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= psy5541
(301 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1B72|B Chain B, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 87
Score = 145 bits (366), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 66/73 (90%), Positives = 71/73 (97%)
Query: 108 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYK 167
ARRKRRNF+KQA+EILNEYFYSHLSNPYPSEEAKEELA+KC IT+SQVSNWFGNKRIRYK
Sbjct: 1 ARRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYK 60
Query: 168 KNIGKAQEEANLY 180
KNIGK QEEAN+Y
Sbjct: 61 KNIGKFQEEANIY 73
>pdb|1PUF|B Chain B, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound To
Dna
Length = 73
Score = 143 bits (361), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 66/73 (90%), Positives = 71/73 (97%)
Query: 108 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYK 167
ARRKRRNF+KQA+EILNEYFYSHLSNPYPSEEAKEELA+KC IT+SQVSNWFGNKRIRYK
Sbjct: 1 ARRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYK 60
Query: 168 KNIGKAQEEANLY 180
KNIGK QEEAN+Y
Sbjct: 61 KNIGKFQEEANIY 73
>pdb|1LFU|P Chain P, Nmr Solution Stucture Of The Extended Pbx Homeodomain
Bound To Dna
Length = 82
Score = 141 bits (355), Expect = 5e-34, Method: Compositional matrix adjust.
Identities = 65/73 (89%), Positives = 70/73 (95%)
Query: 108 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYK 167
ARRKRRNF+KQA+EILNEYFYSHLSNPYPSEEAKEELA+K IT+SQVSNWFGNKRIRYK
Sbjct: 2 ARRKRRNFNKQATEILNEYFYSHLSNPYPSEEAKEELAKKSGITVSQVSNWFGNKRIRYK 61
Query: 168 KNIGKAQEEANLY 180
KNIGK QEEAN+Y
Sbjct: 62 KNIGKFQEEANIY 74
>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 = 130 bits (327), Expect = 9e-31, Method: Compositional matrix adjust.
Identities = 61/63 (96%), Positives = 62/63 (98%)
Query: 108 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYK 167
ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKC IT+SQVSNWFGNKRIRYK
Sbjct: 1 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCGITVSQVSNWFGNKRIRYK 60
Query: 168 KNI 170
KNI
Sbjct: 61 KNI 63
>pdb|1DU6|A Chain A, Solution Structure Of The Truncated Pbx Homeodomain
Length = 64
Score = 111 bits (278), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 50/57 (87%), Positives = 55/57 (96%)
Query: 113 RNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKN 169
R+ +KQA+EILNEYFYSHLSNPYPSEEAKEELA+KC IT+SQVSNWFGNKRIRYKKN
Sbjct: 8 RHMNKQATEILNEYFYSHLSNPYPSEEAKEELAKKCGITVSQVSNWFGNKRIRYKKN 64
>pdb|1X2N|A Chain A, Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Pknox1
Length = 73
Score = 57.0 bits (136), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 38/58 (65%)
Query: 108 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIR 165
+ KR K A+ ++ + + H+ +PYP+E+ K+++A + N+TL QV+NWF N R R
Sbjct: 7 GKNKRGVLPKHATNVMRSWLFQHIGHPYPTEDEKKQIAAQTNLTLLQVNNWFINARRR 64
>pdb|3K2A|A Chain A, Crystal Structure Of The Homeobox Domain Of Human Homeobox
Protein Meis2
pdb|3K2A|B Chain B, Crystal Structure Of The Homeobox Domain Of Human Homeobox
Protein Meis2
Length = 67
Score = 54.3 bits (129), Expect = 9e-08, Method: Composition-based stats.
Identities = 24/51 (47%), Positives = 35/51 (68%)
Query: 115 FSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIR 165
F K A+ I + + HL++PYPSEE K++LA+ +T+ QV+NWF N R R
Sbjct: 5 FPKVATNIXRAWLFQHLTHPYPSEEQKKQLAQDTGLTILQVNNWFINARRR 55
>pdb|2DMN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Tgif2lx
Length = 83
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 37/58 (63%)
Query: 108 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIR 165
++++ N ++ +IL ++ Y H YPSEE K+ L+ K N++L Q+SNWF N R R
Sbjct: 7 GKKRKGNLPAESVKILRDWMYKHRFKAYPSEEEKQMLSEKTNLSLLQISNWFINARRR 64
>pdb|4EGC|A Chain A, Crystal Structure Of Mbp-fused Human Six1 Bound To Human
Eya2 Eya Domain
Length = 559
Score = 48.5 bits (114), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 24/51 (47%), Positives = 33/51 (64%), Gaps = 3/51 (5%)
Query: 115 FSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIR 165
F +++ +L E+ Y+H NPYPS K ELA +T +QVSNWF N+R R
Sbjct: 501 FKEKSRGVLREW-YAH--NPYPSPREKRELAEATGLTTTQVSNWFKNRRQR 548
>pdb|2LK2|A Chain A, Solution Nmr Structure Of Homeobox Domain (171-248) Of
Human Homeobox Protein Tgif1, Northeast Structural
Genomics Consortium Target Hr4411b
Length = 89
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 32/49 (65%)
Query: 117 KQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIR 165
K++ +IL ++ Y H N YPSE+ K L+++ +++ QV NWF N R R
Sbjct: 14 KESVQILRDWLYEHRYNAYPSEQEKALLSQQTHLSTLQVCNWFINARRR 62
>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 = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 47/97 (48%), Gaps = 3/97 (3%)
Query: 67 ITPKEIERMVQIIHRKFSSIQMQLKQSTCEAVMILRSRFLDARRKRRNFSKQASEILNEY 126
ITPK +++ ++ + + +++ ++ + R++R +F+ QA E LN Y
Sbjct: 52 ITPKSAQKLKPVLEKWLNEAELRNQEGQQNLXEFVGGEPSKKRKRRTSFTPQAIEALNAY 111
Query: 127 FYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKR 163
F NP P+ + E A++ N V WF N+R
Sbjct: 112 FEK---NPLPTGQEITEXAKELNYDREVVRVWFSNRR 145
>pdb|1APL|C Chain C, Crystal Structure Of A Mat-Alpha2 Homeodomain-Operator
Complex Suggests A General Model For Homeodomain-Dna
Interactions
pdb|1APL|D Chain D, Crystal Structure Of A Mat-Alpha2 Homeodomain-Operator
Complex Suggests A General Model For Homeodomain-Dna
Interactions
pdb|1YRN|B Chain B, Crystal Structure Of The Mata1MATALPHA2 HOMEODOMAIN
Heterodimer Bound To Dna
pdb|1AKH|B Chain B, Mat A1ALPHA2DNA TERNARY COMPLEX
Length = 83
Score = 40.8 bits (94), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 1/65 (1%)
Query: 115 FSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIGKAQ 174
F+K+ IL +F ++ NPY + E L + +++ Q+ NW N+R R +K I A
Sbjct: 9 FTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRR-RKEKTITIAP 67
Query: 175 EEANL 179
E A+L
Sbjct: 68 ELADL 72
>pdb|2K40|A Chain A, Nmr Structure Of Hesx-1 Homeodomain Double Mutant R31lE42L
Length = 67
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 33/61 (54%), Gaps = 3/61 (4%)
Query: 108 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYK 167
RR R F++ E+L F N YP + E+LA+K N+ L ++ WF N+R + K
Sbjct: 1 GRRPRTAFTQNQIEVLENVFRV---NCYPGIDILEDLAQKLNLELDRIQIWFQNRRAKLK 57
Query: 168 K 168
+
Sbjct: 58 R 58
>pdb|2L7M|P Chain P, Solution Structure Of The Pitx2 Homeodomain R24h Mutant
Length = 68
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 34/60 (56%), Gaps = 3/60 (5%)
Query: 109 RRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168
RR+R +F+ Q + L F N YP +EE+A N+T ++V WF N+R +++K
Sbjct: 4 RRQRTHFTSQQLQELEATFQR---NHYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRK 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 = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 34/60 (56%), Gaps = 3/60 (5%)
Query: 109 RRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168
RR+R +F+ Q + L F N YP +EE+A N+T ++V WF N+R +++K
Sbjct: 4 RRQRTHFTSQQLQELEATFQR---NRYPDMSTREEIAVWTNLTEARVRVWFKNRRAKWRK 60
>pdb|1MNM|C Chain C, Yeast Matalpha2MCM1DNA TERNARY TRANSCRIPTION COMPLEX
Crystal Structure
pdb|1MNM|D Chain D, Yeast Matalpha2MCM1DNA TERNARY TRANSCRIPTION COMPLEX
Crystal Structure
Length = 87
Score = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 29/53 (54%)
Query: 115 FSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYK 167
F+K+ IL +F ++ NPY + E L + +++ Q+ NW N+R + K
Sbjct: 34 FTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRRRKEK 86
>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 = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 36/60 (60%)
Query: 109 RRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168
R++RR+ + ++ L+E + YP +EELA++ N+T +++ WF N+R R +K
Sbjct: 16 RKQRRSRTTFSASQLDELERAFERTQYPDIYTREELAQRTNLTEARIQVWFQNRRARLRK 75
>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 = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 17/27 (62%), Positives = 20/27 (74%)
Query: 141 KEELARKCNITLSQVSNWFGNKRIRYK 167
KEE+A+KC IT QV WF NKR+R K
Sbjct: 395 KEEVAKKCGITPLQVRVWFINKRMRSK 421
>pdb|1K61|A Chain A, Matalpha2 Homeodomain Bound To Dna
pdb|1K61|B Chain B, Matalpha2 Homeodomain Bound To Dna
pdb|1K61|C Chain C, Matalpha2 Homeodomain Bound To Dna
pdb|1K61|D Chain D, Matalpha2 Homeodomain Bound To Dna
Length = 60
Score = 37.7 bits (86), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 27/49 (55%)
Query: 115 FSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKR 163
F+K+ IL +F ++ NPY + E L + +++ Q+ NW N+R
Sbjct: 5 FTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVSNRR 53
>pdb|1LE8|A Chain A, Crystal Structure Of The Mata1MATALPHA2-3a Heterodimer
Bound To Dna Complex
Length = 53
Score = 37.4 bits (85), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 23/54 (42%), Positives = 30/54 (55%), Gaps = 3/54 (5%)
Query: 114 NFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYK 167
+ S QA L + F S + + KEE+A+KC IT QV WF NKR+R K
Sbjct: 3 SISPQARAFLEQVFRRKQS---LNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 53
>pdb|2L7Z|A Chain A, Nmr Structure Of A13 Homedomain
Length = 73
Score = 37.4 bits (85), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 41/71 (57%), Gaps = 5/71 (7%)
Query: 103 SRFLDARRKRRNFSK-QASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGN 161
S L+ R+KR ++K Q E+ EY +N + +++ + ++ N++ QV+ WF N
Sbjct: 2 SHMLEGRKKRVPYTKVQLKELEREY----ATNKFITKDKRRRISATTNLSERQVTIWFQN 57
Query: 162 KRIRYKKNIGK 172
+R++ KK I K
Sbjct: 58 RRVKEKKVINK 68
>pdb|1LE8|B Chain B, Crystal Structure Of The Mata1MATALPHA2-3a Heterodimer
Bound To Dna Complex
Length = 83
Score = 37.4 bits (85), Expect = 0.012, Method: Composition-based stats.
Identities = 20/65 (30%), Positives = 35/65 (53%), Gaps = 1/65 (1%)
Query: 115 FSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKNIGKAQ 174
F+K+ IL +F ++ NPY + E L + +++ Q+ NW +R + +K I A
Sbjct: 9 FTKENVRILESWFAKNIENPYLDTKGLENLMKNTSLSRIQIKNWVAARRAK-EKTITIAP 67
Query: 175 EEANL 179
E A+L
Sbjct: 68 ELADL 72
>pdb|1AKH|A Chain A, Mat A1ALPHA2DNA TERNARY COMPLEX
Length = 61
Score = 36.6 bits (83), Expect = 0.019, Method: Composition-based stats.
Identities = 24/58 (41%), Positives = 32/58 (55%), Gaps = 3/58 (5%)
Query: 110 RKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYK 167
+ + + S QA L E F S + + KEE+A+KC IT QV WF NKR+R K
Sbjct: 7 KGKSSISPQARAFLEEVFRRKQS---LNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 61
>pdb|2DMU|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Goosecoid
Length = 70
Score = 36.2 bits (82), Expect = 0.021, Method: Composition-based stats.
Identities = 19/62 (30%), Positives = 32/62 (51%), Gaps = 3/62 (4%)
Query: 108 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYK 167
RR R F+ + E L F YP +E+LARK ++ +V WF N+R +++
Sbjct: 7 GRRHRTIFTDEQLEALENLFQE---TKYPDVGTREQLARKVHLREEKVEVWFKNRRAKWR 63
Query: 168 KN 169
++
Sbjct: 64 RS 65
>pdb|3CMY|A Chain A, Structure Of A Homeodomain In Complex With Dna
Length = 61
Score = 36.2 bits (82), Expect = 0.022, Method: Composition-based stats.
Identities = 21/60 (35%), Positives = 32/60 (53%), Gaps = 3/60 (5%)
Query: 109 RRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168
RR R F+ + E L F YP +EELA++ +T ++V WF N+R R++K
Sbjct: 3 RRSRTTFTAEQLEELERAFER---THYPDIYTREELAQRAKLTEARVQVWFSNRRARWRK 59
>pdb|2M0C|A Chain A, Solution Nmr Structure Of Homeobox Domain Of Human Alx4,
Northeast Structural Genomics Consortium (Nesg) Target
Hr4490c
Length = 75
Score = 35.8 bits (81), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 37/68 (54%), Gaps = 2/68 (2%)
Query: 110 RKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK- 168
+KRRN + S L E YP A+E+LA + ++T ++V WF N+R +++K
Sbjct: 8 KKRRNRTTFTSYQLEELEKVFQKTHYPDVYAREQLAMRTDLTEARVQVWFQNRRAKWRKR 67
Query: 169 -NIGKAQE 175
G+ Q+
Sbjct: 68 ERFGQMQQ 75
>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 = 35.4 bits (80), Expect = 0.043, Method: Composition-based stats.
Identities = 23/58 (39%), Positives = 32/58 (55%), Gaps = 3/58 (5%)
Query: 110 RKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYK 167
+ + + S QA L + F S + + KEE+A+KC IT QV WF NKR+R K
Sbjct: 7 KGKSSISPQARAFLEQVFRRKQS---LNSKEKEEVAKKCGITPLQVRVWFINKRMRSK 61
>pdb|2DMS|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Otx2
Length = 80
Score = 35.0 bits (79), Expect = 0.050, Method: Composition-based stats.
Identities = 19/58 (32%), Positives = 30/58 (51%), Gaps = 3/58 (5%)
Query: 108 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIR 165
RR+R F++ ++L F YP +EE+A K N+ S+V WF N+R +
Sbjct: 7 GRRERTTFTRAQLDVLEALF---AKTRYPDIFMREEVALKINLPESRVQVWFKNRRAK 61
>pdb|2LP0|A Chain A, The Solution Structure Of Homeodomain-Protein Complex
Length = 60
Score = 35.0 bits (79), Expect = 0.052, Method: Composition-based stats.
Identities = 22/61 (36%), Positives = 36/61 (59%), Gaps = 5/61 (8%)
Query: 109 RRKRRNFSK-QASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYK 167
R+KR ++K Q E+ E+ + N Y + + + E+AR N+T QV WF N+R++ K
Sbjct: 2 RKKRCPYTKYQTLELEKEFLF----NMYLTRDRRYEVARVLNLTERQVKIWFQNRRMKMK 57
Query: 168 K 168
K
Sbjct: 58 K 58
>pdb|1PUF|A Chain A, Crystal Structure Of Hoxa9 And Pbx1 Homeodomains Bound To
Dna
Length = 77
Score = 34.7 bits (78), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 36/62 (58%), Gaps = 5/62 (8%)
Query: 108 ARRKRRNFSK-QASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRY 166
R+KR ++K Q E+ E+ + N Y + + + E+AR N+T QV WF N+R++
Sbjct: 13 TRKKRCPYTKHQTLELEKEFLF----NMYLTRDRRYEVARLLNLTERQVKIWFQNRRMKM 68
Query: 167 KK 168
KK
Sbjct: 69 KK 70
>pdb|2CUF|A Chain A, Solution Structure Of The Homeobox Domain Of The Human
Hypothetical Protein Flj21616
Length = 95
Score = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 33/74 (44%), Gaps = 20/74 (27%)
Query: 115 FSKQASEILNEYFYSHLSNPYPSEEAKEELARKCN---------------ITLSQVSNWF 159
+ K+ ++ YF N YP E +EE+A CN +T +V NWF
Sbjct: 14 WRKECLAVMESYFNE---NQYPDEAKREEIANACNAVIQKPGKKLSDLERVTSLKVYNWF 70
Query: 160 GNKR--IRYKKNIG 171
N+R I+ + NI
Sbjct: 71 ANRRKEIKRRANIA 84
>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 = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 33/62 (53%), Gaps = 5/62 (8%)
Query: 109 RRKRRNF-SKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYK 167
RR R F S Q E+ + +H YP +EELA K +T +++ WF N+R +++
Sbjct: 7 RRYRTTFTSFQLEELEKAFSRTH----YPDVFTREELAMKIGLTEARIQVWFQNRRAKWR 62
Query: 168 KN 169
K
Sbjct: 63 KQ 64
>pdb|3LNQ|A Chain A, Structure Of Aristaless Homeodomain In Complex With Dna
Length = 58
Score = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 22/35 (62%)
Query: 135 YPSEEAKEELARKCNITLSQVSNWFGNKRIRYKKN 169
YP +EELA K +T +++ WF N+R +++K
Sbjct: 23 YPDVFTREELAMKIGLTEARIQVWFQNRRAKWRKQ 57
>pdb|1B8I|A Chain A, Structure Of The Homeotic UbxEXDDNA TERNARY COMPLEX
Length = 81
Score = 33.1 bits (74), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 35/62 (56%), Gaps = 3/62 (4%)
Query: 109 RRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168
RR R+ +++ + L + F++ N Y + + E+A ++T Q+ WF N+R++ KK
Sbjct: 21 RRGRQTYTRYQTLELEKEFHT---NHYLTRRRRIEMAHALSLTERQIKIWFQNRRMKLKK 77
Query: 169 NI 170
I
Sbjct: 78 EI 79
>pdb|2LD5|A Chain A, Solution Nmr-Derived Complex Structure Of Hoxa13 Dna
Binding Domain Bound To Dna
Length = 67
Score = 33.1 bits (74), Expect = 0.21, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 38/66 (57%), Gaps = 5/66 (7%)
Query: 108 ARRKRRNFSK-QASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRY 166
R+KR ++K Q E+ EY +N + +++ + ++ N++ QV+ WF N+R++
Sbjct: 1 GRKKRVPYTKVQLKELEREY----ATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKE 56
Query: 167 KKNIGK 172
KK I K
Sbjct: 57 KKVINK 62
>pdb|3A02|A Chain A, Crystal Structure Of Aristaless Homeodomain
Length = 60
Score = 32.0 bits (71), Expect = 0.39, Method: Composition-based stats.
Identities = 13/34 (38%), Positives = 22/34 (64%)
Query: 135 YPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168
YP +EELA K +T +++ WF N+R +++K
Sbjct: 23 YPDVFTREELAMKIGLTEARIQVWFQNRRAKWRK 56
>pdb|2CUE|A Chain A, Solution Structure Of The Homeobox Domain Of The Human
Paired Box Protein Pax-6
Length = 80
Score = 32.0 bits (71), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 36/62 (58%), Gaps = 5/62 (8%)
Query: 108 ARRKRRNFSKQASEILNEYF-YSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRY 166
+R R +F+++ E L + F +H YP A+E LA K ++ +++ WF N+R ++
Sbjct: 7 GQRNRTSFTQEQIEALEKEFERTH----YPDVFARERLAAKIDLPEARIQVWFSNRRAKW 62
Query: 167 KK 168
++
Sbjct: 63 RR 64
>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 = 32.0 bits (71), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 22/38 (57%)
Query: 131 LSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168
L N Y S + ELA N+T + WF N+R+++KK
Sbjct: 23 LFNKYISRPRRVELAVMLNLTERHIKIWFQNRRMKWKK 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 = 31.2 bits (69), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 37/63 (58%), Gaps = 5/63 (7%)
Query: 107 DARRKRRNFSK-QASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIR 165
+ +R+R ++++ Q E+ E+ + N Y + + E+A ++T Q+ WF N+R++
Sbjct: 27 ETKRQRTSYTRYQTLELEKEFHF----NRYLTRRRRIEIAHALSLTERQIKIWFQNRRMK 82
Query: 166 YKK 168
+KK
Sbjct: 83 WKK 85
>pdb|9ANT|A Chain A, Antennapedia Homeodomain-Dna Complex
pdb|9ANT|B Chain B, Antennapedia Homeodomain-Dna Complex
Length = 62
Score = 31.2 bits (69), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 17/64 (26%), Positives = 37/64 (57%), Gaps = 5/64 (7%)
Query: 106 LDARRKRRNFSK-QASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRI 164
++ +R R+ +++ Q E+ E+ + N Y + + E+A ++T Q+ WF N+R+
Sbjct: 1 MERKRGRQTYTRYQTLELEKEFHF----NRYLTRRRRIEIAHALSLTERQIKIWFQNRRM 56
Query: 165 RYKK 168
++KK
Sbjct: 57 KWKK 60
>pdb|1B72|A Chain A, Pbx1, Homeobox Protein Hox-B1DNA TERNARY COMPLEX
Length = 97
Score = 30.8 bits (68), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 32/58 (55%), Gaps = 5/58 (8%)
Query: 112 RRNFS-KQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168
R NF+ +Q +E+ E+ + N Y S + E+A + +QV WF N+R++ KK
Sbjct: 38 RTNFTTRQLTELEKEFHF----NKYLSRARRVEIAATLELNETQVKIWFQNRRMKQKK 91
>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 = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 20/32 (62%)
Query: 144 LARKCNITLSQVSNWFGNKRIRYKKNIGKAQE 175
LAR +T +QV WF N+R ++++ + +E
Sbjct: 50 LARGLKMTDAQVKTWFQNRRTKWRRQTAEERE 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 = 30.0 bits (66), Expect = 1.9, Method: Composition-based stats.
Identities = 17/61 (27%), Positives = 34/61 (55%), Gaps = 5/61 (8%)
Query: 109 RRKRRNFSK-QASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYK 167
+R R+ +++ Q E+ E+ + N Y + + E+A +T Q+ WF N+R+++K
Sbjct: 3 KRGRQTYTRYQTLELEKEFHF----NRYLTRRRRIEIAHALCLTERQIKIWFQNRRMKWK 58
Query: 168 K 168
K
Sbjct: 59 K 59
>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 = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 32/63 (50%), Gaps = 3/63 (4%)
Query: 106 LDARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIR 165
+D +R R FS + L F N Y +E +++L+ + + +Q+ WF NKR +
Sbjct: 1 MDEKRPRTAFSSEQLARLKREFNE---NRYLTERRRQQLSSELGLNEAQIKIWFQNKRAK 57
Query: 166 YKK 168
KK
Sbjct: 58 IKK 60
>pdb|3A03|A Chain A, Crystal Structure Of Hox11l1 Homeodomain
Length = 56
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 21/38 (55%)
Query: 131 LSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168
L Y + + LA+ +T +QV WF N+R ++++
Sbjct: 17 LRQKYLASAERAALAKALRMTDAQVKTWFQNRRTKWRR 54
>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 = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 22/36 (61%)
Query: 133 NPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168
N Y +E +++L+ + + +Q+ WF NKR + KK
Sbjct: 21 NRYLTERRRQQLSSELGLNEAQIKIWFANKRAKIKK 56
>pdb|2KT0|A Chain A, Solution Structure Of Human Stem Cell Transcription Factor
Nanog Homeodomain Fragment
Length = 84
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 28/51 (54%), Gaps = 6/51 (11%)
Query: 122 ILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRI---RYKKN 169
+LN+ F Y S + +EL+ N++ QV WF N+R+ R++KN
Sbjct: 36 VLNDRFQRQ---KYLSLQQMQELSNILNLSYKQVKTWFQNQRMKSKRWQKN 83
>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 = 2.3, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 28/51 (54%), Gaps = 4/51 (7%)
Query: 118 QASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168
Q E+ E+ + N Y + + E+A ++T Q+ WF N+R+++KK
Sbjct: 13 QTLELEKEFHF----NRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKK 59
>pdb|3NAR|A Chain A, Crystal Structure Of Zhx1 Hd4 (Zinc-Fingers And Homeoboxes
Protein 1, Homeodomain 4)
pdb|3NAR|B Chain B, Crystal Structure Of Zhx1 Hd4 (Zinc-Fingers And Homeoboxes
Protein 1, Homeodomain 4)
Length = 96
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 10/33 (30%), Positives = 21/33 (63%)
Query: 135 YPSEEAKEELARKCNITLSQVSNWFGNKRIRYK 167
+PS E ++LA++ + + + +WFG+ R +K
Sbjct: 49 WPSPEEYDKLAKESGLARTDIVSWFGDTRYAWK 81
>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 = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 28/51 (54%), Gaps = 4/51 (7%)
Query: 118 QASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168
Q E+ E+ + N Y + + E+A ++T Q+ WF N+R+++KK
Sbjct: 7 QTLELEKEFHF----NRYLTRRRRIEIAHALSLTERQIKIWFQNRRMKWKK 53
>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 = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 37/64 (57%), Gaps = 5/64 (7%)
Query: 107 DARRKRRNFSK-QASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIR 165
D++R R+ +++ Q E+ E+ + N Y + + ++A +++ Q+ WF N+R++
Sbjct: 2 DSKRTRQTYTRYQTLELEKEFHF----NRYITRRRRIDIANALSLSERQIKIWFQNRRMK 57
Query: 166 YKKN 169
KK+
Sbjct: 58 SKKD 61
>pdb|2DJN|A Chain A, The Solution Structure Of The Homeobox Domain Of Human
Homeobox Protein Dlx-5
Length = 70
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 141 KEELARKCNITLSQVSNWFGNKRIRYKKN 169
+ ELA +T +QV WF NKR + KK+
Sbjct: 37 RAELAASLGLTQTQVKIWFQNKRSKIKKS 65
>pdb|1ZQ3|P Chain P, Nmr Solution Structure Of The Bicoid Homeodomain Bound To
The Consensus Dna Binding Site Taatcc
Length = 68
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 3/59 (5%)
Query: 109 RRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYK 167
RR R F+ L ++F L Y + +L+ K + +QV WF N+R R+K
Sbjct: 3 RRTRTTFTSSQIAELEQHF---LQGRYLTAPRLADLSAKLALGTAQVKIWFKNRRRRHK 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 = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 22/36 (61%)
Query: 133 NPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168
N Y +E +++L+ + + +Q+ WF NKR + KK
Sbjct: 25 NRYLTERRRQQLSSELGLNEAQIKIWFKNKRAKIKK 60
>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 = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 30/62 (48%), Gaps = 3/62 (4%)
Query: 107 DARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRY 166
D +R R FS + L F N Y +E +++L+ + + +QV WF N R +
Sbjct: 3 DEKRPRTAFSSEQLARLKREFNE---NRYLTERRRQQLSSELGLNEAQVKGWFKNMRAKI 59
Query: 167 KK 168
KK
Sbjct: 60 KK 61
>pdb|3HDD|A Chain A, Engrailed Homeodomain Dna Complex
pdb|3HDD|B Chain B, Engrailed Homeodomain Dna Complex
Length = 60
Score = 28.5 bits (62), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 22/36 (61%)
Query: 133 NPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168
N Y +E +++L+ + + +Q+ WF NKR + KK
Sbjct: 23 NRYLTERRRQQLSSELGLNEAQIKIWFQNKRAKIKK 58
>pdb|2CRA|A Chain A, Solution Structure Of The Homeobox Domain Of Human Homeo
Box B13
Length = 70
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 38/63 (60%), Gaps = 5/63 (7%)
Query: 108 ARRKRRNFSK-QASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRY 166
R+KR +SK Q E+ EY +N + +++ + +++ +++ Q++ WF N+R++
Sbjct: 7 GRKKRIPYSKGQLRELEREY----AANKFITKDKRRKISAATSLSERQITIWFQNRRVKE 62
Query: 167 KKN 169
KK+
Sbjct: 63 KKS 65
>pdb|2M34|A Chain A, Nmr Structure Of The Homeodomain Transcription Factor Gbx1
From Homo Sapiens
Length = 71
Score = 28.5 bits (62), Expect = 5.2, Method: Composition-based stats.
Identities = 16/61 (26%), Positives = 31/61 (50%), Gaps = 3/61 (4%)
Query: 108 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYK 167
+RR+R F+ + L + F+ Y S + ++A ++ QV WF N+R ++K
Sbjct: 7 SRRRRTAFTSEQLLELEKEFHC---KKYLSLTERSQIAHALKLSEVQVKIWFQNRRAKWK 63
Query: 168 K 168
+
Sbjct: 64 R 64
>pdb|2P81|A Chain A, Engrailed Homeodomain Helix-Turn-Helix Motif
Length = 44
Score = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 22/36 (61%)
Query: 133 NPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168
N Y +E +++L+ + + +Q+ WF NKR + KK
Sbjct: 8 NRYLTERRRQQLSSELGLNEAQIKIWFQNKRAKIKK 43
>pdb|1IC8|A Chain A, Hepatocyte Nuclear Factor 1a Bound To Dna : Mody3 Gene
Product
pdb|1IC8|B Chain B, Hepatocyte Nuclear Factor 1a Bound To Dna : Mody3 Gene
Product
Length = 194
Score = 28.1 bits (61), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 31/77 (40%), Gaps = 24/77 (31%)
Query: 108 ARRKRRNFSKQASEILNEYFYSHLSNPYPSEEAKEELARKCN------------------ 149
RR R + + +IL F ++ PS+E +E L +CN
Sbjct: 115 GRRNRFKWGPASQQIL---FQAYERQKNPSKEERETLVEECNRAECIQRGVSPSQAQGLG 171
Query: 150 ---ITLSQVSNWFGNKR 163
+T +V NWF N+R
Sbjct: 172 SNLVTEVRVYNWFANRR 188
>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 = 27.7 bits (60), Expect = 8.3, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 130 HLSNPYPSEEAKEELARKCNITLSQVSNWFGNKRIRYKK 168
+ +NP P KE+L ++ + WF NKR + KK
Sbjct: 22 YAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKDKK 60
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.316 0.128 0.361
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,322,471
Number of Sequences: 62578
Number of extensions: 244252
Number of successful extensions: 807
Number of sequences better than 100.0: 80
Number of HSP's better than 100.0 without gapping: 65
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 738
Number of HSP's gapped (non-prelim): 80
length of query: 301
length of database: 14,973,337
effective HSP length: 98
effective length of query: 203
effective length of database: 8,840,693
effective search space: 1794660679
effective search space used: 1794660679
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)