YRC Public Data Repository - Protein Structure Prediction

Protein:	NCBP1_ARATH
Organism:	Arabidopsis thaliana
Length:	848 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 NCBP1_ARATH.

Description	E-value	Query Range	Subject Range
gi\|23308493, gi\|... - gi\|23308493\|gb\|AAN18216.1\| At2g13540/T10F5.8 [Arabidopsis thaliana], gi\|17473509\|gb\|AAL38378.1\| At2g...	1232.0	[0..1]	[848..1]
NCBP1_ORYSJ - Nuclear cap-binding protein subunit 1 OS=Oryza sativa subsp. japonica GN=ABH1 PE=2 SV=1	1081.0	[0..2]	[846..3]
gi\|87240697 - gi\|87240697\|gb\|ABD32555.1\| Initiation factor eIF-4 gamma, middle [Medicago truncatula]	937.0	[0..1]	[848..1]
Cbp80-PA, Cbp80-PB - The gene cap binding protein 80 is referred to in FlyBase by the symbol Dmel\Cbp80 (CG7035, FBgn0022... gi\|220947496 - gi\|220947496\|gb\|ACL86291.1\| Cbp80-PA [synthetic construct]	880.0	[0..5]	[760..35]
gi\|158302409, gi... - gi\|58396536\|ref\|XP_321964.2\| ENSANGP00000013874 [Anopheles gambiae str. PEST], gi\|55234148\|gb\|EAA018... NCBP1_ANOGA - Nuclear cap-binding protein subunit 1 OS=Anopheles gambiae GN=Cbp80 PE=3 SV=4	871.0	[0..5]	[760..35]
gi\|114625872 - gi\|114625872\|ref\|XP_520138.2\| PREDICTED: nuclear cap binding protein subunit 1, 80kDa [Pan troglodyt...	866.0	[0..5]	[756..153]
NCBP1_DROPE - Nuclear cap-binding protein subunit 1 OS=Drosophila persimilis GN=Cbp80 PE=3 SV=1 NCBP1_DROPS - Nuclear cap-binding protein subunit 1 OS=Drosophila pseudoobscura pseudoobscura GN=Cbp80 PE=3 SV=1 gi\|54643484, gi\|... - gi\|54643484\|gb\|EAL32228.1\| GA20048 [Drosophila pseudoobscura pseudoobscura], gi\|125982811\|ref\|XP_001...	864.0	[0..5]	[760..35]
gi\|62088046 - gi\|62088046\|dbj\|BAD92470.1\| nuclear cap binding protein subunit 1, 80kDa variant [Homo sapiens]	856.0	[0..5]	[756..45]

Back

Predicted Domain #1

Region A:
Residues: [1-756]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSNWKTLLLR IGEKGPEYGT SSDYKDHIET CFGVIRREIE RSGDQVLPFL LQCAEQLPHK  60
   61 IPLYGTLIGL LNLENEDFVQ KLVESVHANF QVALDSGNCN SIRILLRFMT SLLCSKVIQP 120
  121 ASLIVVFETL LSSAATTVDE EKGNPSWQPQ ADFYVICILS SLPWGGSELA EQVPDEIERV 180
  181 LVGIQAYLSI RKNSSTSGLN FFHNGEFESS LAEKDFVEDL LDRIQSLASN GWKLESVPRP 240
  241 HLSFEAQLVA GKFHELRPIK CMEQPSPPSD HSRAYSGKQK HDALTRYPQR IRRLNIFPAN 300
  301 KMEDVQPIDR FVVEEYLLDV LFYLNGCRKE CASYMANLPV TFRYEYLMAE TLFSQILLLP 360
  361 QPPFKTLYYT LVIMDLCKAL PGAFPAVVAG AVRALFEKIS DLDMESRTRL ILWFSHHLSN 420
  421 FQFIWPWEEW AFVLDLPKWA PKRVFVQEIL QREVRLSYWD KIKQSIENAT ALEELLPPKA 480
  481 GPNFMYSLEE GKEKTEEQQL SAELSRKVKE KQTARDMIVW IEETIYPVHG FEVTLTIVVQ 540
  541 TLLDIGSKSF THLVTVLERY GQVFSKLCPD NDKQVMLLSQ VSTYWKNNVQ MTAVAIDRMM 600
  601 GYRLVSNQAI VRWVFSPENV DQFHVSDQPW EILGNALNKT YNRISDLRKD ISNITKNVLV 660
  661 AEKASANARV ELEAAESKLS LVEGEPVLGE NPAKMKRLKS TVEKTGEAEL SLRESLEAKE 720
  721 ALLNRALSET EVLLLLLFQS FLGVLKERLP DPTKVR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1000.0
Match:	1n52A
Description:	CBP80, 80KDa nuclear cap-binding protein
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [757-848]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 SVQDLKSIGA EDDKPSAMDV DSENGNPKKS CEVGEREQWC LSTLGYLTAF TRQYASEIWP  60
   61 HMEKLESEVF SGEDVHPLFL QAISSALQFP LH

[Run NCBI BLAST on this sequence.]

Detection Method:

deduced

Shown below is our most confident de novo (Rosetta) prediction for this domain.
Click here to view all matches.

		MCM Score	SCOP Match	SCOP Description
View	Download	0.904	a.80.1	DNA polymerase III clamp loader subunits, C-terminal domain

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