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= 040593
(342 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3NAU|A Chain A, Crystal Structure Of Zhx2 Hd2 (Zinc-Fingers And Homeoboxes
Protein 2, Homeodomain 2)
pdb|3NAU|B Chain B, Crystal Structure Of Zhx2 Hd2 (Zinc-Fingers And Homeoboxes
Protein 2, Homeodomain 2)
Length = 66
Score = 37.4 bits (85), Expect = 0.012, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 28/48 (58%)
Query: 272 KRLKKVQVKTLEMVYRRSKRPTDAMISSIVQVTNLPRRRIVKWFEDKR 319
++ K Q+ L+ + +S+ P DA + +++VT L R I KWF D R
Sbjct: 9 RKKTKEQIAHLKASFLQSQFPDDAEVYRLIEVTGLARSEIKKWFSDHR 56
>pdb|2LY9|A Chain A, Solution Nmr Structure Of Homeobox 2 Domain From Human
Zhx1 Repressor, Northeast Structural Genomics Consortium
(Nesg) Target Hr7907f
Length = 74
Score = 33.1 bits (74), Expect = 0.21, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 27/44 (61%)
Query: 276 KVQVKTLEMVYRRSKRPTDAMISSIVQVTNLPRRRIVKWFEDKR 319
K Q+ L++ Y +++ P D+ I ++++T L + I KWF D R
Sbjct: 15 KEQLAELKVSYLKNQFPHDSEIIRLMKITGLTKGEIKKWFSDTR 58
>pdb|2DMP|A Chain A, Solution Structure Of The Third Homeobox Domain Of Zinc
Fingers And Homeoboxes Protein 2
Length = 89
Score = 32.7 bits (73), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 23/42 (54%)
Query: 278 QVKTLEMVYRRSKRPTDAMISSIVQVTNLPRRRIVKWFEDKR 319
QVK LE + +S PT A + + T L RR I WF ++R
Sbjct: 24 QVKILEDSFLKSSFPTQAELDRLRVETKLSRREIDSWFSERR 65
>pdb|2DMS|A Chain A, Solution Structure Of The Homeobox Domain Of Homeobox
Protein Otx2
Length = 80
Score = 32.3 bits (72), Expect = 0.35, Method: Composition-based stats.
Identities = 13/46 (28%), Positives = 26/46 (56%)
Query: 276 KVQVKTLEMVYRRSKRPTDAMISSIVQVTNLPRRRIVKWFEDKRAE 321
+ Q+ LE ++ +++ P M + NLP R+ WF+++RA+
Sbjct: 16 RAQLDVLEALFAKTRYPDIFMREEVALKINLPESRVQVWFKNRRAK 61
>pdb|2DA2|A Chain A, Solution Structure Of The Second Homeobox Domain Of At-
Binding Transcription Factor 1 (Atbf1)
Length = 70
Score = 32.3 bits (72), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 23/47 (48%)
Query: 273 RLKKVQVKTLEMVYRRSKRPTDAMISSIVQVTNLPRRRIVKWFEDKR 319
R Q++ L+ + + P D + + NLP R IV WF++ R
Sbjct: 13 RFTDYQLRVLQDFFDANAYPKDDEFEQLSNLLNLPTRVIVVWFQNAR 59
>pdb|2ECC|A Chain A, Solution Structure Of The Second Homeobox Domain Of Human
Homeodomain Leucine Zipper-Encoding Gene (Homez)
Length = 76
Score = 32.3 bits (72), Expect = 0.44, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 26/51 (50%)
Query: 269 SAQKRLKKVQVKTLEMVYRRSKRPTDAMISSIVQVTNLPRRRIVKWFEDKR 319
S+ KR K Q+ L+ + + + + Q+T LPR I++WF D R
Sbjct: 5 SSGKRKTKEQLAILKSFFLQCQWARREDYQKLEQITGLPRPEIIQWFGDTR 55
>pdb|2L7Z|A Chain A, Nmr Structure Of A13 Homedomain
Length = 73
Score = 32.0 bits (71), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 26/47 (55%)
Query: 276 KVQVKTLEMVYRRSKRPTDAMISSIVQVTNLPRRRIVKWFEDKRAEE 322
KVQ+K LE Y +K T I TNL R++ WF+++R +E
Sbjct: 16 KVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKE 62
>pdb|2DN0|A Chain A, Solution Structure Of The Second Homeobox Domain Of Human
Zinc Fingers And Homeoboxes Protein 3
Length = 76
Score = 31.6 bits (70), Expect = 0.63, Method: Composition-based stats.
Identities = 13/42 (30%), Positives = 24/42 (57%)
Query: 278 QVKTLEMVYRRSKRPTDAMISSIVQVTNLPRRRIVKWFEDKR 319
Q+ L+ + R++ P + + + +VT L R + KWF D+R
Sbjct: 19 QLSALKGSFCRNQFPGQSEVEHLTKVTGLSTREVRKWFSDRR 60
>pdb|2LD5|A Chain A, Solution Nmr-Derived Complex Structure Of Hoxa13 Dna
Binding Domain Bound To Dna
Length = 67
Score = 31.6 bits (70), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 26/47 (55%)
Query: 276 KVQVKTLEMVYRRSKRPTDAMISSIVQVTNLPRRRIVKWFEDKRAEE 322
KVQ+K LE Y +K T I TNL R++ WF+++R +E
Sbjct: 10 KVQLKELEREYATNKFITKDKRRRISATTNLSERQVTIWFQNRRVKE 56
>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 = 31.6 bits (70), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 27/49 (55%)
Query: 274 LKKVQVKTLEMVYRRSKRPTDAMISSIVQVTNLPRRRIVKWFEDKRAEE 322
L + Q+ TL Y + RP M +V++T L R I WF++KR ++
Sbjct: 10 LNEKQLHTLRTCYAANPRPDALMKEQLVEMTGLSPRVIRVWFQNKRCKD 58
>pdb|2K40|A Chain A, Nmr Structure Of Hesx-1 Homeodomain Double Mutant R31lE42L
Length = 67
Score = 30.8 bits (68), Expect = 1.0, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 26/44 (59%)
Query: 278 QVKTLEMVYRRSKRPTDAMISSIVQVTNLPRRRIVKWFEDKRAE 321
Q++ LE V+R + P ++ + Q NL RI WF+++RA+
Sbjct: 12 QIEVLENVFRVNCYPGIDILEDLAQKLNLELDRIQIWFQNRRAK 55
>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 = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 23/43 (53%)
Query: 278 QVKTLEMVYRRSKRPTDAMISSIVQVTNLPRRRIVKWFEDKRA 320
Q+ LE + R++ P + Q TNL RI WF+++RA
Sbjct: 29 QLDELERAFERTQYPDIYTREELAQRTNLTEARIQVWFQNRRA 71
>pdb|2Y46|A Chain A, Structure Of The Mixed-Function P450 Mycg In Complex With
Mycinamicin Iv In C 2 2 21 Space Group
pdb|2Y46|B Chain B, Structure Of The Mixed-Function P450 Mycg In Complex With
Mycinamicin Iv In C 2 2 21 Space Group
pdb|2Y46|C Chain C, Structure Of The Mixed-Function P450 Mycg In Complex With
Mycinamicin Iv In C 2 2 21 Space Group
pdb|2Y5N|A Chain A, Structure Of The Mixed-Function P450 Mycg In Complex With
Mycinamicin V In P21 Space Group
pdb|2Y5N|B Chain B, Structure Of The Mixed-Function P450 Mycg In Complex With
Mycinamicin V In P21 Space Group
pdb|2Y5Z|A Chain A, Mixed-Function P450 Mycg In Complex With Mycinamicin Iii
In C2221 Space Group
pdb|2Y5Z|B Chain B, Mixed-Function P450 Mycg In Complex With Mycinamicin Iii
In C2221 Space Group
pdb|2Y5Z|C Chain C, Mixed-Function P450 Mycg In Complex With Mycinamicin Iii
In C2221 Space Group
pdb|2Y98|A Chain A, Structure Of The Mixed-Function P450 Mycg In Complex With
Mycinamicin Iv In P21212 Space Group
pdb|2YGX|A Chain A, Structure Of The Mixed-Function P450 Mycg In P21 Space
Group
pdb|2YGX|B Chain B, Structure Of The Mixed-Function P450 Mycg In P21 Space
Group
pdb|2YGX|C Chain C, Structure Of The Mixed-Function P450 Mycg In P21 Space
Group
pdb|2YGX|D Chain D, Structure Of The Mixed-Function P450 Mycg In P21 Space
Group
pdb|2YCA|A Chain A, Mixed-Function P450 Mycg In Complex With Mycinamicin Iii
In P21212 Space Group
Length = 417
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 26/54 (48%), Gaps = 13/54 (24%)
Query: 262 HDRQHRWSA-------------QKRLKKVQVKTLEMVYRRSKRPTDAMISSIVQ 302
HDR RWS Q+ ++ +++ RR K PTD ++S++VQ
Sbjct: 178 HDRFTRWSGAFLSTAEVTAEEMQEAAEQAYAYMGDLIDRRRKEPTDDLVSALVQ 231
>pdb|3ZSN|A Chain A, Structure Of The Mixed-Function P450 Mycg F286a Mutant In
Complex With Mycinamicin Iv
pdb|3ZSN|B Chain B, Structure Of The Mixed-Function P450 Mycg F286a Mutant In
Complex With Mycinamicin Iv
pdb|3ZSN|C Chain C, Structure Of The Mixed-Function P450 Mycg F286a Mutant In
Complex With Mycinamicin Iv
Length = 417
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 26/54 (48%), Gaps = 13/54 (24%)
Query: 262 HDRQHRWSA-------------QKRLKKVQVKTLEMVYRRSKRPTDAMISSIVQ 302
HDR RWS Q+ ++ +++ RR K PTD ++S++VQ
Sbjct: 178 HDRFTRWSGAFLSTAEVTAEEMQEAAEQAYAYMGDLIDRRRKEPTDDLVSALVQ 231
>pdb|4AW3|A Chain A, Structure Of The Mixed-Function P450 Mycg F286v Mutant In
Complex With Mycinamicin V In P1 Space Group
pdb|4AW3|B Chain B, Structure Of The Mixed-Function P450 Mycg F286v Mutant In
Complex With Mycinamicin V In P1 Space Group
Length = 417
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 26/54 (48%), Gaps = 13/54 (24%)
Query: 262 HDRQHRWSA-------------QKRLKKVQVKTLEMVYRRSKRPTDAMISSIVQ 302
HDR RWS Q+ ++ +++ RR K PTD ++S++VQ
Sbjct: 178 HDRFTRWSGAFLSTAEVTAEEMQEAAEQAYAYMGDLIDRRRKEPTDDLVSALVQ 231
>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 = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 25/43 (58%)
Query: 278 QVKTLEMVYRRSKRPTDAMISSIVQVTNLPRRRIVKWFEDKRA 320
Q++ LE ++R++ P + I TNL R+ WF+++RA
Sbjct: 14 QLQELEATFQRNRYPDMSTREEIAVWTNLTEARVRVWFKNRRA 56
>pdb|2DA5|A Chain A, Solution Structure Of The Second Homeobox Domain Of Zinc
Fingers And Homeoboxes Protein 3 (Triple Homeobox 1
Protein)
Length = 75
Score = 28.5 bits (62), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 26/52 (50%)
Query: 278 QVKTLEMVYRRSKRPTDAMISSIVQVTNLPRRRIVKWFEDKRAEEGVPECRK 329
Q++ LE + ++ P D + + T + RR I WF ++R + E +K
Sbjct: 18 QLRALESSFAQNPLPLDEELDRLRSETKMTRREIDSWFSERRKKVNAEETKK 69
>pdb|2E19|A Chain A, Solution Structure Of The Homeobox Domain From Human
Nil-2- A Zinc Finger Protein, Transcription Factor 8
Length = 64
Score = 28.5 bits (62), Expect = 6.0, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 269 SAQKRLKKVQVKTLEMVYRRSKRPTDAMISSIVQVTNLPRRRIVKWFEDKRA 320
S Q LK + + L+ Y + +P+ +S I NLP + KWFE +A
Sbjct: 6 SGQPPLKNL-LSLLKAYYALNAQPSAEELSKIADSVNLPLDVVKKWFEKMQA 56
>pdb|2DA3|A Chain A, Solution Structure Of The Third Homeobox Domain Of At-
Binding Transcription Factor 1 (Atbf1)
Length = 80
Score = 28.5 bits (62), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 30/65 (46%), Gaps = 4/65 (6%)
Query: 258 EEPVHDRQHRWSAQKRLKKVQVKTLEMVYRRSKRPTDAMISSIVQVTNLPRRRIVKWFED 317
EEP D++ R + + Q++ L Y PT M+ I L +R + WF++
Sbjct: 12 EEPQRDKRLRTT----ITPEQLEILYQKYLLDSNPTRKMLDHIAHEVGLKKRVVQVWFQN 67
Query: 318 KRAEE 322
RA E
Sbjct: 68 TRARE 72
>pdb|2L7M|P Chain P, Solution Structure Of The Pitx2 Homeodomain R24h Mutant
Length = 68
Score = 28.1 bits (61), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 24/43 (55%)
Query: 278 QVKTLEMVYRRSKRPTDAMISSIVQVTNLPRRRIVKWFEDKRA 320
Q++ LE ++R+ P + I TNL R+ WF+++RA
Sbjct: 14 QLQELEATFQRNHYPDMSTREEIAVWTNLTEARVRVWFKNRRA 56
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 0.132 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,318,405
Number of Sequences: 62578
Number of extensions: 270525
Number of successful extensions: 603
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 575
Number of HSP's gapped (non-prelim): 40
length of query: 342
length of database: 14,973,337
effective HSP length: 100
effective length of query: 242
effective length of database: 8,715,537
effective search space: 2109159954
effective search space used: 2109159954
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: 52 (24.6 bits)