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Table 1 Features of Hmd enzyme and paralog structure models

From: Comprehensive computational analysis of Hmd enzymes and paralogs in methanogenic Archaea

Model

RAPDF rank

C-score rank

Whole protein RMSD

N-terminal RMSD

C-terminal RMSD

EnzymeRC Mm(S2)

1 of 5

1 of 5

5.5

4.4

18.8

EnzymeRC Mj(2661)

1 of 5

1 of 5

2.2

1.9

2.1

EnzymeRC Mth(dH)

1 of 5

1 of 5

11.2

9.7

11.6

EnzymeRC Mtm

1 of 5

1 of 5

10.6

9.2

7.1

EnzymeRC Mk(AV19)

1 of 5

1 of 5

16.1

15.3

7.2

ParalogR Mm(S2)

1 of 5

2 of 5

21.1

17.9

8.4

ParalogC Mm(S2)

4 of 5

1 of 5

20.5

17.4

16.7

Paralog1-R Mj(2661)

1 of 5

2 of 5

20.5

17.5

11.4

Paralog1-C Mj(2661)

3 of 5

1 of 5

21.4

17.5

10.1

Paralog2-R Mj(2661)

1 of 5

2 of 5

20.4

17.8

7.5

Paralog2-C Mj(2661)

3 of 5

1 of 5

20.7

17.8

16.4

Paralog1-R Mth(dH)

1 of 5

3 of 5

20.5

18.1

8.1

Paralog1-C Mth(dH)

2 of 5

1 of 5

19.9

17.8

10.0

Paralog1-RC Mth(dH)

1 of 5

1 of 5

20.6

17.7

11.1

Paralog1-R Mtm

1 of 5

5 of 5

21.6

17.9

15.4

Paralog1-C Mtm

5 of 5

1 of 5

20.7

17.4

15.8

Paralog2-R Mtm

1 of 5

5 of 5

21.1

17.6

11.1

Paralog2-C Mtm

3 of 5

1 of 5

20.2

17.8

11.2

Paralog1-RC Mk(AV19)

1 of 5

1 of 5

21.4

17.9

16.5

Paralog2-R Mk(AV19)

1 of 5

4 of 5

21.6

16.6

13.9

Paralog2-C Mk(AV19)

2 of 5

1 of 5

23.7

16.7

14.3

  1. RAPDF = residue-specific all-atom probability discriminatory function (RAPDF) [30]
  2. C-score = internal I-TASSER scoring function [27]
  3. RMSD = all-atom root mean square deviation between the model and the diffraction structure of Hmd enzyme from M. jannaschii (PDB ID = 2b0j)