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GHPLHLTIPPQGLPNGDAATLQHAFPGLPPFPGVAFPAVYGQFPQALPPP
LAAVAPTQREDFLMFPGView BLAST search results and the CLUSTALW multiple alignment output from the NPS@ Server
No results from mGenThreader
Summary:
| pdb 1clg | ||||||
| Server | Chain | Rank in Server | Server Score | TITO Score | GHPLHLTIPPQGLPNGDAATLQHAFPGLPPFPGVAFPAVYGQFPQALPPPLAAVAPTQREDFLMFPG | |
| 3D-PSSM | A | 1 | 3.32e+01 | 567 | --------GPPG-PPGPPGP-----PGPPGPPGPPGP----PGPPGPPGP---PGPP---------- | |
| pdb 1k6f | ||||||
| Server | Chain | Rank in Server | Server Score | TITO Score | GHPLHLTIPPQGLPNGDAATLQHAFPGLPPFPGVAFPAVYGQFPQALP-PPLAAVAPTQREDFLMFPG | |
| 3D-PSSM | E | 2 | 3.85e+01 | -84 | -------------PPGPPGP-----PGPPGPPGPPGP----PGPPGPPGPP----------------- | |
| 3D-PSSM | B | 3 | 3.88e+01 | -198 | -------------PPGPPGP-----PGPPGPPGPPGP----PGPPGPPGPP----------------- | |
| 3D-PSSM | F | 4 | 3.96e+01 | -109 | -------------PPGPPGP-----PGPPGPPGPPGP----PGPPGPPGPP----------------- | |
| 3D-PSSM | A | 5 | 3.98e+01 | -233 | -------------PPGPPGP-----PGPPGPPGPPGP----PGPPGPPGPP----------------- | |
| 3D-PSSM | C | 6 | 3.98e+01 | -74 | -------------PPGPPGP-----PGPPGPPGPPGP----PGPPGPPGPP----------------- | |
| 3D-PSSM | D | 7 | 3.99e+01 | -74 | -------------PPGPPGP-----PGPPGPPGPPGP----PGPPGPPGPP----------------- | |
| pdb 1nay | ||||||
| Server | Chain | Rank in Server | Server Score | TITO Score | GHPLHLTIPPQGLPNGDAATLQHAFPGLPPFPGVAFPAVYGQFPQALPPPLAAVAPTQR----EDFLMFPG | |
| 3D-PSSM | A | 8 | 4.63e+01 | -2197 | --------GPPG-PPGPPGP--PGPPGPPGPPGPPGPPGSGYIPEAPRDGQAYVRKDGEWVLLSTFL---- | |
| pdb 1bkv | ||||||
| Server | Chain | Rank in Server | Server Score | TITO Score | GHPLHLTIPPQGLPNGDAATLQHAFPGLPPFPGVAFPAVYGQFPQALPPPLAAVAPTQREDFLMFPG | |
| 3D-PSSM | B | 9 | 5.08e+01 | 395 | --------PGPG-PGITGAR-GLAGPGPGPGPG---------------------------------- | This server sequence is too different from the PDB file sequence: it doesn't work |
| 3D-PSSM | C | 10 | 5.14e+01 | 72 | --------PGPG-PGITGAR-GLAGPGPGPGPG---------------------------------- | This server sequence is too different from the PDB file sequence: it doesn't work |
| 3D-PSSM | A | 15 | 5.40e+01 | no results | -----------GPGPGITGARGLAGPGPGPGPG---------------------------------- | |
| pdb 1qsu | ||||||
| Server | Chain | Rank in Server | Server Score | TITO Score | GHPLHLTIPPQGLPNGDAATLQHAFPGLPPFPGVAFPAVYGQFPQALPPPLAAVAPTQREDFLMFPG | |
| 3D-PSSM | A | 11 | 5.22e+01 | -208 | --------PGPGPGPGEKG----PGPGPGPGPG---------------------------------- | |
| 3D-PSSM | C | 12 | 5.34e+01 | -104 | -------------------------PGPGPGPGEK-----GPGPGPGPGP----------------- | This server sequence is too different from the PDB file sequence: it doesn't work |
| 3D-PSSM | B | 19 | 5.55e+01 | -435 | --------PGPGPGPGEKGP----GPGPGPGPG---------------------------------- | This server sequence is too different from the PDB file sequence: it doesn't work |
| pdb 1cgd | ||||||
| Server | Chain | Rank in Server | Server Score | TITO Score | GHPLHLTIPPQGLPNGDAATLQHAFPGLPPFPGVAFPAVYGQFPQALPPPLAAVAPTQREDFLMFPG | |
| 3D-PSSM | A | 13 | 5.34e+01 | -939 | --------PGPGPGPGPAPGP---GPG--PGPG---------------------------------- | |
| 3D-PSSM | C | 14 | 5.40e+01 | -811 | --------PGPGPGPGPAPGP---GPG--PGPG---------------------------------- | This server sequence is too different from the PDB file sequence: it doesn't work |
| 3D-PSSM | B | 17 | 5.46e+01 | -1026 | --------PGPGPGPGPAPGP---GPG--PGPG---------------------------------- | This server sequence is too different from the PDB file sequence: it doesn't work |
| pdb 1cag | ||||||
| Server | Chain | Rank in Server | Server Score | TITO Score | GHPLHLTIP-PQ-GL-PN-GD-AA-TLQHA-FP-GLPP-FP-GVAFPAVYGQFPQALPPPLAAVAPTQREDFLMFPG | |
| 3D-PSSM | B | 16 | 5.45e+01 | no results | --------PPGPPGPPGPPGPPAPPGP---PGPPG--PPGPPG---------------------------------- | (*) 10 residues has been modified in this server sequence and server sequence has been completed |
| pdb 1qbf | ||||||
| Server | Chain | Rank in Server | Server Score | TITO Score | GHPLHLTIPPQGLPNGDAATLQHAFPGLPPFPGVAFPAVYGQFPQALPPPLAA------VAPTQREDFLMFPG | |
| 3D-PSSM | A | 18 | 5.49e+01 | 180 | ------------------------YPAKPEAPGEDAS------PEELSRYYASLRHYLNLVTRQRY------- | |
| pdb 4clg | ||||||
| Server | Chain | Rank in Server | Server Score | TITO Score | GHPLHLTIPPQGLPNGDAATLQHAFP-GL-PP-FP-GV-AFP-AVY-GQ-FP-QA-LP-PPLAAVAPTQREDFLMFPG- | |
| 3D-PSSM | F | 20 | 5.68e+01 | no results | ------------------------GPPGPPGPPGPPGPPG-PPGP-PGPPGPPGPPGPPGP-----------------P | (*) 11 residues has been modified in this server sequence and server sequence has been completed |
| pdb 1eay | ||||||
| Server | Chain | Rank in Server | Server Score | TITO Score | GHPLHLTIPPQGLPNGDAATLQHAFPGLPPFPGVAFPA--VYGQFPQALPPP--LAAVAPTQREDFLMFPG | |
| FUGUE | C | 1 | 3.86 | -34524 | PRRIILS----RLKAGEVDLLEEELGHLTTLTDVVKGADSLSAILPGDIAEDDITAVLCFVIEADQITFET | |
| pdb 1jb0 | ||||||
| Server | Chain | Rank in Server | Server Score | TITO Score | ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------GHPLHLTIPPQGLPNGDAATLQHAFPGLPPFPGVAFPAVYGQFPQALPPPLAAVAPTQREDFLMFPG---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- | |
| FUGUE | A | 2 | 2.73 | -10441 | RVVVDNDPVPTSFEKWAKPGHFDRTLARGPQTTTWIWNLHALAHDFDTHTSDLEDISRKIFSAHFGHLAVVFIWLSGMYFHGAKFSNYEAWLADPTGIKPSAQVVWPIVGQGILNGDVGGGFHGIQITSGLFQLWRASGITNEFQLYCTAIGGLVMAGLMLFAGWFHYHKRAPKLEWFQNVESMLNHHLAGLLGLGSLAWAGHQIHVSLPINKLLDAGVAAKDIPLPHEFILNPSLMAELYPKVDWGFFSPFFTFNWAAYSDFLTFNGGLNPVTGGLWLSDTAHHHLAIAVLFIIAGHMYRTNWGIGHSLKEILEAHKGPFTGAGHKGLYEVLTTSWHAQLAINLAMMGSLSIIVAQHMYAMPPYPYLATDYPTQLSLFTHHMWIGGFLVVGGAAHGAIFMVRDYDPAMNQNNVLDRVLRHRDAIISHLNWVCIFLGFHSFGLYVHNDTMRAFGRPQDMFSDTGIQLQPVFAQWVQNLHTLAPGGTAPNAAATASVAFGGDVVAVGGKVAMMPIVLGTADFMVHHIHAFTIHVTVLILLKGVLFARSSRLIPDKANLGFRFPCDGPGRGGTCQVSGWDHVFLGLFWMYNCISVVIFHFSWKMQSDVWGTVAPDGTVSHITGGNFAQSAITINGWLRDFLWAQASQVIGSYGSALSAYGLLFLGAHFIWAFSLMFLFSGRGYWQELIESIVWAHNKLKVAPAIQPRALSIIQGRAVGVAHYLLGGIATTWAFFLARIISVG | |
| pdb 1kxl | ||||||
| Server | Chain | Rank in Server | Server Score | TITO Score | ------------------------------------------------------------------------------------------------------------------GHPLHLTIPPQGLPNGDAATLQHAFPGLPPFPGVAFPAVYGQFPQALPPPLAAVA-PTQREDFLMFPG------------------------ | |
| FUGUE | A | 3 | 2.55 | -3693 | KMARKDPTIEFCQLGLDTFETKYITMFGMLVSCSFDKPAFISFVFSDFTKNDIVQNYLYDRYLIDYENKLELNEGFKAIMYKNQFETFDSKLRKIFNNGLRDLQNGRDENLSQYGIVCKMNIKV-KMYNGK---LNAIVRECEPVP---------------HSQISSIASPSQCEHLRLFYQRAFKRIGESAISRYFEEYRRFFPI | |
| pdb 1mby | ||||||
| Server | Chain | Rank in Server | Server Score | TITO Score | ---------GHPLHLTIPPQGLPNGDAATLQHAFPGLPPFPGVAFPAVYGQFPQALPPPLAAVAPTQREDFLMFPG | |
| FUGUE | A | 4 | 2.52 | -10658 | SVFVKNVGWATQLTSGAVWVQFNDGSQLVMQAGVSSISYTSPDGQTTRYGE-NEKLPEYIKQKLQLLSSILLMFSN | |
| pdb 1d9k | ||||||
| Server | Chain | Rank in Server | Server Score | TITO Score | GHPLHLTIPPQGLPNGDAATLQHAFPGLPPFPGVAFPAVYGQFPQALPPPLAAVAPTQREDFLMFPG | |
| FUGUE | P | 5 | 2.47 | no results | GNSHRGAIEWEGIESG--------------------------------------------------- | |
| pdb 1ov9 | ||||||
| Server | Chain | Rank in Server | Server Score | TITO Score | GHPLHLTIPPQGLPNGDAATLQHAFPGLPPFPGVAFPAVYGQFPQALPPPLAAVAPTQREDFLMFPG | |
| FUGUE | A | 6 | 2.28 | -7460 | -------------------EITKTLLNIRSLRAYARELTIEQLEEALDKLTTVVQERKEAEAEE--- | |
| pdb 1bh1 | ||||||
| Server | Chain | Rank in Server | Server Score | TITO Score | GHPLHLTIPPQGLPNGDAATLQHAFPGLPPFPGVAFPAVYGQFPQALPPPLAAVAPTQREDFLMFPG | |
| FUGUE | - | 7 | 2.23 | -2577 | ----------------------------------GIGAVLKVLTTGLPALISWIKRKRQQ------- | |
| pdb 1kjk | ||||||
| Server | Chain | Rank in Server | Server Score | TITO Score | GHPLHLTIPPQGLPNGDAATLQHAFPGLPPFPGVAFPAVYGQFPQALPPPLAAVAPTQREDFLMFPG- | |
| FUGUE | A | 8 | 2.12 | -10854 | DLPPNLYIRNNGY-----------YCYRDPRTGKEFGL--------GRDRRIAITEAIQANIELFSGH | |
| pdb 1j8r | ||||||
| Server | Chain | Rank in Server | Server Score | TITO Score | ------------------------------------------------------------------------------------------------------------------------------------GHPLHLTIPPQGLPNGDAATLQHAFPGLPPFPG-VAFPAVYGQFPQALPPPLAAVAPTQRE-DFLMFPG-- | |
| FUGUE | A | 9 | 1.98 | -13183 | WNNIVFYSLGDVNSYQGGNVVITQRPQFITSWRPGIATVTWNQCNGPEFADGFWAYYREYIAWVVFPKKVMTQNGYPLFIEVHNKGSWSEENTGDNDSYFFLKGYKWDERAFDAGNLCQKPGEITRLTEKFDDIIFKVALPA-DLPLGDYSVK------IPYTSGMQRHFASYLGARFKIPYNVAKTLPRENEMLFLFKNIGG | (*) 3 residues has been modified in this server sequence and server sequence has been completed |
| pdb 1tht | ||||||
| Server | Chain | Rank in Server | Server Score | TITO Score | ------------------------------------------------------------------------------------------------------------------------------------------------------------------GHPLHLTIPPQGLPNGDAATLQHAFPGLPPFPGVAFPAVYGQF-PQALPPPLAAVAPTQREDFLMFPG------------------------------------------------------------------- | |
| FUGUE | A | 10 | 1.97 | -5474 | QCKTIAHVLRVNNGQELHVWETPPKENVPFKNNTILIASGFARRMDHFAGLAEYLSTNGFHVFRYDSLHHVEFTMTTGKNSLCTVYHWLQTKGTQNIGLIAASLSARVAYEVISDLELSFLITAVGVVNLRDTLEKALGFDYLSLPIDELPNDLDFEGHKLGSEVFVRDCFEHHWDTLDSTLDKVANTSV---PLIAFTANNDDWVKQEEVYDMLAHIRTGHCKLYSLLGSSHDLGENLVVLRNFYQSVTKAAIAMDGGSLEIDVDFIEPDFEQLTIATVNERRLKAEIENRTPEMA | |
| Top 10 i.d. | |||||||||
| 1cgd = 45% | 1cag = 45% | 1qsu = 45% | 1bkv = 43% | 4clg = 42% | 1k6f = 41% | 1clg = 39% | 1nay = 30% | 1j8r = 25.00% | 1d9k = 25.00% |
| Best TITO scores of the Top 10 PDB templates | |||||||||
| 1eay = -34524 | 1j8r = -13183 | 1kjk = -10854 | 1mby = -10658 | 1jb0 = -10441 | 1ov9 = -7460 | 1tht = -5474 | 1kxl = -3693 | 1bh1 = -2577 | 1nay = -2197 |
| Top 5 3D-PSSM Hits | ||||
| 1clg = 1 | 1k6f = 2 | 1nay = 8 | 1bkv = 9 | 1qsu = 11 |
| Top 5 FUGUE Hits | ||||
| 1eay = 1 | 1jb0 = 2 | 1kxl = 3 | 1mby = 4 | 1d9k = 5 |
THREADING:
TITO_PDB_score is the PKB energy from TITO. The lower the TITO score, the better the query/template compatibility. The template comes from the PDB experimental structure database.
TITO_multi-align_score is the PKB energy from TITO (with multiple alignment (- homolog sequences)). The lower the TITO score, the better the query/template compatibility. The template comes from the PDB experimental structure database.
TITO_MSD_score is the PKB energy from TITO. The lower the TITO score, the better the query/template compatibility. The template comes from the MSD experimental structure database.
MODELLING:
The lower the SCWRL energy, the better the 3D model (Blue score). SCWRL 2.8 constructs a model for the common core (only the superimposed part of the alignment (insertion/deletion are excluded)).
The lower the MODELLER energy, the better the 3D model (Blue score)
3D EVALUATION:
The lower the PROSAII score, the better the 3D model (Red score)
The higher the VERIFY3D score, the better the 3D model (This green color for the monomer score and this green color for global multimer score)
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