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= 023824
(276 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3EMN|X Chain X, The Crystal Structure Of Mouse Vdac1 At 2.3 A Resolution
Length = 295
Score = 37.4 bits (85), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 59/267 (22%), Positives = 106/267 (39%), Gaps = 15/267 (5%)
Query: 5 PGLFADIGKKAKDLLTKDYNADQ-KISISTYSGAGVALTSTAVKKGGLSA--GDVAAQYK 61
P +AD+GK A+D+ TK Y K+ + T S G+ TS+ + G + +Y+
Sbjct: 16 PPTYADLGKSARDVFTKGYGFGLIKLDLKTKSENGLEFTSSGSANTETTKVNGSLETKYR 75
Query: 62 YKN--VLFDVKVDTESNILTTFTLTEILPSTKAIASLKVPDYNSG----KLEVQYFHDHA 115
+ + F K +T++ + T T+ + L + N+G K++ Y +H
Sbjct: 76 WTEYGLTFTEKWNTDNTLGTEITVEDQLARGLKLTFDSSFSPNTGKKNAKIKTGYKREHI 135
Query: 116 TFTSAIALN-QSPCIDVTATIGTPSIAFGAEAGYDTTSGNFTKYTAGISVTKPDSCASII 174
+ + P I +G G + ++T+ T+ + K D
Sbjct: 136 NLGCDVDFDIAGPSIRGALVLGYEGWLAGYQMNFETSKSRVTQSNFAVGY-KTDEFQLHT 194
Query: 175 LGDKGDTIRASYVHHLDNLKKSAAVGEITRRFSTNENT-FTVGGSYAVDHLTVVKAKLNN 233
+ G S ++ ++A T + N NT F + Y VD AK+NN
Sbjct: 195 NVNDGTEFGGSIYQKVNKKLETAVNLAWT---AGNSNTRFGIAAKYQVDPDACFSAKVNN 251
Query: 234 HGKLGALLQHEVIPKSLLTISSEVDTK 260
+G + P LT+S+ +D K
Sbjct: 252 SSLIGLGYTQTLKPGIKLTLSALLDGK 278
>pdb|2K4T|A Chain A, Solution Structure Of Human Vdac-1 In Ldao Micelles
Length = 291
Score = 36.2 bits (82), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 58/267 (21%), Positives = 105/267 (39%), Gaps = 15/267 (5%)
Query: 5 PGLFADIGKKAKDLLTKDYNADQ-KISISTYSGAGVALTSTAVKKGGLS--AGDVAAQYK 61
P +AD+GK A+D+ TK Y K+ + T S G+ TS+ + G + +Y+
Sbjct: 4 PPTYADLGKSARDVFTKGYGFGLIKLDLKTKSENGLEFTSSGSANTETTKVTGSLETKYR 63
Query: 62 YKN--VLFDVKVDTESNILTTFTLTEILPSTKAIASLKVPDYNSG----KLEVQYFHDHA 115
+ + F K +T++ + T T+ + L + N+G K++ Y +H
Sbjct: 64 WTEYGLTFTEKWNTDNTLGTEITVEDQLARGLKLTFDSSFSPNTGKKNAKIKTGYKREHI 123
Query: 116 TFTSAIALN-QSPCIDVTATIGTPSIAFGAEAGYDTTSGNFTKYTAGISVTKPDSCASII 174
+ + P I +G G + ++T T+ + K D
Sbjct: 124 NLGCDMDFDIAGPSIRGALVLGYEGWLAGYQMNFETAKSRVTQSNFAVGY-KTDEFQLHT 182
Query: 175 LGDKGDTIRASYVHHLDNLKKSAAVGEITRRFSTNENT-FTVGGSYAVDHLTVVKAKLNN 233
+ G S ++ ++A T + N NT F + Y +D AK+NN
Sbjct: 183 NVNDGTEFGGSIYQKVNKKLETAVNLAWT---AGNSNTRFGIAAKYQIDPDACFSAKVNN 239
Query: 234 HGKLGALLQHEVIPKSLLTISSEVDTK 260
+G + P LT+S+ +D K
Sbjct: 240 SSLIGLGYTQTLKPGIKLTLSALLDGK 266
>pdb|2JK4|A Chain A, Structure Of The Human Voltage-Dependent Anion Channel
Length = 294
Score = 36.2 bits (82), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 58/267 (21%), Positives = 105/267 (39%), Gaps = 15/267 (5%)
Query: 5 PGLFADIGKKAKDLLTKDYNADQ-KISISTYSGAGVALTSTAVKKGGLS--AGDVAAQYK 61
P +AD+GK A+D+ TK Y K+ + T S G+ TS+ + G + +Y+
Sbjct: 7 PPTYADLGKSARDVFTKGYGFGLIKLDLKTKSENGLEFTSSGSANTETTKVTGSLETKYR 66
Query: 62 YKN--VLFDVKVDTESNILTTFTLTEILPSTKAIASLKVPDYNSG----KLEVQYFHDHA 115
+ + F K +T++ + T T+ + L + N+G K++ Y +H
Sbjct: 67 WTEYGLTFTEKWNTDNTLGTEITVEDQLARGLKLTFDSSFSPNTGKKNAKIKTGYKREHI 126
Query: 116 TFTSAIALN-QSPCIDVTATIGTPSIAFGAEAGYDTTSGNFTKYTAGISVTKPDSCASII 174
+ + P I +G G + ++T T+ + K D
Sbjct: 127 NLGCDMDFDIAGPSIRGALVLGYEGWLAGYQMNFETAKSRVTQSNFAVGY-KTDEFQLHT 185
Query: 175 LGDKGDTIRASYVHHLDNLKKSAAVGEITRRFSTNENT-FTVGGSYAVDHLTVVKAKLNN 233
+ G S ++ ++A T + N NT F + Y +D AK+NN
Sbjct: 186 NVNDGTEFGGSIYQKVNKKLETAVNLAWT---AGNSNTRFGIAAKYQIDPDACFSAKVNN 242
Query: 234 HGKLGALLQHEVIPKSLLTISSEVDTK 260
+G + P LT+S+ +D K
Sbjct: 243 SSLIGLGYTQTLKPGIKLTLSALLDGK 269
>pdb|1A0I|A Chain A, Atp-Dependent Dna Ligase From Bacteriophage T7 Complex
With Atp
Length = 348
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 17/70 (24%), Positives = 35/70 (50%)
Query: 29 ISISTYSGAGVALTSTAVKKGGLSAGDVAAQYKYKNVLFDVKVDTESNILTTFTLTEILP 88
++I T V+ +A+KK +AG + A+ KY V ++ VD +N +++ +P
Sbjct: 1 VNIKTNPFKAVSFVESAIKKALDNAGYLIAEIKYDGVRGNICVDNTANSYWLSRVSKTIP 60
Query: 89 STKAIASLKV 98
+ + + V
Sbjct: 61 ALEHLNGFDV 70
>pdb|3GQ7|A Chain A, Crystal Structure Of The Bacteriophage Phi29 Gene Product
12 N- Terminal Fragment
pdb|3GQ8|A Chain A, Crystal Structure Of The Bacteriophage Phi29 Gene Product
12 N- Terminal Fragment In Complex With
2-(N-Cyclohexylamino)ethane Sulfonic Acid (Ches)
pdb|3GQ9|A Chain A, Crystal Structure Of The Bacteriophage Phi29 Gene Product
12 N- Terminal Fragment In An Apo Form
pdb|3GQA|A Chain A, Crystal Structure Of The Bacteriophage Phi29 Gene Product
12 N- Terminal Fragment In Complex With Cobalt Ions
Length = 609
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 1/56 (1%)
Query: 200 GEITRRFSTNEN-TFTVGGSYAVDHLTVVKAKLNNHGKLGALLQHEVIPKSLLTIS 254
G + FS +EN + +GGS D + + LNN G+ G + + S+ IS
Sbjct: 365 GVVLTGFSNSENGIYVIGGSRGGDAVNISNVTLNNSGRYGVSIGSGIENVSITNIS 420
>pdb|3SUC|A Chain A, Crystal Structure Of The Pre-Mature Bacteriophage Phi29
Gene Product 12
Length = 772
Score = 27.7 bits (60), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 206 FSTNEN-TFTVGGSYAVDHLTVVKAKLNNHGKLGALLQHEVIPKSLLTIS 254
FS +EN + +GGS D + + LNN G+ G + + S+ IS
Sbjct: 371 FSNSENGIYVIGGSRGGDAVNISNVTLNNSGRYGVSIGSGIENVSITNIS 420
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
0.313 0.130 0.360
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,984,132
Number of Sequences: 62578
Number of extensions: 315525
Number of successful extensions: 584
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 575
Number of HSP's gapped (non-prelim): 9
length of query: 276
length of database: 14,973,337
effective HSP length: 97
effective length of query: 179
effective length of database: 8,903,271
effective search space: 1593685509
effective search space used: 1593685509
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: 51 (24.3 bits)