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= 039218
(135 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XOY|A Chain A, Solution Structure Of At3g04780.1, An Arabidopsis Ortholog
Of The C-Terminal Domain Of Human Thioredoxin-Like
Protein
Length = 161
Score = 209 bits (532), Expect = 4e-55, Method: Compositional matrix adjust.
Identities = 100/119 (84%), Positives = 108/119 (90%)
Query: 1 GYREDEGLYLESDADEQLLIYLPFTQVVKLHSIVVKGPEEEGPKTVKLFSNREHMGFSNV 60
GYREDEGL LESDADEQLLIY+PF QV+KLHS +KGPEEEGPKTVK FSN+EHM FSNV
Sbjct: 43 GYREDEGLNLESDADEQLLIYIPFNQVIKLHSFAIKGPEEEGPKTVKFFSNKEHMCFSNV 102
Query: 61 NDFPPSDTAVLTPDNLKGKPVVLKFVKFQNVRSLTIFIEDNQSDSEVTKVNKIALFGTT 119
NDFPPSDTA LT +NLKGKPVVLK+VKFQNVRSLTIFIE NQS SEVTKV KIAL+G+T
Sbjct: 103 NDFPPSDTAELTEENLKGKPVVLKYVKFQNVRSLTIFIEANQSGSEVTKVQKIALYGST 161
>pdb|1WWY|A Chain A, Solution Structure Of The Duf1000 Domain Of A
Thioredoxin-Li 1
Length = 171
Score = 97.1 bits (240), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 54/124 (43%), Positives = 77/124 (62%), Gaps = 3/124 (2%)
Query: 9 YLESDADEQLLIYLPFTQVVKLHSIVVKGPEE-EGPKTVKLFSNR-EHMGFSNVNDFPPS 66
+LESD DEQLLI + F Q VKL+S+ +GP+ +GPK VK+F N M F P+
Sbjct: 42 FLESDCDEQLLITVAFNQPVKLYSMKFQGPDNGQGPKYVKIFINLPRSMDFEEAERSEPT 101
Query: 67 DTAVLTPDNLKGKPVV-LKFVKFQNVRSLTIFIEDNQSDSEVTKVNKIALFGTTVETTDM 125
LT D++K +V L++VKFQNV S+TIF++ NQ + E T+++ GT V+ T+M
Sbjct: 102 QALELTEDDIKEDGIVPLRYVKFQNVNSVTIFVQSNQGEEETTRISYFTFIGTPVQATNM 161
Query: 126 KGLK 129
K
Sbjct: 162 NDFK 165
>pdb|1ZEM|A Chain A, Crystal Structure Of Nad+-Bound Xylitol Dehydrogenase
pdb|1ZEM|B Chain B, Crystal Structure Of Nad+-Bound Xylitol Dehydrogenase
pdb|1ZEM|C Chain C, Crystal Structure Of Nad+-Bound Xylitol Dehydrogenase
pdb|1ZEM|D Chain D, Crystal Structure Of Nad+-Bound Xylitol Dehydrogenase
pdb|1ZEM|E Chain E, Crystal Structure Of Nad+-Bound Xylitol Dehydrogenase
pdb|1ZEM|F Chain F, Crystal Structure Of Nad+-Bound Xylitol Dehydrogenase
pdb|1ZEM|G Chain G, Crystal Structure Of Nad+-Bound Xylitol Dehydrogenase
pdb|1ZEM|H Chain H, Crystal Structure Of Nad+-Bound Xylitol Dehydrogenase
Length = 262
Score = 29.3 bits (64), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 1/73 (1%)
Query: 48 LFSNREHMG-FSNVNDFPPSDTAVLTPDNLKGKPVVLKFVKFQNVRSLTIFIEDNQSDSE 106
LF+N + G F+ V D+P D A + N+ G VLK V Q + I + S +
Sbjct: 88 LFNNAGYQGAFAPVQDYPSDDFARVLTINVTGAFHVLKAVSRQMITQNYGRIVNTASMAG 147
Query: 107 VTKVNKIALFGTT 119
V +A +GT+
Sbjct: 148 VKGPPNMAAYGTS 160
>pdb|2AHX|A Chain A, Crystal Structure Of Erbb4HER4 EXTRACELLULAR DOMAIN
pdb|2AHX|B Chain B, Crystal Structure Of Erbb4HER4 EXTRACELLULAR DOMAIN
Length = 617
Score = 28.9 bits (63), Expect = 0.91, Method: Composition-based stats.
Identities = 31/134 (23%), Positives = 53/134 (39%), Gaps = 23/134 (17%)
Query: 19 LIYLPFTQVVKLHSIVVKGPEEEGPKTVKLFSN-REHMGFSNVNDFPPSDTAVLTPDNL- 76
LI+L V +H E P+ + +F RE GF N+ +PP+ T NL
Sbjct: 342 LIFL----VTGIHGDPYNAIEAIDPEKLNVFRTVREITGFLNIQSWPPNMTDFSVFSNLV 397
Query: 77 ----------------KGKPVV-LKFVKFQNVRSLTIFIEDNQSDSEVTKVNKIALFGTT 119
K + + L+F + + + I+I DN + +N LF T
Sbjct: 398 TIGGRVLYSGLSLLILKQQGITSLQFQSLKEISAGNIYITDNSNLCYYHTINWTTLFSTI 457
Query: 120 VETTDMKGLKKIED 133
+ ++ +K E+
Sbjct: 458 NQRIVIRDNRKAEN 471
>pdb|3U9U|E Chain E, Crystal Structure Of Extracellular Domain Of Human
Erbb4HER4 IN Complex With The Fab Fragment Of Mab1479
pdb|3U9U|F Chain F, Crystal Structure Of Extracellular Domain Of Human
Erbb4HER4 IN Complex With The Fab Fragment Of Mab1479
Length = 625
Score = 28.9 bits (63), Expect = 0.91, Method: Composition-based stats.
Identities = 31/134 (23%), Positives = 53/134 (39%), Gaps = 23/134 (17%)
Query: 19 LIYLPFTQVVKLHSIVVKGPEEEGPKTVKLFSN-REHMGFSNVNDFPPSDTAVLTPDNL- 76
LI+L V +H E P+ + +F RE GF N+ +PP+ T NL
Sbjct: 341 LIFL----VTGIHGDPYNAIEAIDPEKLNVFRTVREITGFLNIQSWPPNMTDFSVFSNLV 396
Query: 77 ----------------KGKPVV-LKFVKFQNVRSLTIFIEDNQSDSEVTKVNKIALFGTT 119
K + + L+F + + + I+I DN + +N LF T
Sbjct: 397 TIGGRVLYSGLSLLILKQQGITSLQFQSLKEISAGNIYITDNSNLCYYHTINWTTLFSTI 456
Query: 120 VETTDMKGLKKIED 133
+ ++ +K E+
Sbjct: 457 NQRIVIRDNRKAEN 470
>pdb|3U7U|A Chain A, Crystal Structure Of Extracellular Region Of Human
Epidermal Growth Factor Receptor 4 In Complex With
Neuregulin-1 Beta
pdb|3U7U|B Chain B, Crystal Structure Of Extracellular Region Of Human
Epidermal Growth Factor Receptor 4 In Complex With
Neuregulin-1 Beta
pdb|3U7U|C Chain C, Crystal Structure Of Extracellular Region Of Human
Epidermal Growth Factor Receptor 4 In Complex With
Neuregulin-1 Beta
pdb|3U7U|D Chain D, Crystal Structure Of Extracellular Region Of Human
Epidermal Growth Factor Receptor 4 In Complex With
Neuregulin-1 Beta
pdb|3U7U|E Chain E, Crystal Structure Of Extracellular Region Of Human
Epidermal Growth Factor Receptor 4 In Complex With
Neuregulin-1 Beta
pdb|3U7U|F Chain F, Crystal Structure Of Extracellular Region Of Human
Epidermal Growth Factor Receptor 4 In Complex With
Neuregulin-1 Beta
Length = 615
Score = 28.9 bits (63), Expect = 0.91, Method: Composition-based stats.
Identities = 31/134 (23%), Positives = 53/134 (39%), Gaps = 23/134 (17%)
Query: 19 LIYLPFTQVVKLHSIVVKGPEEEGPKTVKLFSN-REHMGFSNVNDFPPSDTAVLTPDNL- 76
LI+L V +H E P+ + +F RE GF N+ +PP+ T NL
Sbjct: 341 LIFL----VTGIHGDPYNAIEAIDPEKLNVFRTVREITGFLNIQSWPPNMTDFSVFSNLV 396
Query: 77 ----------------KGKPVV-LKFVKFQNVRSLTIFIEDNQSDSEVTKVNKIALFGTT 119
K + + L+F + + + I+I DN + +N LF T
Sbjct: 397 TIGGRVLYSGLSLLILKQQGITSLQFQSLKEISAGNIYITDNSNLCYYHTINWTTLFSTI 456
Query: 120 VETTDMKGLKKIED 133
+ ++ +K E+
Sbjct: 457 NQRIVIRDNRKAEN 470
>pdb|3U2P|A Chain A, Crystal Structure Of N-Terminal Three Extracellular
Domains Of Erbb4HER4
Length = 497
Score = 28.9 bits (63), Expect = 0.91, Method: Composition-based stats.
Identities = 31/134 (23%), Positives = 53/134 (39%), Gaps = 23/134 (17%)
Query: 19 LIYLPFTQVVKLHSIVVKGPEEEGPKTVKLFSN-REHMGFSNVNDFPPSDTAVLTPDNL- 76
LI+L V +H E P+ + +F RE GF N+ +PP+ T NL
Sbjct: 341 LIFL----VTGIHGDPYNAIEAIDPEKLNVFRTVREITGFLNIQSWPPNMTDFSVFSNLV 396
Query: 77 ----------------KGKPVV-LKFVKFQNVRSLTIFIEDNQSDSEVTKVNKIALFGTT 119
K + + L+F + + + I+I DN + +N LF T
Sbjct: 397 TIGGRVLYSGLSLLILKQQGITSLQFQSLKEISAGNIYITDNSNLCYYHTINWTTLFSTI 456
Query: 120 VETTDMKGLKKIED 133
+ ++ +K E+
Sbjct: 457 NQRIVIRDNRKAEN 470
>pdb|4F11|A Chain A, Crystal Structure Of The Extracellular Domain Of Human
Gaba(B) Receptor Gbr2
pdb|4F12|A Chain A, Crystal Structure Of The Extracellular Domain Of Human
Gaba(B) Receptor Gbr2
Length = 433
Score = 27.3 bits (59), Expect = 2.4, Method: Composition-based stats.
Identities = 18/64 (28%), Positives = 27/64 (42%), Gaps = 8/64 (12%)
Query: 65 PSDTAVLTPDNLKGKPVVLKFVKFQNVRSLTIFIEDNQSDSEVTKVNKIALFGTTVETTD 124
PSD AV P +LK +K + + +D Q SEV L+G +E +D
Sbjct: 136 PSDNAV--------NPAILKLLKHYQWKRVGTLTQDVQRFSEVRNDLTGVLYGEDIEISD 187
Query: 125 MKGL 128
+
Sbjct: 188 TESF 191
>pdb|3IYD|C Chain C, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
pdb|4IGC|C Chain C, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
pdb|4IGC|H Chain H, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
Length = 1342
Score = 26.6 bits (57), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 31/71 (43%), Gaps = 2/71 (2%)
Query: 66 SDTAVLTP-DNLKGKPVVLKFVKFQNVRSLTIFIEDNQSDSEVTKVNKIALFGTTVETTD 124
D L P D + KP+ +F L+ F++ N SE+T +I+ G T +
Sbjct: 482 GDLDTLMPQDMINAKPISAAVKEFFGSSQLSQFMDQNNPLSEITHKRRISALGPGGLTRE 541
Query: 125 MKGLKKIEDNH 135
G ++ D H
Sbjct: 542 RAGF-EVRDVH 551
>pdb|3AGJ|B Chain B, Crystal Structure Of Archaeal Pelota And Gtp-bound Ef1
Alpha Complex
pdb|3AGJ|D Chain D, Crystal Structure Of Archaeal Pelota And Gtp-bound Ef1
Alpha Complex
pdb|3AGJ|F Chain F, Crystal Structure Of Archaeal Pelota And Gtp-bound Ef1
Alpha Complex
pdb|3AGJ|H Chain H, Crystal Structure Of Archaeal Pelota And Gtp-bound Ef1
Alpha Complex
Length = 358
Score = 25.8 bits (55), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 21 YLPFTQVVKLHSIVVKGPEEEGPK 44
+ PFT +++ IVV+GP+E G K
Sbjct: 69 FQPFTGKLRISGIVVEGPDEFGVK 92
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
0.314 0.135 0.376
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,879,792
Number of Sequences: 62578
Number of extensions: 146129
Number of successful extensions: 218
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 206
Number of HSP's gapped (non-prelim): 18
length of query: 135
length of database: 14,973,337
effective HSP length: 88
effective length of query: 47
effective length of database: 9,466,473
effective search space: 444924231
effective search space used: 444924231
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 46 (22.3 bits)