Domain Of LimHOMEOBOX
Protein Lhx9
Length = 80
Score = 29.3 bits (64), Expect = 4.8, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 25/45 (55%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQ 277
+R RT+F QL ++ F +H P ++LA KT L++ +Q
Sbjct: 8 KRMRTSFKHHQLRTMKSYFAINHNPDAKDLKQLAQKTGLTKRVLQ 52
>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 = 28.9 bits (63), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 26/46 (56%)
Query: 233 RRNRTTFSPSQLDELEKEFDKSHYPCVSTRERLAAKTSLSEARVQF 278
+R RT+++ Q ELEKEF + Y R +A SL+E +++
Sbjct: 29 KRQRTSYTRYQTLELEKEFHFNRYLTRRRRIEIAHALSLTERQIKI 74
>pdb|2EPL|X Chain X, N-Acetyl-B-D-Glucosaminidase (Gcna) From Streptococcus
Gordonii
pdb|2EPM|X Chain X, N-Acetyl-B-D-Glucoasminidase (Gcna) From Stretococcus
Gordonii
pdb|2EPN|A Chain A, N-Acetyl-B-D-Glucosaminidase (Gcna) From Streptococcus
Gordonii
pdb|2EPN|B Chain B, N-Acetyl-B-D-Glucosaminidase (Gcna) From Streptococcus
Gordonii
pdb|2EPO|A Chain A, N-Acetyl-B-D-Glucosaminidase (Gcna) From Streptococcus
Gordonii
pdb|2EPO|B Chain B, N-Acetyl-B-D-Glucosaminidase (Gcna) From Streptococcus
Gordonii
Length = 627
Score = 28.9 bits (63), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 3/54 (5%)
Query: 229 QPKFRRNRTTFSPSQLDELEK---EFDKSHYPCVSTRERLAAKTSLSEARVQFL 279
QP F R ++ ++L E+E +FD S PC+ T L+A VQ L
Sbjct: 132 QPYFGYFRGRYTVAELQEIEDYAADFDMSFVPCIQTLAHLSAFVKWGIKEVQEL 185
>pdb|2EPK|X Chain X, N-Acetyl-B-D-Glucosaminidase (Gcna) From Streptococcus
Gordonii
Length = 627
Score = 28.9 bits (63), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 3/54 (5%)
Query: 229 QPKFRRNRTTFSPSQLDELEK---EFDKSHYPCVSTRERLAAKTSLSEARVQFL 279
QP F R ++ ++L E+E +FD S PC+ T L+A VQ L
Sbjct: 132 QPYFGYFRGRYTVAELQEIEDYAADFDXSFVPCIQTLAHLSAFVKWGIKEVQEL 185
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
0.323 0.137 0.436
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,093,958
Number of Sequences: 62578
Number of extensions: 458340
Number of successful extensions: 902
Number of sequences better than 100.0: 51
Number of HSP's better than 100.0 without gapping: 47
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 819
Number of HSP's gapped (non-prelim): 87
length of query: 435
length of database: 14,973,337
effective HSP length: 102
effective length of query: 333
effective length of database: 8,590,381
effective search space: 2860596873
effective search space used: 2860596873
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: 53 (25.0 bits)