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= psy3171
(305 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2A79|B Chain B, Mammalian Shaker Kv1.2 Potassium Channel- Beta Subunit
Complex
Length = 499
Score = 162 bits (411), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 94/206 (45%), Positives = 113/206 (54%), Gaps = 22/206 (10%)
Query: 9 REDEGFIKEEEKPLPSHEFQRKVWLLFEYPESSQAARXXXXXXXXXXXXXXXXXCLETLP 68
REDEG+IKEEE+PLP +EFQR+VWLLFEYPESS AR CLETLP
Sbjct: 127 REDEGYIKEEERPLPENEFQRQVWLLFEYPESSGPARIIAIVSVMVILISIVSFCLETLP 186
Query: 69 EFKHYK--------VFNTTTNGTKIEEDEVPDITDPFFLIETLCIIWFTFELSVRFLACP 120
F+ F+T +N T I + TDPFF++ETLCIIWF+FE VRF ACP
Sbjct: 187 IFRDENEDMHGGGVTFHTYSNST-IGYQQSTSFTDPFFIVETLCIIWFSFEFLVRFFACP 245
Query: 121 NKLNFFRDVMNXXXXXXXXXXXXTLATVVAEEEDVLNLPKAPVSPQD-KSTNQAMSLAXX 179
+K FF ++MN TL T +AE+ P+D + QAMSLA
Sbjct: 246 SKAGFFTNIMNIIDIVAIIPYFITLGTELAEK------------PEDAQQGQQAMSLAIL 293
Query: 180 XXXXXXXXXXXXKLSRHSKGLQILGR 205
KLSRHSKGLQILG+
Sbjct: 294 RVIRLVRVFRIFKLSRHSKGLQILGQ 319
>pdb|3LUT|B Chain B, A Structural Model For The Full-Length Shaker Potassium
Channel Kv1.2
Length = 499
Score = 160 bits (405), Expect = 8e-40, Method: Compositional matrix adjust.
Identities = 93/206 (45%), Positives = 112/206 (54%), Gaps = 22/206 (10%)
Query: 9 REDEGFIKEEEKPLPSHEFQRKVWLLFEYPESSQAARXXXXXXXXXXXXXXXXXCLETLP 68
REDEG+IKEEE+PLP +EFQR+VWLLFEYPESS AR CLETLP
Sbjct: 127 REDEGYIKEEERPLPENEFQRQVWLLFEYPESSGPARIIAIVSVMVILISIVSFCLETLP 186
Query: 69 EFKHYK--------VFNTTTNGTKIEEDEVPDITDPFFLIETLCIIWFTFELSVRFLACP 120
F+ F+T + T I + TDPFF++ETLCIIWF+FE VRF ACP
Sbjct: 187 IFRDENEDMHGGGVTFHTYSQST-IGYQQSTSFTDPFFIVETLCIIWFSFEFLVRFFACP 245
Query: 121 NKLNFFRDVMNXXXXXXXXXXXXTLATVVAEEEDVLNLPKAPVSPQD-KSTNQAMSLAXX 179
+K FF ++MN TL T +AE+ P+D + QAMSLA
Sbjct: 246 SKAGFFTNIMNIIDIVAIIPYFITLGTELAEK------------PEDAQQGQQAMSLAIL 293
Query: 180 XXXXXXXXXXXXKLSRHSKGLQILGR 205
KLSRHSKGLQILG+
Sbjct: 294 RVIRLVRVFRIFKLSRHSKGLQILGQ 319
>pdb|2R9R|B Chain B, Shaker Family Voltage Dependent Potassium Channel
(Kv1.2-Kv2.1 Paddle Chimera Channel) In Association With
Beta Subunit
pdb|2R9R|H Chain H, Shaker Family Voltage Dependent Potassium Channel
(Kv1.2-Kv2.1 Paddle Chimera Channel) In Association With
Beta Subunit
Length = 514
Score = 140 bits (352), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 84/206 (40%), Positives = 105/206 (50%), Gaps = 26/206 (12%)
Query: 9 REDEGFIKEEEKPLPSHEFQRKVWLLFEYPESSQAARXXXXXXXXXXXXXXXXXCLETLP 68
REDEG+IKEEE+PLP +EFQR+VWLLFEYPESS AR CLETLP
Sbjct: 146 REDEGYIKEEERPLPENEFQRQVWLLFEYPESSGPARIIAIVSVMVILISIVSFCLETLP 205
Query: 69 EFKHYK--------VFNTTTNGTKIEEDEVPDITDPFFLIETLCIIWFTFELSVRFLACP 120
F+ F+T + T I + TDPFF++ETLCIIWF+FE VRF ACP
Sbjct: 206 IFRDENEDMHGGGVTFHTYSQST-IGYQQSTSFTDPFFIVETLCIIWFSFEFLVRFFACP 264
Query: 121 NKLNFFRDVMNXXXXXXXXXXXXTLATVVAEEEDVLNLPKAPVSPQDKSTNQAMSLAXXX 180
+K FF ++MN T+ ++ +KS Q ++
Sbjct: 265 SKAGFFTNIMNIIDIVAIIPYYVTIF----------------LTESNKSVLQFQNVRRVV 308
Query: 181 XX-XXXXXXXXXKLSRHSKGLQILGR 205
KLSRHSKGLQILG+
Sbjct: 309 QIFRIMRILRIFKLSRHSKGLQILGQ 334
>pdb|3LNM|B Chain B, F233w Mutant Of The Kv2.1 Paddle-Kv1.2 Chimera Channel
pdb|3LNM|D Chain D, F233w Mutant Of The Kv2.1 Paddle-Kv1.2 Chimera Channel
Length = 514
Score = 138 bits (347), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 83/206 (40%), Positives = 105/206 (50%), Gaps = 26/206 (12%)
Query: 9 REDEGFIKEEEKPLPSHEFQRKVWLLFEYPESSQAARXXXXXXXXXXXXXXXXXCLETLP 68
REDEG+IKEEE+PLP +EFQR+VWLLFEYPESS AR CLETLP
Sbjct: 146 REDEGYIKEEERPLPENEFQRQVWLLFEYPESSGPARIIAIVSVMVILISIVSFCLETLP 205
Query: 69 EFKHYK--------VFNTTTNGTKIEEDEVPDITDPFFLIETLCIIWFTFELSVRFLACP 120
F+ F+T + T I + TDPFF++ETLCIIW++FE VRF ACP
Sbjct: 206 IFRDENEDMHGGGVTFHTYSQST-IGYQQSTSFTDPFFIVETLCIIWWSFEFLVRFFACP 264
Query: 121 NKLNFFRDVMNXXXXXXXXXXXXTLATVVAEEEDVLNLPKAPVSPQDKSTNQAMSLAXXX 180
+K FF ++MN T+ ++ +KS Q ++
Sbjct: 265 SKAGFFTNIMNIIDIVAIIPYYVTIF----------------LTESNKSVLQFQNVRRVV 308
Query: 181 XX-XXXXXXXXXKLSRHSKGLQILGR 205
KLSRHSKGLQILG+
Sbjct: 309 QIFRIMRILRIFKLSRHSKGLQILGQ 334
>pdb|1VT4|I Chain I, Structure Of The Drosophila Apoptosome
pdb|1VT4|J Chain J, Structure Of The Drosophila Apoptosome
pdb|1VT4|K Chain K, Structure Of The Drosophila Apoptosome
pdb|1VT4|L Chain L, Structure Of The Drosophila Apoptosome
pdb|1VT4|M Chain M, Structure Of The Drosophila Apoptosome
pdb|1VT4|N Chain N, Structure Of The Drosophila Apoptosome
pdb|1VT4|O Chain O, Structure Of The Drosophila Apoptosome
pdb|1VT4|P Chain P, Structure Of The Drosophila Apoptosome
pdb|3IZ8|A Chain A, Structure Of The Drosophila Apoptosome
pdb|3IZ8|B Chain B, Structure Of The Drosophila Apoptosome
pdb|3IZ8|C Chain C, Structure Of The Drosophila Apoptosome
pdb|3IZ8|D Chain D, Structure Of The Drosophila Apoptosome
pdb|3IZ8|E Chain E, Structure Of The Drosophila Apoptosome
pdb|3IZ8|F Chain F, Structure Of The Drosophila Apoptosome
pdb|3IZ8|G Chain G, Structure Of The Drosophila Apoptosome
pdb|3IZ8|H Chain H, Structure Of The Drosophila Apoptosome
Length = 1221
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 33/64 (51%), Gaps = 7/64 (10%)
Query: 231 ETCIIVL---RLSKAKVPIVIFRYLLCNSRYSQVTRVLRAATHYQVDLRGTPDQVDLTGT 287
E C++VL + +KA + +L +R+ QVT L AAT + L D +T T
Sbjct: 244 ENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISL----DHHSMTLT 299
Query: 288 PDQV 291
PD+V
Sbjct: 300 PDEV 303
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 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,569,630
Number of Sequences: 62578
Number of extensions: 242803
Number of successful extensions: 433
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 421
Number of HSP's gapped (non-prelim): 7
length of query: 305
length of database: 14,973,337
effective HSP length: 98
effective length of query: 207
effective length of database: 8,840,693
effective search space: 1830023451
effective search space used: 1830023451
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: 51 (24.3 bits)