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= 004938
(722 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2NPN|A Chain A, Crystal Structure Of Putative Cobalamin Synthesis Related
Protein (Cobf) From Corynebacterium Diphtheriae
Length = 251
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 33/75 (44%), Gaps = 17/75 (22%)
Query: 644 DEEKREVILWHSEKLALCYGLISSKK-----------------DSCIRIVKNLRVCEDCH 686
D + EV WH+E+ L I + DS +RI+++ R ED H
Sbjct: 74 DNYEEEVRRWHAERAHLLASTIRERTPDDGAVAFLVWGDPSLYDSTLRIIEHXRNLEDLH 133
Query: 687 NFIKLVSKVYAREIV 701
+K++ + A +++
Sbjct: 134 ADVKVIPGITAVQVL 148
>pdb|2BKI|A Chain A, Myosin Vi Nucleotide-Free (Mdinsert2-Iq) Crystal Structure
Length = 858
Score = 30.8 bits (68), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 29/99 (29%), Positives = 46/99 (46%), Gaps = 12/99 (12%)
Query: 536 ELAEFAAKQLLQLDPDHDGALVLLSNIYAKDKRWQDVGELRKS-MKERGILKERACSRIE 594
+ AEF Q+++ DPDH LV N + RW+ V S +K + +K RA + I+
Sbjct: 762 KFAEF--DQIMKSDPDHLAELVKRVNHWLICSRWKKVQWCSLSVIKLKNKIKYRAEACIK 819
Query: 595 MNNEVYEFLTADRSHKQTDQI---------YEKLNEVIS 624
M + +L R + D + +K NEV+S
Sbjct: 820 MQKTIRMWLCKRRHKPRIDGLVKVGTLKKRLDKFNEVVS 858
>pdb|1W3B|A Chain A, The Superhelical Tpr Domain Of O-Linked Glcnac Transferase
Reveals Structural Similarities To Importin Alpha.
pdb|1W3B|B Chain B, The Superhelical Tpr Domain Of O-Linked Glcnac Transferase
Reveals Structural Similarities To Importin Alpha
Length = 388
Score = 30.8 bits (68), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 53/256 (20%), Positives = 111/256 (43%), Gaps = 22/256 (8%)
Query: 318 WSAMISGYAENNHPQEALKLFNEMQVCGMKPDKVT-MLSVISACAHLGVLDQAQRIHLYI 376
+S + + Y E QEA++ + +KPD + +++ +A G ++ A + Y+
Sbjct: 70 YSNLGNVYKERGQLQEAIEHYR--HALRLKPDFIDGYINLAAALVAAGDMEGA--VQAYV 125
Query: 377 DKNAFGGDLR-VNNAIIDMYAKCGSLESAREVFER---MRRRNVISWTSMINAFAIHGDA 432
+ DL V + + ++ G LE A+ + + + ++W+++ F G+
Sbjct: 126 SALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEI 185
Query: 433 RNALIFFNKMKDESIDPNGV-TFIGVLYACSHAGLVDEGREIFASMTNEYNIPPKYEH-Y 490
A+ F K ++DPN + +I + A + D A+ ++ P + +
Sbjct: 186 WLAIHHFEKAV--TLDPNFLDAYINLGNVLKEARIFDRA---VAAYLRALSLSPNHAVVH 240
Query: 491 GCMVDLFGRANLLREALEL----VETMPFAPNVVIWGSLMAACRVHGEIELAEFAAKQLL 546
G + ++ L+ A++ +E P P+ + +L A + G + AE L
Sbjct: 241 GNLACVYYEQGLIDLAIDTYRRAIELQPHFPDA--YCNLANALKEKGSVAEAEDCYNTAL 298
Query: 547 QLDPDHDGALVLLSNI 562
+L P H +L L+NI
Sbjct: 299 RLCPTHADSLNNLANI 314
Score = 30.0 bits (66), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 24/36 (66%)
Query: 533 GEIELAEFAAKQLLQLDPDHDGALVLLSNIYAKDKR 568
G+ E AE QL + +PD+ G L+LLS+I+ + +R
Sbjct: 13 GDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRR 48
Score = 29.6 bits (65), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 41/156 (26%), Positives = 71/156 (45%), Gaps = 23/156 (14%)
Query: 418 SWTSMINAFAIHGDARNALIFFN---KMKDESIDPNGVTFIGVLYACSHAGLVDEGREIF 474
+++++ N + G + A+ + ++K + ID +I + A AG ++ + +
Sbjct: 69 AYSNLGNVYKERGQLQEAIEHYRHALRLKPDFID----GYINLAAALVAAGDMEGAVQAY 124
Query: 475 ASMTNEYNIPPKY---EHYGCMVDLFGRANLLREA----LELVETMP-FAPNVVIWGSLM 526
S +YN P Y G ++ GR L EA L+ +ET P FA V W +L
Sbjct: 125 VSAL-QYN-PDLYCVRSDLGNLLKALGR---LEEAKACYLKAIETQPNFA---VAWSNLG 176
Query: 527 AACRVHGEIELAEFAAKQLLQLDPDHDGALVLLSNI 562
GEI LA ++ + LDP+ A + L N+
Sbjct: 177 CVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNV 212
>pdb|1T5J|A Chain A, Crystal Structure Of Ribosylglycohydrolase Mj1187 From
Methanococcus Jannaschii
Length = 313
Score = 30.0 bits (66), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 42/75 (56%), Gaps = 3/75 (4%)
Query: 628 PAGYVPDIHSALVDLEDEEKREVILWHSEKLALCYGL-ISSKKDSCIRIVKNLRVCEDCH 686
P G V H+ L L++E + + H+ K A+ L I+ S ++ K+ + ++C+
Sbjct: 132 PLGIV--FHNNLKKLKEEVIKASKITHNNKTAIAGALAIAFFVSSALKDRKDFSLLDECY 189
Query: 687 NFIKLVSKVYAREIV 701
N+IK + + +A++++
Sbjct: 190 NYIKDIDEEFAKKLL 204
>pdb|4DE9|A Chain A, Lytr-Cps2a-Psr Family Protein Ywtf (Tagt) With Bound
Octaprenyl Pyrophosphate Lipid
Length = 286
Score = 29.3 bits (64), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 26/51 (50%)
Query: 526 MAACRVHGEIELAEFAAKQLLQLDPDHDGALVLLSNIYAKDKRWQDVGELR 576
MA+ H + E + K++ + DP D VLL I A++K + V + R
Sbjct: 1 MASKEAHVSLARGEQSVKRIKEFDPGKDSFSVLLLGIDAREKNGETVDQAR 51
>pdb|3GN4|A Chain A, Myosin Lever Arm
pdb|3GN4|E Chain E, Myosin Lever Arm
Length = 148
Score = 28.9 bits (63), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 30/105 (28%), Positives = 46/105 (43%), Gaps = 12/105 (11%)
Query: 549 DPDHDGALVLLSNIYAKDKRWQDVGELRKS-MKERGILKERACSRIEMNNEVYEFLTADR 607
DPDH LV N + RW+ V S +K + +K RA + I+M + +L R
Sbjct: 4 DPDHLAELVKRVNHWLICSRWKKVQWCSLSVIKLKNKIKYRAEACIKMQKTIRMWLCKRR 63
Query: 608 SHKQTDQI---------YEKLNEVISELKPAGYVPDIHSALVDLE 643
+ D + +K NEV+S LK ++ + DLE
Sbjct: 64 HKPRIDGLVKVGTLKKRLDKFNEVVSALKDGK--QEMSKQVKDLE 106
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
0.322 0.136 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,841,434
Number of Sequences: 62578
Number of extensions: 786072
Number of successful extensions: 1842
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1836
Number of HSP's gapped (non-prelim): 10
length of query: 722
length of database: 14,973,337
effective HSP length: 106
effective length of query: 616
effective length of database: 8,340,069
effective search space: 5137482504
effective search space used: 5137482504
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: 55 (25.8 bits)