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= 041698
(355 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4GBY|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
Proton:xylose Symporter Xyle Bound To D-Xylose
pdb|4GBZ|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
Proton:xylose Symporter Xyle Bound To D-Glucose
pdb|4GC0|A Chain A, The Structure Of The Mfs (Major Facilitator Superfamily)
Proton:xylose Symporter Xyle Bound To
6-Bromo-6-Deoxy-D-Glucose
Length = 491
Score = 124 bits (311), Expect = 8e-29, Method: Compositional matrix adjust.
Identities = 70/223 (31%), Positives = 124/223 (55%), Gaps = 21/223 (9%)
Query: 137 IVGRLLLGFGIGFANQSVPLYLSEMAPYRFRGALNIGFQLSITVGILIANVLNYFFNKI- 195
++ R++ G G+G A+ P+Y++E+AP RG L Q +I G L+ +NYF +
Sbjct: 130 VIYRIIGGIGVGLASMLSPMYIAELAPAHIRGKLVSFNQFAIIFGQLLVYCVNYFIARSG 189
Query: 196 HGGW----GWRLSLGGAMVPALIITVGSMILPDTPNSIIERGRHEEAREELRKVRGVNDV 251
W GWR +PAL+ + +P++P ++ RG+ E+A LRK+ G
Sbjct: 190 DASWLNTDGWRYMFASECIPALLFLMLLYTVPESPRWLMSRGKQEQAEGILRKIMG---- 245
Query: 252 EEEFNDLVAASEASRQVEHPWKNLLQKKYRPHL------TMAVLIPFFQQFTGINVIMFY 305
N L A++A ++++H + + R + + V++ FQQF GINV+++Y
Sbjct: 246 ----NTL--ATQAVQEIKHSLDHGRKTGGRLLMFGVGVIVIGVMLSIFQQFVGINVVLYY 299
Query: 306 APVLFNTIGFGSDASLMSAVITGIVNVVATMVSIYGVDKWGRR 348
AP +F T+G +D +L+ +I G++N+ T+++I VDK+GR+
Sbjct: 300 APEVFKTLGASTDIALLQTIIVGVINLTFTVLAIMTVDKFGRK 342
>pdb|1OXS|C Chain C, Crystal Structure Of Glcv, The Abc-Atpase Of The Glucose
Abc Transporter From Sulfolobus Solfataricus
pdb|1OXT|A Chain A, Crystal Structure Of Glcv, The Abc-Atpase Of The Glucose
Abc Transporter From Sulfolobus Solfataricus
pdb|1OXT|B Chain B, Crystal Structure Of Glcv, The Abc-Atpase Of The Glucose
Abc Transporter From Sulfolobus Solfataricus
pdb|1OXT|D Chain D, Crystal Structure Of Glcv, The Abc-Atpase Of The Glucose
Abc Transporter From Sulfolobus Solfataricus
pdb|1OXU|A Chain A, Crystal Structure Of Glcv, The Abc-Atpase Of The Glucose
Abc Transporter From Sulfolobus Solfataricus
pdb|1OXU|B Chain B, Crystal Structure Of Glcv, The Abc-Atpase Of The Glucose
Abc Transporter From Sulfolobus Solfataricus
pdb|1OXU|C Chain C, Crystal Structure Of Glcv, The Abc-Atpase Of The Glucose
Abc Transporter From Sulfolobus Solfataricus
pdb|1OXV|A Chain A, Crystal Structure Of Glcv, The Abc-atpase Of The Glucose
Abc Transporter From Sulfolobus Solfataricus
pdb|1OXV|B Chain B, Crystal Structure Of Glcv, The Abc-atpase Of The Glucose
Abc Transporter From Sulfolobus Solfataricus
pdb|1OXV|D Chain D, Crystal Structure Of Glcv, The Abc-atpase Of The Glucose
Abc Transporter From Sulfolobus Solfataricus
Length = 353
Score = 31.6 bits (70), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 25/99 (25%), Positives = 47/99 (47%), Gaps = 10/99 (10%)
Query: 148 GFANQSVPLYLSEMAPYRFRGALNIGFQLSITVGILIANVLNYFFNKIHGGWGWRLSLGG 207
F N + PL +M+ R + + + I +VLN+F ++ GG R++L
Sbjct: 99 AFENIAFPLTNMKMSKEEIRKRVE-----EVAKILDIHHVLNHFPRELSGGQQQRVALAR 153
Query: 208 AMVPALIITVGSMILPDTPNSIIERGRHEEAREELRKVR 246
A+V S++L D P S ++ + AR +++V+
Sbjct: 154 ALVKD-----PSLLLLDEPFSNLDARMRDSARALVKEVQ 187
>pdb|2A48|A Chain A, Crystal Structure Of Amfp486 E150q
Length = 238
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 28/60 (46%), Gaps = 10/60 (16%)
Query: 9 KGNGKEYPGNLTPYVLVTCIVAAMGGLIFGYDI--------GISGGVTSMPSFLKKFFPS 60
+GNGK Y G T VT +A G L F +DI + TSMP + K+ FP
Sbjct: 43 EGNGKPYEGTQTSTFKVT--MANGGPLAFSFDILSTVFXNRCFTAYPTSMPDYFKQAFPD 100
>pdb|2A46|A Chain A, Crystal Structures Of Amfp486, A Cyan Fluorescent Protein
From Anemonia Majano, And Variants
Length = 238
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 28/60 (46%), Gaps = 10/60 (16%)
Query: 9 KGNGKEYPGNLTPYVLVTCIVAAMGGLIFGYDI--------GISGGVTSMPSFLKKFFPS 60
+GNGK Y G T VT +A G L F +DI + TSMP + K+ FP
Sbjct: 43 EGNGKPYEGTQTSTFKVT--MANGGPLAFSFDILSTVFXNRCFTAYPTSMPDYFKQAFPD 100
>pdb|2A47|A Chain A, Crystal Structure Of Amfp486 H199t
Length = 238
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 28/60 (46%), Gaps = 10/60 (16%)
Query: 9 KGNGKEYPGNLTPYVLVTCIVAAMGGLIFGYDI--------GISGGVTSMPSFLKKFFPS 60
+GNGK Y G T VT +A G L F +DI + TSMP + K+ FP
Sbjct: 43 EGNGKPYEGTQTSTFKVT--MANGGPLAFSFDILSTVFXNRCFTAYPTSMPDYFKQAFPD 100
>pdb|1ECL|A Chain A, Amino Terminal 67kda Domain Of Escherichia Coli Dna
Topoisomerase I (Residues 2-590 Of Mature Protein)
Cloning Artifact Adds Two Residues To The Amino-Terminus
Which Were Not Observed In The Experimental Electron
Density (Gly-2, Ser-1)
Length = 597
Score = 28.9 bits (63), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 218 GSMILPDTPNSIIERGRHEEAREELRKVRGVNDVEEEFNDLVAASE 263
G LP++PN +G +EA E +R VN + E D+ A ++
Sbjct: 344 GKKYLPESPNQYASKGNSQEAHEAIRPS-DVNVMAESLKDMEADAQ 388
>pdb|1MW8|X Chain X, Crystal Structure Of A Complex Between H365r Mutant Of 67
Kda N-Terminal Fragment Of E. Coli Dna Topoisomerase I
And 5'-Acttcgggatg-3'
pdb|1MW9|X Chain X, Crystal Structure Of H365r Mutant Of 67 Kda N-Terminal
Fragment Of E. Coli Dna Topoisomerase I
Length = 592
Score = 28.5 bits (62), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 218 GSMILPDTPNSIIERGRHEEAREELRKVRGVNDVEEEFNDLVAASE 263
G LP++PN + +EARE +R VN + E D+ A ++
Sbjct: 344 GKKYLPESPNQYASKENSQEAREAIRPS-DVNVMAESLKDMEADAQ 388
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
0.325 0.142 0.431
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,268,257
Number of Sequences: 62578
Number of extensions: 349889
Number of successful extensions: 933
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 925
Number of HSP's gapped (non-prelim): 13
length of query: 355
length of database: 14,973,337
effective HSP length: 100
effective length of query: 255
effective length of database: 8,715,537
effective search space: 2222461935
effective search space used: 2222461935
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 52 (24.6 bits)