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= psy11017
(142 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1X3A|A Chain A, Solution Structure Of The Bsd Domain Of Human Synapse
Associated Protein 1
Length = 100
Score = 88.6 bits (218), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 38/65 (58%), Positives = 46/65 (70%)
Query: 36 KKNFTRNPPPGVDYEFDYTTQYPVAMVTLAQDKKLEHMRFELVPATLNETTFWRNYFYRV 95
K+NF R+PP GV + FD+ YPVA+V L +D+ L MRF LVP + E FWRNYFYRV
Sbjct: 25 KRNFLRDPPAGVQFNFDFDQMYPVALVMLQEDELLSKMRFALVPKLVKEEVFWRNYFYRV 84
Query: 96 SLITQ 100
SLI Q
Sbjct: 85 SLIKQ 89
>pdb|2A1T|A Chain A, Structure Of The Human Mcad:etf E165betaa Complex
pdb|2A1T|B Chain B, Structure Of The Human Mcad:etf E165betaa Complex
pdb|2A1T|C Chain C, Structure Of The Human Mcad:etf E165betaa Complex
pdb|2A1T|D Chain D, Structure Of The Human Mcad:etf E165betaa Complex
Length = 421
Score = 28.9 bits (63), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 25/112 (22%), Positives = 44/112 (39%), Gaps = 17/112 (15%)
Query: 3 SRNPPPGVDYEFDYTTQYPVAMVTLEQDKKLEH-KKNFTRNPPPGVDYEFDYTTQYPVAM 61
+R PG+ + F++T EQ K+ + + F R V E+D T +YPV +
Sbjct: 28 NRQREPGLGFSFEFT----------EQQKEFQATARKFAREEIIPVAAEYDKTGEYPVPL 77
Query: 62 VTLAQDKKLEHMRFELVPATLNETTFWRNYFYRVSLITQYFDTSLSSIQQPV 113
+ A + L + L TF LI++ + +Q +
Sbjct: 78 IRRAWELGLMNTHIPENCGGLGLGTF------DACLISEELAYGCTGVQTAI 123
>pdb|1EGD|A Chain A, Structure Of T255e, E376g Mutant Of Human Medium Chain
Acyl- Coa Dehydrogenase
pdb|1EGD|B Chain B, Structure Of T255e, E376g Mutant Of Human Medium Chain
Acyl- Coa Dehydrogenase
pdb|1EGD|C Chain C, Structure Of T255e, E376g Mutant Of Human Medium Chain
Acyl- Coa Dehydrogenase
pdb|1EGD|D Chain D, Structure Of T255e, E376g Mutant Of Human Medium Chain
Acyl- Coa Dehydrogenase
pdb|1EGC|A Chain A, Structure Of T255e, E376g Mutant Of Human Medium Chain
Acyl- Coa Dehydrogenase Complexed With Octanoyl-Coa
pdb|1EGC|B Chain B, Structure Of T255e, E376g Mutant Of Human Medium Chain
Acyl- Coa Dehydrogenase Complexed With Octanoyl-Coa
pdb|1EGC|C Chain C, Structure Of T255e, E376g Mutant Of Human Medium Chain
Acyl- Coa Dehydrogenase Complexed With Octanoyl-Coa
pdb|1EGC|D Chain D, Structure Of T255e, E376g Mutant Of Human Medium Chain
Acyl- Coa Dehydrogenase Complexed With Octanoyl-Coa
Length = 396
Score = 28.9 bits (63), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/112 (22%), Positives = 44/112 (39%), Gaps = 17/112 (15%)
Query: 3 SRNPPPGVDYEFDYTTQYPVAMVTLEQDKKLEH-KKNFTRNPPPGVDYEFDYTTQYPVAM 61
+R PG+ + F++T EQ K+ + + F R V E+D T +YPV +
Sbjct: 3 NRQREPGLGFSFEFT----------EQQKEFQATARKFAREEIIPVAAEYDKTGEYPVPL 52
Query: 62 VTLAQDKKLEHMRFELVPATLNETTFWRNYFYRVSLITQYFDTSLSSIQQPV 113
+ A + L + L TF LI++ + +Q +
Sbjct: 53 IRRAWELGLMNTHIPENCGGLGLGTF------DACLISEELAYGCTGVQTAI 98
>pdb|1EGE|A Chain A, Structure Of T255e, E376g Mutant Of Human Medium Chain
Acyl- Coa Dehydrogenase
pdb|1EGE|B Chain B, Structure Of T255e, E376g Mutant Of Human Medium Chain
Acyl- Coa Dehydrogenase
pdb|1EGE|C Chain C, Structure Of T255e, E376g Mutant Of Human Medium Chain
Acyl- Coa Dehydrogenase
pdb|1EGE|D Chain D, Structure Of T255e, E376g Mutant Of Human Medium Chain
Acyl- Coa Dehydrogenase
pdb|1T9G|A Chain A, Structure Of The Human Mcad:etf Complex
pdb|1T9G|B Chain B, Structure Of The Human Mcad:etf Complex
pdb|1T9G|C Chain C, Structure Of The Human Mcad:etf Complex
pdb|1T9G|D Chain D, Structure Of The Human Mcad:etf Complex
Length = 396
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/112 (22%), Positives = 44/112 (39%), Gaps = 17/112 (15%)
Query: 3 SRNPPPGVDYEFDYTTQYPVAMVTLEQDKKLEH-KKNFTRNPPPGVDYEFDYTTQYPVAM 61
+R PG+ + F++T EQ K+ + + F R V E+D T +YPV +
Sbjct: 3 NRQREPGLGFSFEFT----------EQQKEFQATARKFAREEIIPVAAEYDKTGEYPVPL 52
Query: 62 VTLAQDKKLEHMRFELVPATLNETTFWRNYFYRVSLITQYFDTSLSSIQQPV 113
+ A + L + L TF LI++ + +Q +
Sbjct: 53 IRRAWELGLMNTHIPENCGGLGLGTF------DACLISEELAYGCTGVQTAI 98
>pdb|3HE7|D Chain D, Crystal Structure Of Mouse Cd1d-Alpha-Galactosylceramide
With Mouse Valpha14-Vbeta7 Nkt Tcr
Length = 242
Score = 27.3 bits (59), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 33/85 (38%), Gaps = 7/85 (8%)
Query: 25 VTLEQDKKLEHKKNFTRNPPPG-------VDYEFDYTTQYPVAMVTLAQDKKLEHMRFEL 77
V LE + + H+ + PG + Y+ D ++ + KK EH L
Sbjct: 19 VLLECGQDMSHETMYWYRQDPGLGLQLIYISYDVDSNSEGDIPKGYRVSRKKREHFSLIL 78
Query: 78 VPATLNETTFWRNYFYRVSLITQYF 102
A N+T+ + L TQYF
Sbjct: 79 DSAKTNQTSVYFCASSSTGLDTQYF 103
>pdb|3UGM|A Chain A, Structure Of Tal Effector Pthxo1 Bound To Its Dna Target
Length = 1047
Score = 26.9 bits (58), Expect = 3.9, Method: Composition-based stats.
Identities = 12/30 (40%), Positives = 20/30 (66%)
Query: 105 SLSSIQQPVPELWPIQFLTPALVVGLSSNL 134
+L ++Q+ +P L LTPA VV ++SN+
Sbjct: 747 ALETVQRLLPVLCQAHGLTPAQVVAIASNI 776
>pdb|3ACP|A Chain A, Crystal Structure Of Yeast Rpn14, A Chaperone Of The 19s
Reg Particle Of The Proteasome
Length = 417
Score = 26.2 bits (56), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 28/65 (43%), Gaps = 4/65 (6%)
Query: 82 LNETTFWRNYFYRVS--LITQYFDTS--LSSIQQPVPELWPIQFLTPALVVGLSSNLYQS 137
+NE T N ++ ++ FDTS L I P E I+F TP +V + Q
Sbjct: 329 INEGTPINNVYFAAGALFVSSGFDTSIKLDIISDPESERPAIEFETPTFLVSNDDEVSQF 388
Query: 138 TYYLD 142
Y D
Sbjct: 389 CYVSD 393
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
0.318 0.135 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,665,789
Number of Sequences: 62578
Number of extensions: 180300
Number of successful extensions: 365
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 348
Number of HSP's gapped (non-prelim): 36
length of query: 142
length of database: 14,973,337
effective HSP length: 89
effective length of query: 53
effective length of database: 9,403,895
effective search space: 498406435
effective search space used: 498406435
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 46 (22.3 bits)