Triad DDG Calculations with Phoenix for 2GI9


Abstract

Use the triad software to calculated the DDG of unfolding for 2GI9 with the phoenix score function

Submission Details

ID: cymFhTUN3

Submitter: Connie Wang

Submission Date: April 7, 2017, 6:02 p.m.

Version: 1

Publication Details
Wang Connie (2017-04-05) Triad DDG Calculations with Phoenix for 2GI9; unpublished work from Protabit group
Additional Information

Study Summary

Structure view and single mutant data analysis

Study data

No weblogo for data of varying length.
Colors: D E R H K S T N Q A V I L M F Y W C G P
 

Data Distribution

Studies with similar sequences (approximate matches)

Correlation with other assays (exact sequence matches)


Relevant PDB Entries

Structure ID Release Date Resolution Structure Title
2KN4 2010-08-18 The structure of the RRM domain of SC35
2KLK 2009-10-06 Solution structure of GB1 A34F mutant with RDC and SAXS
1Q10 2003-10-14 Ensemble of 40 Structures of the Dimeric Mutant of the B1 Domain of Streptococcal Protein G
2I2Y 2006-12-12 Solution structure of the RRM of SRp20 bound to the RNA CAUC
2GB1 1993-04-15 A NOVEL, HIGHLY STABLE FOLD OF THE IMMUNOGLOBULIN BINDING DOMAIN OF STREPTOCOCCAL PROTEIN G
2KHU 2010-02-23 Solution Structure of the Ubiquitin-Binding Motif of Human Polymerase Iota
2KBT 2009-02-03 Attachment of an NMR-invisible solubility enhancement tag (INSET) using a sortase-mediated protein ligation method
2JU6 2007-12-04 Solid-State Protein Structure Determination with Proton-Detected Triple Resonance 3D Magic-Angle Spinning NMR Spectroscopy
2KWD 2010-06-02 Supramolecular Protein Structure Determination by Site-Specific Long-Range Intermolecular Solid State NMR Spectroscopy
2N9L 2016-12-28 1H, 13C, and 15N Chemical Shift Assignments for in-cell GB1
2JSV 2008-04-15 Dipole tensor-based refinement for atomic-resolution structure determination of a nanocrystalline protein by solid-state NMR spectroscopy
2MBB 2014-06-04 Solution Structure of the human Polymerase iota UBM1-Ubiquitin Complex
1GB4 1998-07-22 HYPERTHERMOPHILIC VARIANT OF THE B1 DOMAIN FROM STREPTOCOCCAL PROTEIN G, NMR, 47 STRUCTURES
2K0P 2009-03-03 Determination of a Protein Structure in the Solid State from NMR Chemical Shifts
1MPE 2002-10-30 Ensemble of 20 structures of the tetrameric mutant of the B1 domain of streptococcal protein G
2PLP 2007-05-08 Ultra high resolution backbone conformation of protein GB1 from residual dipolar couplings alone
3GB1 1999-06-23 STRUCTURES OF B1 DOMAIN OF STREPTOCOCCAL PROTEIN G
2J52 2007-09-25 Solution Structure of GB1 domain Protein G and low and high pressure.
5UCF 2017-08-23 Solution NMR-derived model of the minor species of DANCER-2, a dynamic and natively folded pentamutant of the B1 domain of streptococcal protein G (GB1)
1ZXH 2005-11-08 G311 mutant protein
1GJS 2001-08-09 Solution structure of the Albumin binding domain of Streptococcal Protein G
2NMQ 2006-11-21 Simultaneous determination of protein structure and dynamics using rdcs
1PN5 2003-10-07 NMR structure of the NALP1 Pyrin domain (PYD)
2KHW 2010-02-23 Solution Structure of the human Polymerase iota UBM2-Ubiquitin Complex
1FCL 2001-09-19 DELTA1.5: A COMPUTATIONALLY DESIGNED CORE VARIANT OF THE B1 DOMAIN OF STREPTOCOCCAL PROTEIN G
1LE3 2002-04-24 NMR Structure of Tryptophan Zipper 4: A Stable Beta-Hairpin Peptide Based on the C-terminal Hairpin of the B1 Domain of Protein G
1GJT 2001-08-09 Solution structure of the Albumin binding domain of Streptococcal Protein G
2LGI 2011-10-26 Atomic Resolution Protein Structures using NMR Chemical Shift Tensors
2N9K 2016-12-28 1H, 13C, and 15N Chemical Shift Assignments for in vitro GB1
1FD6 2001-09-19 DELTA0: A COMPUTATIONALLY DESIGNED CORE VARIANT OF THE B1 DOMAIN OF STREPTOCOCCAL PROTEIN G
6HKA 2019-03-27 The solution structure of the micelle-associated FATC domain of the human protein kinase ataxia telangiectasia mutated (ATM)
2KQ4 2009-11-17 Atomic resolution protein structure determination by three-dimensional transferred echo double resonance solid-state nuclear magnetic resonance spectroscopy
1GB1 1993-04-15 A NOVEL, HIGHLY STABLE FOLD OF THE IMMUNOGLOBULIN BINDING DOMAIN OF STREPTOCOCCAL PROTEIN G
2RPV 2009-09-15 Solution Structure of GB1 with LBT probe
5UB0 2017-08-23 Solution NMR Structure of NERD-C, a natively folded tetramutant of the B1 domain of streptococcal protein G (GB1)
2IGH 1994-01-31 DETERMINATION OF THE SOLUTION STRUCTURES OF DOMAINS II AND III OF PROTEIN G FROM STREPTOCOCCUS BY 1H NMR
2N7J 2015-10-14 Sidechain chi1 distribution in B3 domain of protein G from extensive sets of residual dipolar couplings
5UBS 2017-08-23 Solution NMR Structure of NERD-S, a natively folded pentamutant of the B1 domain of streptococcal protein G (GB1) with a solvent-exposed Trp43
2J53 2007-09-25 Solution Structure of GB1 domain Protein G and low and high pressure.
2IGG 1994-01-31 DETERMINATION OF THE SOLUTION STRUCTURES OF DOMAINS II AND III OF PROTEIN G FROM STREPTOCOCCUS BY 1H NMR
2RMM 2007-12-04 Solution structure of GB1 A34F mutant
1P7E 2003-08-05 GB3 solution structure obtained by refinement of X-ray structure with dipolar couplings
2LUM 2012-08-29 Three-State Ensemble obtained from eNOEs of the Third Immunoglobulin Binding Domain of Protein G (GB3)
5UCE 2017-08-23 Solution NMR structure of the major species of DANCER-2, a dynamic and natively folded pentamutant of the B1 domain of streptococcal protein G (GB1)
1P7F 2003-08-05 GB3 solution structure obtained by refinement of X-ray structure with dipolar couplings
3FIL 2009-08-18 0.88 Structural and energetic determinants for hyperstable variants of GB1 obtained from in-vitro evolution
2QMT 2007-12-25 1.05 Crystal Polymorphism of Protein GB1 Examined by Solid-state NMR and X-ray Diffraction
2IGD 1998-07-29 1.1 ANISOTROPIC STRUCTURE OF PROTEIN G IGG-BINDING DOMAIN III AT 1.1 ANGSTROM RESOLUTION
1IGD 1994-11-01 1.1 THE THIRD IGG-BINDING DOMAIN FROM STREPTOCOCCAL PROTEIN G: AN ANALYSIS BY X-RAY CRYSTALLOGRAPHY OF THE STRUCTURE ALONE AND IN A COMPLEX WITH FAB
6CHE 2019-07-10 1.1 Selenomethionine mutant (A34Sem) of protein GB1 examined by X-ray diffraction
6CPZ 2019-07-10 1.12 Selenomethionine mutant (I6Sem) of protein GB1 examined by X-ray diffraction
2GI9 2006-04-25 1.14 Backbone Conformational Constraints in a Microcrystalline U-15N-Labeled Protein by 3D Dipolar-Shift Solid-State NMR Spectroscopy
3MP9 2011-02-23 1.2 Structure of Streptococcal protein G B1 domain at pH 3.0
6CTE 2019-07-10 1.2 77Se-NMR probes the protein environment of selenomethionine
6CNE 2019-07-10 1.2 Selenomethionine mutant (L5Sem) of protein GB1 examined by X-ray diffraction
6C9O 2019-07-10 1.2 Selenomethionine mutant (V29Sem) of protein GB1 examined by X-ray diffraction
6NLA 2019-01-23 1.34 Crystal structure of de novo designed metal-controlled dimer of B1 immunoglobulin-binding domain of Streptococcal Protein G (L12H, E15V, T16L, T18I, V29H, Y33H, N37L)-zinc
2ON8 2007-12-04 1.35 Gbeta1 stabilization by in vitro evolution and computational design
6NL7 2019-01-23 1.4 Crystal structure of B1 immunoglobulin-binding domain of Streptococcal Protein G (T16F, T18A, V21H, T25H, K28Y, V29I, K31R, Q32A, Y33L, N35K, D36A, N37Q)
6NL6 2019-01-23 1.4 Crystal structure of mutant B1 immunoglobulin-binding domain of Streptococcal Protein G (T16F, T18A, V21E, T25L, K28Y, V29I, K31R, Q32H, Y33L, N35K, D36H, N37Q)
6NL8 2019-01-23 1.5 Crystal structure of de novo designed metal-controlled dimer of mutant B1 immunoglobulin-binding domain of Streptococcal Protein G (L12H, T16L, V29H, Y33H, N37L)-zinc
5BMH 2016-04-06 1.6 Nitroxide Spin Labels in Protein GB1: T44 Mutant, Crystal Form B
1PGX 1992-07-15 1.66 THE 1.66 ANGSTROMS X-RAY STRUCTURE OF THE B2 IMMUNOGLOBULIN-BINDING DOMAIN OF STREPTOCOCCAL PROTEIN G AND COMPARISON TO THE NMR STRUCTURE OF THE B1 DOMAIN
6NL9 2019-01-23 1.7 Crystal structure of de novo designed metal-controlled dimer of mutant B1 immunoglobulin-binding domain of Streptococcal Protein G (L12H, T16L, V29H, Y33H, N37L)-apo
2ONQ 2008-01-08 1.7 Gbeta1 stabilization by in vitro evolution and computational design
4OZB 2014-07-16 1.8 Backbone Modifications in the Protein GB1 Helix: beta-ACPC24, beta-3-Lys28, beta-3-Lys31, beta-ACPC35
5HG2 2016-02-24 1.8 Backbone Modifications in the Protein GB1 Helix: beta-3-Ala24, beta-3-Lys28, beta-3-Lys31, beta-2-Asn35
1PGB 1994-04-30 1.92 TWO CRYSTAL STRUCTURES OF THE B1 IMMUNOGLOBULIN-BINDING DOMAIN OF STREPTOCCOCAL PROTEIN G AND COMPARISON WITH NMR
1QKZ 2000-02-06 1.95 Fab fragment (MN14C11.6) in complex with a peptide antigen derived from Neisseria meningitidis P1.7 serosubtype antigen and domain II from Streptococcal protein G
4KGS 2013-09-04 1.95 Backbone Modifications in the Protein GB1 Loops: beta-3-Val21, beta-3-Asp40
5HFY 2016-02-24 1.95 Backbone Modifications in the Protein GB1 Helix: beta-2-Ala24, beta-3-Lys28, beta-3-Lys31, beta-3-Asn35
4KGR 2013-09-04 2.0 Backbone Modifications in the Protein GB1 Helix: beta-3-Ala24, beta-3-Lys28, beta-3-Lys31, beta-3-Asn35
3V3X 2012-08-29 2.0 Nitroxide Spin Labels in Protein GB1: N8/K28 Double Mutant
4KGT 2013-09-04 2.0 Backbone Modifications in the Protein GB1 Turns: Aib10, D-Pro47
1EM7 2002-05-08 2.0 HELIX VARIANT OF THE B1 DOMAIN FROM STREPTOCOCCAL PROTEIN G
1PGA 1994-04-30 2.07 TWO CRYSTAL STRUCTURES OF THE B1 IMMUNOGLOBULIN-BINDING DOMAIN OF STREPTOCOCCAL PROTEIN G AND COMPARISON WITH NMR
5HI1 2016-02-24 2.15 Backbone Modifications in the Protein GB1 Helix: Aib24, beta-3-Lys28, beta-3-Lys31, Aib35
4OZA 2014-07-16 2.2 Backbone Modifications in the Protein GB1 Helix: beta-3-Ala24, beta-3-Lys28, beta-3-Gln32, beta-3-Asp36
4WH4 2015-08-05 2.2 Protein GB1 Quadruple Mutant I6H/N8H/K28H/Q32H
1UWX 2005-06-15 2.2 P1.2 serosubtype antigen derived from N. meningitidis PorA in complex with Fab fragment
5BMG 2016-04-06 2.2 Nitroxide Spin Labels in Protein GB1: E15 Mutant
4OZC 2014-07-16 2.3 Backbone Modifications in the Protein GB1 Helix and Loops: beta-ACPC21, beta-ACPC24, beta-3-Lys28, beta-3-Lys31, beta-ACPC35, beta-ACPC40
6NLB 2019-01-23 2.3 Crystal structure of de novo designed metal-controlled dimer of mutant B1 immunoglobulin-binding domain of Streptococcal Protein G (L12H, E15V, T16L, T18I, V29H, Y33H, N37L)-apo
5BMI 2016-04-06 2.5 Nitroxide Spin Labels in Protein GB1: T44 Mutant, Crystal Form A
1MVK 2002-10-30 2.5 X-ray structure of the tetrameric mutant of the B1 domain of streptococcal protein G
1IGC 1995-06-03 2.6 IGG1 FAB FRAGMENT (MOPC21) COMPLEX WITH DOMAIN III OF PROTEIN G FROM STREPTOCOCCUS
3UI3 2012-02-08 2.8 Structural and Biochemical Characterization of HP0315 from Helicobacter pylori as a VapD Protein with an Endoribonuclease Activity
1FCC 1995-04-20 3.2 CRYSTAL STRUCTURE OF THE C2 FRAGMENT OF STREPTOCOCCAL PROTEIN G IN COMPLEX WITH THE FC DOMAIN OF HUMAN IGG
5LDE 2017-10-04 3.38 Crystal structure of a vFLIP-IKKgamma stapled peptide dimer

Relevant UniProtKB Entries

Percent Identity Matching Chains Protein Accession Entry Name
100.0 Immunoglobulin G-binding protein G P19909 SPG2_STRSG
100.0 Immunoglobulin G-binding protein G P06654 SPG1_STRSG