The following information has been received by the server: ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ ________________________________________________________________________________ b.rost EMBL, 69012 Heidelberg, Europe rost@embl-heidelberg.de prediction-based threading # COL format --- PHD PREDICTION COLUMN FORMAT No AA PSEC RI_S pH pE pL PACC PREL RI_A Pbie 1 K L 9 0 3 96 166 81 9 e 2 G L 9 0 7 93 68 81 4 e 3 P L 2 0 42 60 66 49 4 e 4 A E 7 1 81 19 0 0 3 b 5 V E 6 0 80 21 0 0 6 b 6 G E 7 1 82 19 0 0 8 b 7 I E 8 1 87 16 0 0 7 b 8 D E 6 1 80 25 0 0 0 b 9 L L 1 2 47 54 0 0 4 b 10 G L 7 1 17 82 0 0 3 b 11 T L 3 3 37 59 0 0 2 b 12 T L 1 5 43 48 0 0 2 b 13 Y E 4 10 63 27 8 4 0 b 14 S E 8 6 85 8 0 0 6 b 15 C E 9 3 94 4 0 0 6 b 16 V E 9 3 94 4 0 0 7 b 17 G E 9 2 91 7 0 0 5 b 18 V E 8 2 88 11 0 0 7 b 19 F E 8 3 86 13 0 0 1 b 20 Q E 4 2 68 33 97 49 5 e 21 H L 7 0 15 83 149 81 6 e 22 G L 8 0 13 88 41 49 3 e 23 K L 4 0 35 69 73 36 2 e 24 V E 8 1 88 10 0 0 1 b 25 E E 9 1 96 3 69 36 2 e 26 I E 9 0 96 3 0 0 7 b 27 I E 9 1 95 3 0 0 6 b 28 A E 9 2 91 5 0 0 3 b 29 N E 4 1 63 29 56 36 0 e 30 D L 8 0 12 83 79 49 3 e 31 Q L 9 0 5 93 97 49 5 e 32 G L 9 0 7 90 68 81 4 e 33 N L 8 1 11 87 76 49 4 e 34 R L 8 2 11 86 121 49 4 e 35 T L 5 3 27 68 51 36 0 e 36 T L 3 1 38 63 0 0 1 b 37 P L 3 1 37 64 34 25 1 i 38 S L 2 2 42 58 63 49 2 e 39 Y E 2 1 57 45 55 25 1 i 40 V L 7 0 17 86 0 0 2 b ________________________________________________________________________________
The resulting prediction is:
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1 27.87 38 8 3 1.26 21 1259 3aah HANOL DEHYDROGENASE (E.C.
2 27.87 38 8 3 1.26 21 1259 3aah HANOL DEHYDROGENASE (E.C.
3 27.17 40 5 2 1.14 17 1259 3aah HANOL DEHYDROGENASE (E.C.
4 27.17 40 5 2 1.14 17 1259 3aah HANOL DEHYDROGENASE (E.C.
5 25.12 40 1 1 0.81 15 105 1aaj CYANIN (APO FORM)
6 23.10 40 10 3 0.48 13 150 1aak QUITIN CONJUGATING ENZYME
7 20.13 40 8 3 -0.01 20 162 119l OZYME (E.C.3.2.1.17) MUTA
8 17.62 33 7 1 -0.42 12 185 153l OZYME (E.C.3.2.1.17)
9 15.60 35 6 2 -0.75 23 55 1aaf -1 NUCLEOCAPSID PROTEIN (
10 15.40 32 8 1 -0.78 16 1259 3aah THANOL DEHYDROGENASE (E.C
11 15.40 32 8 1 -0.78 16 1259 3aah THANOL DEHYDROGENASE (E.C
12 15.38 30 8 1 -0.78 17 1259 3aah THANOL DEHYDROGENASE (E.C
13 15.38 30 8 1 -0.78 17 1259 3aah THANOL DEHYDROGENASE (E.C
14 9.20 31 0 0 -1.79 16 211 2abk L_ID: 1;
---
--- TOPITS ALIGNMENTS HEADER: PDB_POSITIONS FOR ALIGNED PAIR
RANK PIDE IFIR ILAS JFIR JLAS LALI LEN2 ID2
1 21 2 40 160 204 38 1259 3aah
2 21 2 40 160 204 38 1259 3aah
3 17 1 40 790 834 40 1259 3aah
4 17 1 40 790 834 40 1259 3aah
5 15 1 40 18 58 40 105 1aaj
6 13 1 40 21 70 40 150 1aak
7 20 1 40 11 58 40 162 119l
8 12 1 40 76 108 33 185 153l
9 23 1 40 3 38 35 55 1aaf
10 16 1 40 1207 1238 32 1259 3aah
11 16 1 40 1207 1238 32 1259 3aah
12 17 1 38 577 606 30 1259 3aah
13 17 1 38 577 606 30 1259 3aah
14 16 9 39 181 211 31 211 2abk
---
--- TOPITS ALIGNMENTS: SYMBOLS AND EXPLANATIONS
--- BLOCK 1 : your protein and its predicted 1D structure,
--- : i.e., secondary structure and solvent accessibility
--- line 1 : amino acid sequence (one-letter-code)
--- line 2 : predicted secondary structure:
--- H : helix
--- E : strand (extended)
--- L : other (no regular secondary structure)
--- line 3 : predicted residue relative solvent accessibility
--- B : buried, i.e., relative accessibility < 15%
--- O : exposed (outside), i.e., relative accessibility >= 15%
--- :
--- BLOCKS 1-20 : 20 best hits of the prediction-based threading
--- ATTENTION : We chose to include all first 20 hit. However,
--- ATTENTION : most of them will not constitute true remote
--- ATTENTION : homologues. Instead, all hits with a zscore
--- ATTENTION : (ZALI) < 3.5 are, at best, rather speculative!
--- : for each aligned protein:
--- line 1 : amino acids conserved between guide (yours) and the
--- : aligned protein (putative homologue)
--- line 1 : sequence of aligned protein
--- line 3 : secondary structure, taken from DSSP (assignment
--- : of secondary structure based on experimental coordinates)
--- line 4 : relative solvent accessibility, taken from DSSP
---
--- TOPITS ALIGNMENTS
1 - 40 ....:....1....:....2....:....3....:....4....:....5
t-to KGPAVGIDLGTTYSCVGVFQHGKVEIIANDQGNRTTPSYV
LLLEEEEELLLLEEEEEEEELLLEEEEEELLLLLLLLLEL
OOOBBBBBBBBBBBBBBBBOOOOBOBBBOOOOOOOBOOOB
V LG V F G A G
1. 3aah 27.87 KDTVLMglGVR.GAVNAFdtGELKWRAFATGSDDSVRLA
LLEEEEEHLLL.LEEEEEELLLEEEEEELLLLLLLLLEL
BBBOBOBOOBOOOOBOBOBOOBOBBBOBOOOOBOOBOOB
V LG V F G A G
2. 3aah 27.87 KDTVLMglGVR.GAVNAFdtGELKWRAFATGSDDSVRLA
LLEEEEEHLLL.LEEEEEELLLEEEEEELLLLLLLLLEL
BBBOBOBOOBOOOOBOBOBOOBOBBBOBOOOOBOOBOOB
K G V F G A G
3. 3aah 27.17 KDTVLMGCSggVRGAVNAFdtGELKWRAFATGSDDSVRLA
LLEEEEELELLLLLEEEEEELLLEEEEEELLLLLLLLLEL
BBOBOBOOBOBOOOOBOBOBOOBOBBBOBOOOOBOOBOOB
K G V F G A G
4. 3aah 27.17 KDTVLMGCSggVRGAVNAFdtGELKWRAFATGSDDSVRLA
LLEEEEELELLLLLEEEEEELLLEEEEEELLLLLLLLLEL
BBOBOBOOBOBOOOOBOBOBOOBOBBBOBOOOOBOOBOOB
G V Y G N V
5. 1aaj 25.12 DGAIVVDIAKMKYETPELHVkgDTVTWINREAMPHNVHFV
LLLEEEEEELLEELLLEEEELLLEEEEEELLLLLELLEEL
OOOOBOOOOOOBOOOOBOBOOOOOOOOOOOOOOOOOOBOO
G F G P V
6. 1aak 23.10 PAGISGAPQDnmLWNAVIfdGGTFKLSLqsEDYPNKPPTV
LLLEEEEEELLEEEEEEEEELLEEEEEEELLLLLLLLLEE
OOBOOOOOBOBOBOBOOOOOOOOOOBOOBOBBOOOOOOOO
G I T Y G A R T
7. 119l 20.13 EGLRLKIYKDTeyYTIglLTKSPSLNAAKSeiGRNTNGVI
HLLEEEEEELLLLEEEEEEELLLLHHHHHHHHLLLLLLEL
OOBOOOBOOOOOOOBOOBBOOOOOOOBBOOOOOBBOOBOO
G G G Q
8. 153l 17.62 AGKVLKNGWGDRGNGFGLMQ.......VDKRSHKPQGTWN
LLLLLELLELLLLLEELLLL.......EELLLLLLLLLLL
OOBBOOBBOOOOOOBOOOOBBOOOBBOOOBOOBOBOOOBO
G F GK IAN R
9. 1aaf 15.60 RGN.....FRNQRKIIKCFNCGKEGHIanCRAPRKRGCWK
LLL.....LLLLLLLLLLLLLLLLLLLHHLLLLLLLLLLL
OOOOOBOOOOOOOOOOOOOOOOOOOOBOOOOOOOOOOOOO
G G E IA
10. 3aah 15.40 TCKEAGNCWEAK........PGYPEKIAGSKYDPKHDPVE
LLLELLELLLLL........LLLLLLLLLLLLLLLLLHHH
BOOBOOOOBOOOOBOBOBOBOOBOBBBOBOOOOBOOBOOB
G G E IA
11. 3aah 15.40 TCKEAGNCWEAK........PGYPEKIAGSKYDPKHDPVE
LLLELLELLLLL........LLLLLLLLLLLLLLLLLHHH
BOOBOOOOBOOOOBOBOBOBOOBOBBBOBOOOOBOOBOOB
G G E IA
12. 3aah 15.38 TCKEAGNCWEAK........PGYPEKIAGSKYDPKHDP
LLLELLELLLLL........LLLLLLLLLLLLLLLLLH
OBOOOOBOOOOBOBOBOBOOBOBBBOBOOOOBOOBOOB
G G E IA
13. 3aah 15.38 TCKEAGNCWEAK........PGYPEKIAGSKYDPKHDP
LLLELLELLLLL........LLLLLLLLLLLLLLLLLH
OBOOOOBOOOOBOBOBOBOOBOBBBOBOOOOBOOBOOB
L Y C II
14. 2abk 9.20 LHGRYTCIARKPRCGSCIIEDLCEYKEKVDI
HHHHHLLLLLLLLHHHLLLHHHLLLLLLLLL
BBOOOOOBOOOBOOOOOOBOOBBOOOOOOOO
---
--- TOPITS ALIGNMENTS END
---