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= psy17633
(99 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 123 bits (308), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 57/91 (62%), Positives = 68/91 (74%)
Query: 9 RMFPTLRVSFTGLRPDQRYAVLMDIVPVDNKRYRYAYHRSSWLVAGKADPPAPLRLYMHP 68
RMFPT +V G+ P Y +LMD VPVD+KRYRYA+H SSWLVAGKADP P R++ HP
Sbjct: 44 RMFPTFQVKLFGMDPMADYMLLMDFVPVDDKRYRYAFHSSSWLVAGKADPATPGRVHYHP 103
Query: 69 DSPFTGDQLRKQVVSFEKVKLTNNEMDKNGQ 99
DSP G Q KQ+VSF+K+KLTNN +D NG
Sbjct: 104 DSPAKGAQWMKQIVSFDKLKLTNNLLDDNGH 134
>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 = 105 bits (261), Expect = 8e-24, Method: Compositional matrix adjust.
Identities = 49/91 (53%), Positives = 64/91 (70%), Gaps = 2/91 (2%)
Query: 9 RMFPTLRVSFTGLRPDQRYAVLMDIVPVDNKRYRYAYHRSSWLVAGKADPPAPLRLYMHP 68
RMFP+ +V TGL P +Y +LMDIVP D+ RY++A + W V GKA+P P RLY+HP
Sbjct: 34 RMFPSYKVKVTGLNPKTKYILLMDIVPADDHRYKFA--DNKWSVTGKAEPAMPGRLYVHP 91
Query: 69 DSPFTGDQLRKQVVSFEKVKLTNNEMDKNGQ 99
DSP TG +Q+VSF+K+KLTNN +D G
Sbjct: 92 DSPATGAHWMRQLVSFQKLKLTNNHLDPFGH 122
>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 = 103 bits (256), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 48/90 (53%), Positives = 64/90 (71%), Gaps = 2/90 (2%)
Query: 9 RMFPTLRVSFTGLRPDQRYAVLMDIVPVDNKRYRYAYHRSSWLVAGKADPPAPLRLYMHP 68
RMFP +V +GL +Y +LMDI+ D+ RY++ H S W+VAGKADP P R+Y+HP
Sbjct: 33 RMFPPFKVRCSGLDKKAKYILLMDIIAADDCRYKF--HNSRWMVAGKADPEMPKRMYIHP 90
Query: 69 DSPFTGDQLRKQVVSFEKVKLTNNEMDKNG 98
DSP TG+Q +VV+F K+KLTNN DK+G
Sbjct: 91 DSPATGEQWMSKVVTFHKLKLTNNISDKHG 120
>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 = 88.2 bits (217), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 45/91 (49%), Positives = 57/91 (62%), Gaps = 3/91 (3%)
Query: 9 RMFPTLRVSFTGLRPDQRYAVLMDIVPVDNKRYRYAYHRSSWLVAGKADPPAPLRLYMHP 68
RMFP L+VS +GL P+ Y VL+D V DN R++Y W+ GK +P AP +Y+HP
Sbjct: 30 RMFPVLKVSMSGLDPNAMYTVLLDFVAADNHRWKYV--NGEWVPGGKPEPQAPSCVYIHP 87
Query: 69 DSPFTGDQLRKQVVSFEKVKLTNNEMDKNGQ 99
DSP G K VSF KVKLT N+M+ GQ
Sbjct: 88 DSPNFGAHWMKDPVSFSKVKLT-NKMNGGGQ 117
>pdb|2NWI|A Chain A, Crystal Structure Of Protein Af1396 From Archaeoglobus
Fulgidus, Pfam Duf98
pdb|2NWI|B Chain B, Crystal Structure Of Protein Af1396 From Archaeoglobus
Fulgidus, Pfam Duf98
pdb|2NWI|C Chain C, Crystal Structure Of Protein Af1396 From Archaeoglobus
Fulgidus, Pfam Duf98
pdb|2NWI|D Chain D, Crystal Structure Of Protein Af1396 From Archaeoglobus
Fulgidus, Pfam Duf98
pdb|2NWI|E Chain E, Crystal Structure Of Protein Af1396 From Archaeoglobus
Fulgidus, Pfam Duf98
pdb|2NWI|F Chain F, Crystal Structure Of Protein Af1396 From Archaeoglobus
Fulgidus, Pfam Duf98
Length = 172
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 29/61 (47%), Gaps = 3/61 (4%)
Query: 21 LRPDQRYAVLMDIVPVDNKRYRYAYHRSSWLVAGKADPPAPLRLYMHPDSPFTGDQLRKQ 80
+R D+ A L++I D YR Y R++ + KA PL+ ++ F D +R
Sbjct: 39 IRADRELAELLEIDEGDEVNYRVVYLRANGEIYAKAISFTPLK---RLENSFREDLMRAD 95
Query: 81 V 81
+
Sbjct: 96 I 96
>pdb|2ZZE|A Chain A, Crystal Structure Of Alanyl-Trna Synthetase Without
Oligomerization Domain In Lysine-Methylated Form
pdb|2ZZE|B Chain B, Crystal Structure Of Alanyl-Trna Synthetase Without
Oligomerization Domain In Lysine-Methylated Form
Length = 752
Score = 26.9 bits (58), Expect = 3.2, Method: Composition-based stats.
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 50 WLVAGKADPPAPLRLYMHPDSPFT 73
W+++G+ADPPA + P FT
Sbjct: 107 WVISGEADPPANPLVISQPSIRFT 130
>pdb|2ZZF|A Chain A, Crystal Structure Of Alanyl-Trna Synthetase Without
Oligomerization Domain
pdb|2ZZG|A Chain A, Crystal Structure Of Alanyl-Trna Synthetase In Complex
With 5''-O-(N-(L-Alanyl)-Sulfamyoxyl) Adenine Without
Oligomerization Domain
pdb|2ZZG|B Chain B, Crystal Structure Of Alanyl-Trna Synthetase In Complex
With 5''-O-(N-(L-Alanyl)-Sulfamyoxyl) Adenine Without
Oligomerization Domain
Length = 752
Score = 26.6 bits (57), Expect = 3.3, Method: Composition-based stats.
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 50 WLVAGKADPPAPLRLYMHPDSPFT 73
W+++G+ADPPA + P FT
Sbjct: 107 WVISGEADPPANPLVISQPSIRFT 130
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 0.138 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,232,035
Number of Sequences: 62578
Number of extensions: 122754
Number of successful extensions: 165
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 155
Number of HSP's gapped (non-prelim): 8
length of query: 99
length of database: 14,973,337
effective HSP length: 65
effective length of query: 34
effective length of database: 10,905,767
effective search space: 370796078
effective search space used: 370796078
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)