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= psy7364
(73 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1H6F|A Chain A, Human Tbx3, A Transcription Factor Responsible For Ulnar-
Mammary Syndrome, Bound To A Palindromic Dna Site
pdb|1H6F|B Chain B, Human Tbx3, A Transcription Factor Responsible For Ulnar-
Mammary Syndrome, Bound To A Palindromic Dna Site
Length = 193
Score = 82.8 bits (203), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 39/67 (58%), Positives = 49/67 (73%), Gaps = 4/67 (5%)
Query: 1 MHRYQPRIHLIKWRDQGTPITDLELEQYRTYVFPESVFTAVTAYQNQLITKLKIDSNPFA 60
MH+YQPR H+++ D I L +RTY+FPE+ F AVTAYQN IT+LKID+NPFA
Sbjct: 127 MHKYQPRFHIVRAND----ILKLPYSTFRTYLFPETEFIAVTAYQNDKITQLKIDNNPFA 182
Query: 61 KGFRDSS 67
KGFRD+
Sbjct: 183 KGFRDTG 189
>pdb|4A04|A Chain A, Structure Of The Dna-Bound T-Box Domain Of Human Tbx1, A
Transcription Factor Associated With The Digeorge
Syndrome
pdb|4A04|B Chain B, Structure Of The Dna-Bound T-Box Domain Of Human Tbx1, A
Transcription Factor Associated With The Digeorge
Syndrome
Length = 203
Score = 75.5 bits (184), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 38/65 (58%), Positives = 46/65 (70%), Gaps = 1/65 (1%)
Query: 1 MHRYQPRIHLIKWRDQGTPITDLELEQYRTYVFPESVFTAVTAYQNQLITKLKIDSNPFA 60
MHRYQPR H++ + D E ++T+VF E+ FTAVTAYQN IT+LKI SNPFA
Sbjct: 140 MHRYQPRFHVV-YVDPRKDSEKYAEENFKTFVFEETRFTAVTAYQNHRITQLKIASNPFA 198
Query: 61 KGFRD 65
KGFRD
Sbjct: 199 KGFRD 203
>pdb|2X6U|A Chain A, Crystal Structure Of Human Tbx5 In The Dna-Free Form
pdb|2X6V|A Chain A, Crystal Structure Of Human Tbx5 In The Dna-Bound And Dna-
Free Form
pdb|2X6V|B Chain B, Crystal Structure Of Human Tbx5 In The Dna-Bound And Dna-
Free Form
Length = 203
Score = 73.2 bits (178), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 35/66 (53%), Positives = 48/66 (72%), Gaps = 2/66 (3%)
Query: 1 MHRYQPRIHLIKWRDQGTPITDLELEQYRTYVFPESVFTAVTAYQNQLITKLKIDSNPFA 60
MH+YQPR+H++K D+ + + T+VFPE+ F AVT+YQN IT+LKI++NPFA
Sbjct: 128 MHKYQPRLHIVK-ADENNGFGS-KNTAFCTHVFPETAFIAVTSYQNHKITQLKIENNPFA 185
Query: 61 KGFRDS 66
KGFR S
Sbjct: 186 KGFRGS 191
>pdb|1XBR|A Chain A, T Domain From Xenopus Laevis Bound To Dna
pdb|1XBR|B Chain B, T Domain From Xenopus Laevis Bound To Dna
Length = 184
Score = 61.6 bits (148), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 31/66 (46%), Positives = 42/66 (63%), Gaps = 8/66 (12%)
Query: 1 MHRYQPRIHLIKWRDQGTPITDLELEQYRTYVFPESVFTAVTAYQNQLITKLKIDSNPFA 60
+H+Y+PRIH+++ IT ++ FPE+ F AVTAYQN+ IT LKI NPFA
Sbjct: 123 LHKYEPRIHIVRVGGTQRMIT--------SHSFPETQFIAVTAYQNEEITALKIKHNPFA 174
Query: 61 KGFRDS 66
K F D+
Sbjct: 175 KAFLDA 180
>pdb|2EJA|A Chain A, Crystal Structure Of Uroporphyrinogen Decarboxylase From
Aquifex Aeolicus
pdb|2EJA|B Chain B, Crystal Structure Of Uroporphyrinogen Decarboxylase From
Aquifex Aeolicus
Length = 338
Score = 28.5 bits (62), Expect = 1.0, Method: Composition-based stats.
Identities = 19/54 (35%), Positives = 24/54 (44%), Gaps = 10/54 (18%)
Query: 20 ITDLELEQYRTYVFPESVFTAVTAYQNQLITKLK-IDSNPFAKGFRDSSRLTDF 72
+ +L LE Y YV+P Y N LI++LK P FR SS D
Sbjct: 203 VNNLSLEDYGEYVYP---------YVNYLISELKDFSDTPVIYFFRGSSSFIDL 247
>pdb|2V0C|A Chain A, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Sulphamoyl Analogue Of Leucyl-Adenylate In The
Synthetic Site And An Adduct Of Amp With 5-Fluoro-1,3-
Dihydro-1-Hydroxy-2,1-Benzoxaborole (An2690) In The
Editing Site
Length = 878
Score = 26.9 bits (58), Expect = 3.2, Method: Composition-based stats.
Identities = 13/41 (31%), Positives = 21/41 (51%), Gaps = 9/41 (21%)
Query: 13 WRDQGTPITDLELEQYRTYVFPESVFTAVTAYQNQLITKLK 53
WR + TP+ ELEQ+ + +TAY +L+ L+
Sbjct: 177 WRHEDTPVEKRELEQW---------YLRITAYAERLLKDLE 208
>pdb|1OBH|A Chain A, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Pre-Transfer Editing Substrate Analogue In Both
Synthetic Active Site And Editing Site
pdb|2BTE|A Chain A, Thermus Thermophilus Leucyl-Trna Synthetase Complexed With
With A Trnaleu Transcript In The Post-Editing
Conformation And A Post-Transfer Editing Substrate
Analogue
pdb|2BTE|D Chain D, Thermus Thermophilus Leucyl-Trna Synthetase Complexed With
With A Trnaleu Transcript In The Post-Editing
Conformation And A Post-Transfer Editing Substrate
Analogue
pdb|2BYT|A Chain A, Thermus Thermophilus Leucyl-Trna Synthetase Complexed With
A Trnaleu Transcript In The Post-Editing Conformation
pdb|2BYT|D Chain D, Thermus Thermophilus Leucyl-Trna Synthetase Complexed With
A Trnaleu Transcript In The Post-Editing Conformation
pdb|1H3N|A Chain A, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Sulphamoyl Analogue Of Leucyl-Adenylate
pdb|1OBC|A Chain A, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Post-Transfer Editing Substrate Analogue
pdb|2V0G|A Chain A, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Trna(Leu) Transcript With 5-Fluoro-1,3-Dihydro-1-
Hydroxy-2,1-Benzoxaborole (An2690) Forming An Adduct To
The Ribose Of Adenosine-76 In The Enzyme Editing Site.
pdb|2V0G|D Chain D, Leucyl-Trna Synthetase From Thermus Thermophilus Complexed
With A Trna(Leu) Transcript With 5-Fluoro-1,3-Dihydro-1-
Hydroxy-2,1-Benzoxaborole (An2690) Forming An Adduct To
The Ribose Of Adenosine-76 In The Enzyme Editing Site
Length = 878
Score = 26.9 bits (58), Expect = 3.2, Method: Composition-based stats.
Identities = 13/41 (31%), Positives = 21/41 (51%), Gaps = 9/41 (21%)
Query: 13 WRDQGTPITDLELEQYRTYVFPESVFTAVTAYQNQLITKLK 53
WR + TP+ ELEQ+ + +TAY +L+ L+
Sbjct: 177 WRHEDTPVEKRELEQW---------YLRITAYAERLLKDLE 208
>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
pdb|3RFS|B Chain B, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 272
Score = 25.4 bits (54), Expect = 8.1, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 6/40 (15%)
Query: 15 DQGTPITDLELEQYRTYVFPESVFTAVTA------YQNQL 48
D+ T +T+L+L + PE VF +T YQNQL
Sbjct: 154 DKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQNQL 193
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 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,199,616
Number of Sequences: 62578
Number of extensions: 70832
Number of successful extensions: 186
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 178
Number of HSP's gapped (non-prelim): 8
length of query: 73
length of database: 14,973,337
effective HSP length: 43
effective length of query: 30
effective length of database: 12,282,483
effective search space: 368474490
effective search space used: 368474490
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 45 (21.9 bits)