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= 045616
(671 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3U06|A Chain A, Crystal Structure Of The Kinesin-14 Ncdg347d
pdb|3U06|B Chain B, Crystal Structure Of The Kinesin-14 Ncdg347d
Length = 412
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 33/136 (24%), Positives = 62/136 (45%), Gaps = 17/136 (12%)
Query: 218 SLIKALKTELDHARVKIKELLRDQQADRHEMDDLMKQIAEDKLIRKSKEQDRIHAAVQSV 277
S+ AL TE+ H R + +ELLR + E++ +Q+ + + RK +H V +
Sbjct: 3 SMHAALSTEVVHLRQRTEELLRCNEQQAAELETCKEQLFQSNMERK-----ELHNTVMDL 57
Query: 278 RDELEDERKLRKRSESLHRKLARELS-EVKSTLSNALRELEGERRSRKLLEELCDEFAIG 336
RD + ++R ES ++ + +ST+ L+ ++ + +S+
Sbjct: 58 RDNIRVFCRIRPPLESEENRMCCTWTYHDESTVE--LQSIDAQAKSK---------MGQQ 106
Query: 337 IKDYDQELHALKQKSD 352
I +DQ H L +SD
Sbjct: 107 IFSFDQVFHPLSSQSD 122
>pdb|1DEQ|A Chain A, The Crystal Structure Of Modified Bovine Fibrinogen (At ~4
Angstrom Resolution)
pdb|1DEQ|D Chain D, The Crystal Structure Of Modified Bovine Fibrinogen (At ~4
Angstrom Resolution)
pdb|1DEQ|N Chain N, The Crystal Structure Of Modified Bovine Fibrinogen (At ~4
Angstrom Resolution)
pdb|1DEQ|Q Chain Q, The Crystal Structure Of Modified Bovine Fibrinogen (At ~4
Angstrom Resolution)
Length = 390
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 24/61 (39%), Positives = 33/61 (54%), Gaps = 7/61 (11%)
Query: 234 IKELLRDQQADRHEMDDLMKQIAED------KLIRKSKEQ-DRIHAAVQSVRDELEDERK 286
I EL+R A + D+ KQI ED L RK EQ RI+ ++VRD+L D ++
Sbjct: 93 IVELMRGDFAKANNNDNTFKQINEDLRSRIEILRRKVIEQVQRINLLQKNVRDQLVDMKR 152
Query: 287 L 287
L
Sbjct: 153 L 153
>pdb|1CII|A Chain A, Colicin Ia
Length = 602
Score = 30.0 bits (66), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 26/105 (24%), Positives = 54/105 (51%), Gaps = 5/105 (4%)
Query: 199 LLKVLNRIWSLEEQHASNVSLIKALKTELDHARVKIKELLRDQQADRHEMDDLMKQIAED 258
LL N+I S E S + + A E HA + LL++++ R+++ + ++IAE+
Sbjct: 358 LLDARNKITSAESAVNSARNNLSARTNEQKHANDALNALLKEKENIRNQLSGINQKIAEE 417
Query: 259 KLIRKSKEQDRIHAAVQSVRDELEDERKLRKRSESLHRKLARELS 303
K ++QD + A ++ E + + ++ + +LARE++
Sbjct: 418 K-----RKQDELKATKDAINFTTEFLKSVSEKYGAKAEQLAREMA 457
>pdb|1CZ7|A Chain A, The Crystal Structure Of A Minus-End Directed Microtubule
Motor Protein Ncd Reveals Variable Dimer Conformations
pdb|1CZ7|B Chain B, The Crystal Structure Of A Minus-End Directed Microtubule
Motor Protein Ncd Reveals Variable Dimer Conformations
pdb|1CZ7|C Chain C, The Crystal Structure Of A Minus-End Directed Microtubule
Motor Protein Ncd Reveals Variable Dimer Conformations
pdb|1CZ7|D Chain D, The Crystal Structure Of A Minus-End Directed Microtubule
Motor Protein Ncd Reveals Variable Dimer Conformations
Length = 406
Score = 28.9 bits (63), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 31/132 (23%), Positives = 59/132 (44%), Gaps = 17/132 (12%)
Query: 222 ALKTELDHARVKIKELLRDQQADRHEMDDLMKQIAEDKLIRKSKEQDRIHAAVQSVRDEL 281
AL TE+ H R + +ELLR + E++ +Q+ + + RK +H V +R +
Sbjct: 1 ALSTEVVHLRQRTEELLRCNEQQAAELETCKEQLFQSNMERK-----ELHNTVMDLRGNI 55
Query: 282 EDERKLRKRSESLHRKLARELS-EVKSTLSNALRELEGERRSRKLLEELCDEFAIGIKDY 340
++R ES ++ + +ST+ L+ ++ + +S+ I +
Sbjct: 56 RVFCRIRPPLESEENRMCCTWTYHDESTVE--LQSIDAQAKSK---------MGQQIFSF 104
Query: 341 DQELHALKQKSD 352
DQ H L +SD
Sbjct: 105 DQVFHPLSSQSD 116
>pdb|1N6M|A Chain A, Rotation Of The StalkNECK AND ONE HEAD IN A NEW CRYSTAL
Structure Of The Kinesin Motor Protein, Ncd
pdb|1N6M|B Chain B, Rotation Of The StalkNECK AND ONE HEAD IN A NEW CRYSTAL
Structure Of The Kinesin Motor Protein, Ncd
Length = 409
Score = 28.9 bits (63), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 31/132 (23%), Positives = 59/132 (44%), Gaps = 17/132 (12%)
Query: 222 ALKTELDHARVKIKELLRDQQADRHEMDDLMKQIAEDKLIRKSKEQDRIHAAVQSVRDEL 281
AL TE+ H R + +ELLR + E++ +Q+ + + RK +H V +R +
Sbjct: 4 ALSTEVVHLRQRTEELLRCNEQQAAELETCKEQLFQSNMERK-----ELHNTVMDLRGNI 58
Query: 282 EDERKLRKRSESLHRKLARELS-EVKSTLSNALRELEGERRSRKLLEELCDEFAIGIKDY 340
++R ES ++ + +ST+ L+ ++ + +S+ I +
Sbjct: 59 RVFCRIRPPLESEENRMCCTWTYHDESTVE--LQSIDAQAKSK---------MGQQIFSF 107
Query: 341 DQELHALKQKSD 352
DQ H L +SD
Sbjct: 108 DQVFHPLSSQSD 119
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 0.128 0.362
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,071,918
Number of Sequences: 62578
Number of extensions: 755422
Number of successful extensions: 1565
Number of sequences better than 100.0: 63
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 48
Number of HSP's that attempted gapping in prelim test: 1506
Number of HSP's gapped (non-prelim): 88
length of query: 671
length of database: 14,973,337
effective HSP length: 105
effective length of query: 566
effective length of database: 8,402,647
effective search space: 4755898202
effective search space used: 4755898202
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: 55 (25.8 bits)