YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|197750720, gi...
Organism:	Vibrio cholerae AM-19226
Length:	290 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for gi|197750720, gi....

Description	E-value	Query Range	Subject Range
gi\|90414246, gi\|... - gi\|90414246\|ref\|ZP_01222226.1\| diaminopimelate epimerase [Photobacterium profundum 3TCK], gi\|9032469...	345.0	[0..15]	[288..1]
DAPF_PHOPR - Diaminopimelate epimerase OS=Photobacterium profundum GN=dapF PE=1 SV=1 DAPF_PHOPR - Diaminopimelate epimerase OS=Photobacterium profundum (strain SS9) GN=dapF PE=1 SV=1	345.0	[0..15]	[288..1]
DAPF_VIBCH - Diaminopimelate epimerase OS=Vibrio cholerae GN=dapF PE=3 SV=2 gi\|153830024, gi... - gi\|153830024\|ref\|ZP_01982691.1\| diaminopimelate epimerase [Vibrio cholerae 623-39], gi\|148874509\|gb\|... DAPF_VIBC3 - Diaminopimelate epimerase OS=Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / ... gi\|121587735, gi... - gi\|121587735\|ref\|ZP_01677496.1\| diaminopimelate epimerase [Vibrio cholerae 2740-80], gi\|121548034\|gb... gi\|124115094, gi... - gi\|153214851\|ref\|ZP_01949659.1\| diaminopimelate epimerase [Vibrio cholerae 1587], gi\|124115094\|gb\|EA... gi\|229354032, gi... - gi\|229508915\|ref\|ZP_04398405.1\| diaminopimelate epimerase [Vibrio cholerae B33], gi\|229354032\|gb\|EEO... gi\|121629442, gi... - gi\|121728312\|ref\|ZP_01681343.1\| diaminopimelate epimerase [Vibrio cholerae V52], gi\|121629442\|gb\|EAX... gi\|229354677, gi... - gi\|229508404\|ref\|ZP_04397908.1\| diaminopimelate epimerase [Vibrio cholerae BX 330286], gi\|229354677\|... gi\|153803077, gi... - gi\|153803077\|ref\|ZP_01957663.1\| diaminopimelate epimerase [Vibrio cholerae MZO-3], gi\|124121396\|gb\|E... gi\|229346092, gi... - gi\|229517029\|ref\|ZP_04406475.1\| diaminopimelate epimerase [Vibrio cholerae RC9], gi\|229346092\|gb\|EEO... gi\|153223870, gi... - gi\|153223870\|ref\|ZP_01954107.1\| diaminopimelate epimerase [Vibrio cholerae MAK 757], gi\|124117981\|gb... gi\|229515839, gi... - gi\|229515839\|ref\|ZP_04405297.1\| diaminopimelate epimerase [Vibrio cholerae TMA 21], gi\|229347102\|gb\|... gi\|229606677, gi... - gi\|229606677\|ref\|YP_002877325.1\| diaminopimelate epimerase [Vibrio cholerae MJ-1236], gi\|229369332\|g... gi\|126510499, gi... - gi\|153818937\|ref\|ZP_01971604.1\| diaminopimelate epimerase [Vibrio cholerae NCTC 8457], gi\|126510499\|... gi\|229520082, gi... - gi\|229520082\|ref\|ZP_04409510.1\| diaminopimelate epimerase [Vibrio cholerae TM 11079-80], gi\|22934287... DAPF_VIBCH - Diaminopimelate epimerase OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961) G...	342.0	[0..15]	[290..1]
gi\|89074450, gi\|... - gi\|89074450\|ref\|ZP_01160927.1\| diaminopimelate epimerase [Photobacterium sp. SKA34], gi\|89049738\|gb\|...	338.0	[0..15]	[288..1]
gi\|88792841, gi\|... - gi\|88792841\|ref\|ZP_01108559.1\| diaminopimelate epimerase [Alteromonas macleodii 'Deep ecotype'], gi\|...	336.0	[0..15]	[289..1]
gi\|114547554, gi... - gi\|114771969\|ref\|ZP_01449358.1\| diaminopimelate epimerase [alpha proteobacterium HTCC2255], gi\|11454... gi\|114771969 - gi\|114771969\|ref\|ZP_01449358.1\| diaminopimelate epimerase [alpha proteobacterium HTCC2255] gi\|221134093 - gi\|221134093\|ref\|ZP_03560398.1\| diaminopimelate epimerase [Glaciecola sp. HTCC2999]	336.0	[0..15]	[288..1]
DAPF_SHESW - Diaminopimelate epimerase OS=Shewanella sp. (strain W3-18-1) GN=dapF PE=1 SV=1 DAPF_SHEPC - Diaminopimelate epimerase OS=Shewanella putrefaciens (strain CN-32 / ATCC BAA-453) GN=dapF PE=1 SV=1 gi\|124510108, gi... - gi\|124546381\|ref\|ZP_01705477.1\| diaminopimelate epimerase [Shewanella putrefaciens 200], gi\|12451010...	332.0	[0..17]	[288..2]
gi\|75828037 - gi\|75828037\|ref\|ZP_00757472.1\| COG0253: Diaminopimelate epimerase [Vibrio cholerae O395] gi\|75829585, gi\|... - gi\|75829585\|ref\|ZP_00758883.1\| COG0253: Diaminopimelate epimerase [Vibrio cholerae MO10], gi\|1161882... gi\|75815345 - gi\|75815345\|ref\|ZP_00745859.1\| COG0253: Diaminopimelate epimerase [Vibrio cholerae V52]	331.0	[0..22]	[290..1]
gi\|88861275, gi\|... - gi\|88861275\|ref\|ZP_01135907.1\| diaminopimelate epimerase [Pseudoalteromonas tunicata D2], gi\|8881675...	331.0	[0..15]	[289..1]
DAPF_VIBVY - Diaminopimelate epimerase OS=Vibrio vulnificus (strain YJ016) GN=dapF PE=1 SV=1 DAPF_VIBVU - Diaminopimelate epimerase OS=Vibrio vulnificus GN=dapF PE=3 SV=2 DAPF_VIBVU - Diaminopimelate epimerase OS=Vibrio vulnificus (strain CMCP6) GN=dapF PE=1 SV=2	331.0	[0..15]	[290..1]

Back

Predicted Domain #1

Region A:
Residues: [1-290]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MGVRIGITGV KLSSMHFHFS KMHGLGNDFM VVDCITQNVF FSPELIRRLA DRHTGVGFDQ  60
   61 LLVVEAPYDP ESDFHYRIFN ADGSEVEQCG NGARCFARFV RMKGLTNKYT IHVSTKKGKM 120
  121 VLNVEEEDLI TVNMGVPEFE PNKIPFRAKQ SEKTYILRVG EHTLFCGAVS MGNPHVVTVV 180
  181 DDIRTAAVET LGPLLESHER FPERVNAGFM QVVSRDEINL RVYERGAGET QACGSGACAA 240
  241 VAVGILQGLL DEQVRVHLPG GELEIHWQGP GKPLYMTGPA THIYDGQISC

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	89.045757
Match:	1gqzA
Description:	Diaminopimelate epimerase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
diaminopimelate epimerase activity	4.22926504608084	bayes_pls_golite062009
amino-acid racemase activity	3.36270508746492	bayes_pls_golite062009
racemase and epimerase activity, acting on amino acids and derivatives	3.23874676534548	bayes_pls_golite062009
catalytic activity	1.37892559560737	bayes_pls_golite062009
racemase and epimerase activity	0.0469151339756061	bayes_pls_golite062009
isomerase activity	0.0304048110491	bayes_pls_golite062009

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: