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= psy16109
(129 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1D2N|A Chain A, D2 Domain Of N-Ethylmaleimide-Sensitive Fusion Protein
Length = 272
Score = 82.8 bits (203), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 47/110 (42%), Positives = 74/110 (67%), Gaps = 2/110 (1%)
Query: 11 KKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEESDVFSKKQ 70
KK PP+ +KLL++ TTS ++VL+++++L+ FS +HVPN++T E LL +E F K+
Sbjct: 159 KKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELLGNFKDKE 218
Query: 71 VQEIERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMKFLTKLEDEGC 120
I + + K V++GI+KLL LI+M+ Q++ YRV KFL L +EG
Sbjct: 219 RTTIAQQVKGKK--VWIGIKKLLMLIEMSLQMDPEYRVRKFLALLREEGA 266
>pdb|1NSF|A Chain A, D2 Hexamerization Domain Of N-Ethylmaleimide Sensitive
Factor (Nsf)
Length = 273
Score = 82.4 bits (202), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 47/110 (42%), Positives = 74/110 (67%), Gaps = 2/110 (1%)
Query: 11 KKEPPRNKKLLVLCTTSCREVLEDLKILSKFSAVLHVPNLSTPEHLLNVIEESDVFSKKQ 70
KK PP+ +KLL++ TTS ++VL+++++L+ FS +HVPN++T E LL +E F K+
Sbjct: 158 KKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELLGNFKDKE 217
Query: 71 VQEIERYLHQHKARVFVGIRKLLGLIDMARQIEENYRVMKFLTKLEDEGC 120
I + + K V++GI+KLL LI+M+ Q++ YRV KFL L +EG
Sbjct: 218 RTTIAQQVKGKK--VWIGIKKLLMLIEMSLQMDPEYRVRKFLALLREEGA 265
>pdb|1QAG|A Chain A, Actin Binding Region Of The Dystrophin Homologue Utrophin
pdb|1QAG|B Chain B, Actin Binding Region Of The Dystrophin Homologue Utrophin
Length = 226
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 40/79 (50%), Gaps = 17/79 (21%)
Query: 41 FSAVLHVPNLSTPEHLLNVIEESDVFSKKQV---QEIERYLHQ-HKARVFVGIRKLLGLI 96
F+AVLH H + D+FS +V IER H KA+ ++GI KLL
Sbjct: 155 FNAVLH-------RH------KPDLFSWDKVVKXSPIERLEHAFSKAQTYLGIEKLLDPE 201
Query: 97 DMARQIEENYRVMKFLTKL 115
D+A ++ + ++ +LT L
Sbjct: 202 DVAVRLPDKKSIIXYLTSL 220
>pdb|1BHD|A Chain A, Second Calponin Homology Domain From Utrophin
pdb|1BHD|B Chain B, Second Calponin Homology Domain From Utrophin
Length = 118
Score = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 40/79 (50%), Gaps = 17/79 (21%)
Query: 41 FSAVLHVPNLSTPEHLLNVIEESDVFSKKQV---QEIERYLHQ-HKARVFVGIRKLLGLI 96
F+AVLH H + D+FS +V IER H KA+ ++GI KLL
Sbjct: 42 FNAVLH-------RH------KPDLFSWDKVVKMSPIERLEHAFSKAQTYLGIEKLLDPE 88
Query: 97 DMARQIEENYRVMKFLTKL 115
D+A ++ + ++ +LT L
Sbjct: 89 DVAVRLPDKKSIIMYLTSL 107
>pdb|1TUF|A Chain A, Crystal Structure Of Diaminopimelate Decarboxylase From M.
Jannaschi
pdb|1TUF|B Chain B, Crystal Structure Of Diaminopimelate Decarboxylase From M.
Jannaschi
Length = 434
Score = 27.3 bits (59), Expect = 2.5, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 32/58 (55%), Gaps = 3/58 (5%)
Query: 64 DVFSKKQVQEIERYLHQHKARVFVGIRKLLG--LIDMARQIEENYRVMKFLTKLEDEG 119
DV S ++ I+ L V VG+ +G L D++ IEE +VM F+ +L++EG
Sbjct: 183 DVESGIAMKAIKMALEMEYVNV-VGVHCHIGSQLTDISPFIEETRKVMDFVVELKEEG 239
>pdb|1TWI|A Chain A, Crystal Structure Of Diaminopimelate Decarboxylase From M.
Jannaschii In Co-Complex With L-Lysine
pdb|1TWI|B Chain B, Crystal Structure Of Diaminopimelate Decarboxylase From M.
Jannaschii In Co-Complex With L-Lysine
pdb|1TWI|C Chain C, Crystal Structure Of Diaminopimelate Decarboxylase From M.
Jannaschii In Co-Complex With L-Lysine
pdb|1TWI|D Chain D, Crystal Structure Of Diaminopimelate Decarboxylase From M.
Jannaschii In Co-Complex With L-Lysine
Length = 434
Score = 26.9 bits (58), Expect = 2.7, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 32/58 (55%), Gaps = 3/58 (5%)
Query: 64 DVFSKKQVQEIERYLHQHKARVFVGIRKLLG--LIDMARQIEENYRVMKFLTKLEDEG 119
DV S ++ I+ L V VG+ +G L D++ IEE +VM F+ +L++EG
Sbjct: 183 DVESGIAMKAIKMALEMEYVNV-VGVHCHIGSQLTDISPFIEETRKVMDFVVELKEEG 239
>pdb|1MLW|A Chain A, Crystal Structure Of Human Tryptophan Hydroxylase With
Bound 7,8-Dihydro-L-Biopterin Cofactor And Fe(Iii)
Length = 301
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 28/49 (57%), Gaps = 5/49 (10%)
Query: 25 TTSCREVLEDLKILSKFSAVL--HVPNLSTPEHLLNVIEESDVFSKKQV 71
T +CRE L++L +LSK+ ++P L E + N ++E FS + V
Sbjct: 86 THACREYLKNLPLLSKYCGYREDNIPQL---EDVSNFLKERTGFSIRPV 131
>pdb|3HF6|A Chain A, Crystal Structure Of Human Tryptophan Hydroxylase Type 1
With Bound Lp-521834 And Fe
pdb|3HF8|A Chain A, Crystal Structure Of Human Tryoptophan Hydroxylase Type 1
With Bound Lp-533401 And Fe
pdb|3HFB|A Chain A, Crystal Structure Of Human Tryoptophan Hydroxylase Type 1
With Lp- 534193
Length = 290
Score = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 28/49 (57%), Gaps = 5/49 (10%)
Query: 25 TTSCREVLEDLKILSKFSAVL--HVPNLSTPEHLLNVIEESDVFSKKQV 71
T +CRE L++L +LSK+ ++P L E + N ++E FS + V
Sbjct: 84 THACREYLKNLPLLSKYCGYREDNIPQL---EDVSNFLKERTGFSIRPV 129
>pdb|4GXT|A Chain A, The Crystal Structure Of A Conserved Functionally Unknown
Protein From Anaerococcus Prevotii Dsm 20548
Length = 385
Score = 26.9 bits (58), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 84 RVFVGIRKLLGLIDMARQIEEN 105
+ FVGIR L +D+ R +EEN
Sbjct: 215 KYFVGIRTLDEXVDLYRSLEEN 236
>pdb|2KM4|A Chain A, Solution Structure Of Rtt103 Ctd Interacting Domain
pdb|2L0I|A Chain A, Solution Structure Of Rtt103 Ctd-Interacting Domain Bound
To A Ser2 Phosphorylated Ctd Peptide
Length = 142
Score = 26.2 bits (56), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 19/24 (79%)
Query: 55 HLLNVIEESDVFSKKQVQEIERYL 78
++N+++E ++FSK+ V +IER L
Sbjct: 108 RVVNILKERNIFSKQVVNDIERSL 131
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 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,385,683
Number of Sequences: 62578
Number of extensions: 117688
Number of successful extensions: 333
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 321
Number of HSP's gapped (non-prelim): 12
length of query: 129
length of database: 14,973,337
effective HSP length: 88
effective length of query: 41
effective length of database: 9,466,473
effective search space: 388125393
effective search space used: 388125393
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)