- Page 1 and 2: Prime User Manual Prime 2.1 User Ma
- Page 3 and 4: Contents Document Conventions .....
- Page 5 and 6: Contents 5.3 Running the Build Stru
- Page 7 and 8: Contents 11.7 ssp—Secondary Struc
- Page 9 and 10: Document Conventions In addition to
- Page 11 and 12: Prime User Manual Chapter 1: Introd
- Page 13 and 14: 1.3 Running Schrödinger Software C
- Page 15 and 16: Prime User Manual Chapter 2: Using
- Page 17 and 18: Chapter 2: Using Prime-Structure Pr
- Page 19 and 20: Chapter 2: Using Prime-Structure Pr
- Page 21 and 22: Chapter 2: Using Prime-Structure Pr
- Page 23 and 24: Guide Chapter 2: Using Prime-Struct
- Page 25 and 26: Chapter 2: Using Prime-Structure Pr
- Page 27 and 28: Prime User Manual Chapter 3: Prime-
- Page 29 and 30: 3.2 Find Homologs Step Chapter 3: P
- Page 31 and 32: To identify a family for the query
- Page 33 and 34: Table 3.1. Homologs table data Colu
- Page 35: Chapter 3: Prime-Structure Predicti
- Page 39 and 40: 4.3 Initial and Imported Alignments
- Page 41 and 42: Chapter 4: Comparative Modeling: Ed
- Page 43 and 44: 4.5.2 Align Program Technical Detai
- Page 45 and 46: Prime User Manual Chapter 5 Chapter
- Page 47 and 48: Chapter 5: Comparative Modeling: Bu
- Page 49 and 50: Chapter 5: Comparative Modeling: Bu
- Page 51 and 52: Chapter 5: Comparative Modeling: Bu
- Page 53 and 54: Prime User Manual Chapter 6: Fold R
- Page 55 and 56: Figure 6.2. The Fold Recognition pa
- Page 57 and 58: Figure 6.3. The Fold Recognition-Op
- Page 59 and 60: Chapter 6: Fold Recognition potenti
- Page 61 and 62: Prime User Manual Chapter 7: Prime-
- Page 63 and 64: Chapter 7: Prime-Refinement If your
- Page 65 and 66: 7.2 Using the Refinement Panel Chap
- Page 67 and 68: 2. Click New Membrane (Auto-Place).
- Page 69 and 70: Figure 7.3. The Refine loops task i
- Page 71 and 72: Chapter 7: Prime-Refinement Figure
- Page 73 and 74: Figure 7.6. The Structure Refinemen
- Page 75 and 76: Chapter 7: Prime-Refinement The tex
- Page 77 and 78: Chapter 7: Prime-Refinement ment, w
- Page 79 and 80: 7.11 Output of Refinement Jobs Chap
- Page 81 and 82: Prime User Manual Chapter 8: Maestr
- Page 83 and 84: Alignment Section Chapter 8: Maestr
- Page 85 and 86: Chapter 8: Maestro Protein Structur
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Prime User Manual Chapter 9: Dockin
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Chapter 9: Docking Covalently Bound
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Prime User Manual Chapter 10: Prime
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Table 10.1. Options for the prime_m
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Prime User Manual Chapter 11: Comma
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Table 11.2. Keywords for the blast
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Table 11.3. Keywords for the bldstr
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Chapter 11: Command Syntax The alig
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Chapter 11: Command Syntax • Outp
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Table 11.5. Keywords for the multir
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Chapter 11: Command Syntax It is no
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Table 11.6. General keywords for th
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Table 11.7. Protocol-specific keywo
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SKA has difficulty aligning to mult
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Table 11.8. Keywords syntax for ska
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Chapter 11: Command Syntax ........
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Chapter 11: Command Syntax The foll
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Chapter 11: Command Syntax aligned
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Files Chapter 11: Command Syntax In
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Prime User Manual Chapter 12: Comma
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Table 12.1. Keywords for the seqcon
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Chapter 12: Command-Line Utilities
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Prime User Manual Appendix A: Third
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Prime User Manual Appendix B: Envir
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Prime User Manual Appendix C: File
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Prime User Manual Appendix D: Error
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!UNUSABLE: SEQRES numbering is wron
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Prime User Manual Getting Help Schr
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Getting Help If Maestro fails, an e
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Prime User Manual Glossary Chapter
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Symbols + (plus sign), in Pfam sequ
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K killing jobs ....................
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sequences coloring.................
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