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= 042048
(286 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3T34|A Chain A, Arabidopsis Thaliana Dynamin-Related Protein 1a (Atdrp1a)
In Prefission State
pdb|3T34|B Chain B, Arabidopsis Thaliana Dynamin-Related Protein 1a (Atdrp1a)
In Prefission State
pdb|3T35|A Chain A, Arabidopsis Thaliana Dynamin-Related Protein 1a In
Postfission State
pdb|3T35|B Chain B, Arabidopsis Thaliana Dynamin-Related Protein 1a In
Postfission State
pdb|3T35|C Chain C, Arabidopsis Thaliana Dynamin-Related Protein 1a In
Postfission State
pdb|3T35|D Chain D, Arabidopsis Thaliana Dynamin-Related Protein 1a In
Postfission State
Length = 360
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/40 (52%), Positives = 28/40 (70%), Gaps = 2/40 (5%)
Query: 245 GKQLAQLLDE--DPMLMERRQQCAKRLELYKSARDEIDSV 282
GK +A D DP +MERR +KRLELY++A+ EID+V
Sbjct: 321 GKPIAHGTDSRVDPAIMERRSAISKRLELYRAAQSEIDAV 360
>pdb|3SNH|A Chain A, Crystal Structure Of Nucleotide-Free Human Dynamin1
Length = 743
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/121 (20%), Positives = 53/121 (43%), Gaps = 3/121 (2%)
Query: 45 FEVIMLPFDRHLSPQNVRKVVSEADGYQPHLIAPEQGYRRLIDSALNYFRGPAEASVDAV 104
FE++ + FD + + + A L P+ + ++ + R P VD V
Sbjct: 369 FELVKMEFDEKELRREISYAIKNAAAAATGLFTPDMAFETIVKKQVKKIREPCLKCVDMV 428
Query: 105 HFVLKELVRRSIGETQELKRFPTLQSEIAAAANEALERFRDDSKKTTMRLVEMESSYLTV 164
L VR+ T++L+++P L+ E+ + +K+ M L+++E +Y+
Sbjct: 429 ISELISTVRQC---TKKLQQYPRLREEMERIVTTHIREREGRTKEQVMLLIDIELAYMNT 485
Query: 165 D 165
+
Sbjct: 486 N 486
Score = 33.9 bits (76), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 21/101 (20%), Positives = 46/101 (45%), Gaps = 8/101 (7%)
Query: 173 DIERVGNPTAPSAADRYTEGHFRRIGSNVSSYVGMVSETLKNTIPKAVVHCQVKEAKRSL 232
+ E G+ + + D E I + V SY+ +V++T+++ +PK ++H + K +
Sbjct: 635 ETEENGSDSFMHSMDPQLERQVETIRNLVDSYMAIVNKTVRDLMPKTIMHLMINNTKEFI 694
Query: 233 LDHFYAQLGKKEGKQLAQLLDEDPMLMERRQQCAKRLELYK 273
A L D++ ++ E +Q +R E+ +
Sbjct: 695 FSELLA--------NLYSCGDQNTLMEESAEQAQRRDEMLR 727
>pdb|3ZVR|A Chain A, Crystal Structure Of Dynamin
Length = 772
Score = 35.0 bits (79), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 21/121 (17%), Positives = 53/121 (43%), Gaps = 3/121 (2%)
Query: 45 FEVIMLPFDRHLSPQNVRKVVSEADGYQPHLIAPEQGYRRLIDSALNYFRGPAEASVDAV 104
FE++ + FD + + + + L P+ + + + + P+ VD V
Sbjct: 392 FELVKMEFDEKELRREISYAIKNIHDIRTGLFTPDLAFEATVKKQVQKLKEPSIKCVDMV 451
Query: 105 HFVLKELVRRSIGETQELKRFPTLQSEIAAAANEALERFRDDSKKTTMRLVEMESSYLTV 164
L +R+ +++L+++P L+ E+ + +K+ M L+++E +Y+
Sbjct: 452 VSELTSTIRKC---SEKLQQYPRLREEMERIVTTHIREREGRTKEQVMLLIDIELAYMNT 508
Query: 165 D 165
+
Sbjct: 509 N 509
Score = 33.9 bits (76), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 21/101 (20%), Positives = 46/101 (45%), Gaps = 8/101 (7%)
Query: 173 DIERVGNPTAPSAADRYTEGHFRRIGSNVSSYVGMVSETLKNTIPKAVVHCQVKEAKRSL 232
+ E G+ + + D E I + V SY+ +V++T+++ +PK ++H + K +
Sbjct: 658 ETEENGSDSFMHSMDPQLERQVETIRNLVDSYMAIVNKTVRDLMPKTIMHLMINNTKEFI 717
Query: 233 LDHFYAQLGKKEGKQLAQLLDEDPMLMERRQQCAKRLELYK 273
A L D++ ++ E +Q +R E+ +
Sbjct: 718 FSELLA--------NLYSCGDQNTLMEESAEQAQRRDEMLR 750
>pdb|1KOL|A Chain A, Crystal Structure Of Formaldehyde Dehydrogenase
pdb|1KOL|B Chain B, Crystal Structure Of Formaldehyde Dehydrogenase
Length = 398
Score = 31.6 bits (70), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 36/67 (53%), Gaps = 2/67 (2%)
Query: 3 EIATGMKTLMDFPHLGGGLIVSLEVGDWDGHQKRSLLIDHGLFEVIMLPFDRHLSPQNVR 62
E+ TG+ ++ P GG +++GDW G Q +L+ + F ++ LP DR + + +R
Sbjct: 105 EMHTGVCLTVN-PARAGGAYGYVDMGDWTGGQAEYVLVPYADFNLLKLP-DRDKAMEKIR 162
Query: 63 KVVSEAD 69
+ +D
Sbjct: 163 DLTCLSD 169
>pdb|1YUB|A Chain A, Solution Structure Of An Rrna Methyltransferase (Ermam)
That Confers Macrolide-Lincosamide-Streptogramin
Antibiotic Resistance, Nmr, Minimized Average Structure
Length = 245
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 23/38 (60%), Gaps = 2/38 (5%)
Query: 50 LPFDRHLSPQNVRKVVSEADGYQPHLIAPEQGYRRLID 87
+P+ HLS Q ++KVV E+ +LI E Y+R +D
Sbjct: 101 IPY--HLSTQIIKKVVFESRASDIYLIVEEGFYKRTLD 136
>pdb|1FIU|A Chain A, Tetrameric Restriction Endonuclease Ngomiv In Complex With
Cleaved Dna
pdb|1FIU|B Chain B, Tetrameric Restriction Endonuclease Ngomiv In Complex With
Cleaved Dna
pdb|1FIU|C Chain C, Tetrameric Restriction Endonuclease Ngomiv In Complex With
Cleaved Dna
pdb|1FIU|D Chain D, Tetrameric Restriction Endonuclease Ngomiv In Complex With
Cleaved Dna
pdb|4ABT|A Chain A, Crystal Structure Of Type Iif Restriction Endonuclease
Ngomiv With Cognate Uncleaved Dna
pdb|4ABT|B Chain B, Crystal Structure Of Type Iif Restriction Endonuclease
Ngomiv With Cognate Uncleaved Dna
Length = 286
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 31/72 (43%)
Query: 52 FDRHLSPQNVRKVVSEADGYQPHLIAPEQGYRRLIDSALNYFRGPAEASVDAVHFVLKEL 111
D ++ N R VVS ADG +G L+ S R P + S +A + E
Sbjct: 17 LDGNILATNNRGVVSNADGSNTRSFNIAKGIADLLHSETVSERLPGQTSGNAFEAICSEF 76
Query: 112 VRRSIGETQELK 123
V+ + + Q ++
Sbjct: 77 VQSAFEKLQHIR 88
>pdb|1NFG|A Chain A, Structure Of D-Hydantoinase
pdb|1NFG|B Chain B, Structure Of D-Hydantoinase
pdb|1NFG|C Chain C, Structure Of D-Hydantoinase
pdb|1NFG|D Chain D, Structure Of D-Hydantoinase
Length = 457
Score = 27.7 bits (60), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 22/47 (46%)
Query: 7 GMKTLMDFPHLGGGLIVSLEVGDWDGHQKRSLLIDHGLFEVIMLPFD 53
G T++DF G ++ V WDG ID+G +++ P D
Sbjct: 84 GTTTIVDFCQQDRGHSLAEAVAKWDGMAGGKSAIDYGYHIIVLDPTD 130
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
0.319 0.134 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,079,595
Number of Sequences: 62578
Number of extensions: 310903
Number of successful extensions: 719
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 705
Number of HSP's gapped (non-prelim): 14
length of query: 286
length of database: 14,973,337
effective HSP length: 98
effective length of query: 188
effective length of database: 8,840,693
effective search space: 1662050284
effective search space used: 1662050284
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)