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= 013117
(449 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4A8J|A Chain A, Crystal Structure Of The Elongator Subcomplex Elp456
pdb|4A8J|D Chain D, Crystal Structure Of The Elongator Subcomplex Elp456
Length = 361
Score = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 54/174 (31%), Positives = 78/174 (44%), Gaps = 45/174 (25%)
Query: 111 GVKCGPNGTM-FVSSGIADLDKILG-GGFPLGSLVMVMEDAEAPHHMLLLRNFMSQGLVH 168
GV+ P + S+G ADLD ILG G PLG+ V+V E + H +L + F +QG+VH
Sbjct: 9 GVRPSPATSQPTTSTGSADLDSILGHXGLPLGNSVLVEEQSTTEFHSILGKLFAAQGIVH 68
Query: 169 GQPLLYASPSKDPRG------------FLGTLPS--PASLKHDKSRDRESEQE------- 207
+ + +S K G F LP S K K ++ SE+E
Sbjct: 69 NR-ISDSSADKTRNGDTHVIVLSLNQXFAKELPGIYKGSRKQXK-KNLISEEESKVTVQN 126
Query: 208 ------------KGLRIAWQYK----KYMGENQPNFDSHRDNKQ--DYCNEFDF 243
K L+IAW+YK K +G P+ D + N + DY ++FD
Sbjct: 127 LNETQRSTPSRYKDLKIAWKYKLADEKRLG--SPDRDDIQQNSEYKDYNHQFDI 178
>pdb|4EJS|A Chain A, Structure Of Yeast Elongator Subcomplex Elp456
Length = 376
Score = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 74/279 (26%), Positives = 115/279 (41%), Gaps = 63/279 (22%)
Query: 102 SAVSSSQTPGVKCGPNGTM-FVSSGIADLDKILGG-GFPLGSLVMVMEDAEAPHHMLLLR 159
S + SS GV+ P + S+G ADLD ILG G PLG+ V+V E + H +L +
Sbjct: 4 SGLDSSHV-GVRPSPATSQPTTSTGSADLDSILGHMGLPLGNSVLVEEQSTTEFHSILGK 62
Query: 160 NFMSQGLVHGQPLLYASPSKDPRG------------FLGTLP-----SPASLKHDKSRDR 202
F +QG+VH + + +S K G F LP S +K + +
Sbjct: 63 LFAAQGIVHNR-ISDSSADKTRNGDTHVIVLSLNQMFAKELPGIYKGSRKQMKKNLISEE 121
Query: 203 ESE---------------QEKGLRIAWQYK----KYMGENQPNFDSHRDNKQ--DYCNEF 241
ES+ + K L+IAW+YK K +G P+ D + N + DY ++F
Sbjct: 122 ESKVTVQNLNETQRSTPSRYKDLKIAWKYKLADEKRLG--SPDRDDIQQNSEYKDYNHQF 179
Query: 242 DFRKPLERHYFTRQRVNCVGIQHSKNLAALQEHCASFLAQHQ----RNDGSSALAGRIAI 297
D R+ I A + ++ L+Q + RND RI I
Sbjct: 180 DITT----------RLMPAPIASELTFIAPTQPVSTILSQIEQTIKRNDKKLI---RIVI 226
Query: 298 QSLCAPQCEHSNM--DWEMLSFIKSLKGMVRSSNAVVVI 334
SL P M E++ + ++ +V+ VV+
Sbjct: 227 PSLLHPAMYPPKMFESSEIIGLMHGVRSLVKKYYERVVL 265
>pdb|2W0M|A Chain A, Crystal Structure Of Sso2452 From Sulfolobus Solfataricus
P2
Length = 235
Score = 37.7 bits (86), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 27/115 (23%), Positives = 51/115 (44%), Gaps = 22/115 (19%)
Query: 122 VSSGIADLDKILGGGFPLGSLVMVMEDAEAPHHMLLLRNFMSQGLVHGQPLLYASPSKDP 181
+S+GI D DK++ GG P G + + + + L +F+++GL G P +Y +
Sbjct: 5 LSTGILDFDKLIQGGIPQGFFIALTGEPGTGKTIFSL-HFIAKGLRDGDPCIYVTT---- 59
Query: 182 RGFLGTLPSPASLKHDKSRDRESEQEKGLRIAWQYKKYMGENQPNFDSHRDNKQD 236
++SRD Q K + W +++Y+ + D+ K+D
Sbjct: 60 ---------------EESRDSIIRQAK--QFNWDFEEYIEKKLIIIDALMKEKED 97
>pdb|2DR3|A Chain A, Crystal Structure Of Reca Superfamily Atpase Ph0284 From
Pyrococcus Horikoshii Ot3
pdb|2DR3|B Chain B, Crystal Structure Of Reca Superfamily Atpase Ph0284 From
Pyrococcus Horikoshii Ot3
pdb|2DR3|C Chain C, Crystal Structure Of Reca Superfamily Atpase Ph0284 From
Pyrococcus Horikoshii Ot3
pdb|2DR3|D Chain D, Crystal Structure Of Reca Superfamily Atpase Ph0284 From
Pyrococcus Horikoshii Ot3
pdb|2DR3|E Chain E, Crystal Structure Of Reca Superfamily Atpase Ph0284 From
Pyrococcus Horikoshii Ot3
pdb|2DR3|F Chain F, Crystal Structure Of Reca Superfamily Atpase Ph0284 From
Pyrococcus Horikoshii Ot3
Length = 247
Score = 31.6 bits (70), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 32/63 (50%), Gaps = 1/63 (1%)
Query: 119 TMFVSSGIADLDKILGGGFPLGSLVMVMEDAEAPHHMLLLRNFMSQGLVHGQPLLYASPS 178
T V +GI +D+IL GG P ++V+ + + + F+ GL G+P +Y +
Sbjct: 2 TRRVKTGIPGVDEILHGGIPERNVVL-LSGGPGTGKTIFSQQFLWNGLKMGEPGIYVALE 60
Query: 179 KDP 181
+ P
Sbjct: 61 EHP 63
>pdb|2EPJ|A Chain A, Crystal Structure Of Glutamate-1-Semialdehyde
2,1-Aminomutase From Aeropyrum Pernix
pdb|2ZSL|A Chain A, Crystal Structure Of Glutamate-1-Semialdehyde 2,1-
Aminomutase From Aeropyrum Pernix
pdb|2ZSM|A Chain A, Crystal Structure Of Glutamate-1-semialdehyde 2,1-
Aminomutase From Aeropyrum Pernix, Hexagonal Form
pdb|2ZSM|B Chain B, Crystal Structure Of Glutamate-1-semialdehyde 2,1-
Aminomutase From Aeropyrum Pernix, Hexagonal Form
pdb|2ZSM|C Chain C, Crystal Structure Of Glutamate-1-semialdehyde 2,1-
Aminomutase From Aeropyrum Pernix, Hexagonal Form
Length = 434
Score = 28.9 bits (63), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 115 GPNGTMFVSSGIADLDKILGGGFPLGSL 142
G G + I L KI+GGGFP+G++
Sbjct: 255 GAQGYFNIEGDIIVLGKIIGGGFPVGAV 282
>pdb|2I0O|A Chain A, Crystal Structure Of Anopheles Gambiae SerTHR PHOSPHATASE
COMPLEXED With Zn2+
Length = 304
Score = 28.9 bits (63), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 22/38 (57%), Gaps = 3/38 (7%)
Query: 252 FTRQRVNCVGIQHSKNLAALQEHCASFLAQHQRNDGSS 289
F ++R+N G++ SK L +HC LA H R DG+
Sbjct: 258 FVQERINKPGMKLSKICEELFDHC---LAPHTRGDGTG 292
>pdb|2CVF|A Chain A, Crystal Structure Of The Radb Recombinase
pdb|2CVF|B Chain B, Crystal Structure Of The Radb Recombinase
pdb|2CVH|A Chain A, Crystal Structure Of The Radb Recombinase
pdb|2CVH|B Chain B, Crystal Structure Of The Radb Recombinase
Length = 220
Score = 28.1 bits (61), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 26/54 (48%), Gaps = 4/54 (7%)
Query: 122 VSSGIADLDKILGGGFPLGSLVMVMEDAEAPHHMLLLRNFMSQGLVHGQPLLYA 175
+S+G LD +LGGGF G L V + L L+ GL+ G+ + Y
Sbjct: 2 LSTGTKSLDSLLGGGFAPGVLTQVYGPYASGKTTLALQT----GLLSGKKVAYV 51
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
0.320 0.133 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,921,800
Number of Sequences: 62578
Number of extensions: 448882
Number of successful extensions: 818
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 811
Number of HSP's gapped (non-prelim): 14
length of query: 449
length of database: 14,973,337
effective HSP length: 102
effective length of query: 347
effective length of database: 8,590,381
effective search space: 2980862207
effective search space used: 2980862207
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: 53 (25.0 bits)