CNMP NtrC AlcR H PAS PAS PAS assd HTH

wH NtrC Sigma HTHHTH NTF2 AlcR-1 HTH

BD GAF PAS HTH ACT PAS
ACT HTH -2
ATPase ATPase

CRP_Ecol AlcR_Ana Af1620_Aful

YgeV_Ecol (NtrC) TyrR_Ecol Mll2270_Mlot

HTH MEDS HTH SLBB wH T-OB T-OB wH ACT

ACT HTH GyrI wH DeoR wH PBPII HMA HTH FER HTH

Xaut_4864_Xaut IclR_Mace ModE_Ecol Lrp_Bsub BmrR_Bsub DeoR_Ecol LysR_Ecol CHU_1500_Chut HM1_2484_Hmod

8TMR-UT
PAS PAS HIS Kin CHASE PAS PAS PAS PAS HIS Kin REC GAF GAF HIS Kin REC Acyc HNOBA HIS Kin REC

FixL_Bjap Sde_0390_Sdeg cyaC_Ana AM1_0635_Amar

5TMR-LYT
STY Kin SWACOS GAF S HIS Kin MCP-N CACHE H HIS Kin REC REC HPT GAF HIS Kin HDPDE GAF GAF

All0323_Ana Sde_2488_Sdeg lytS_Bsub gi:94270625

Nucleotidy

TPR
TPR
CNMP Acyc CNMP
PocR Chem trans HNOB Chem trans CHASE3 H Chem trans STY Kin
BD
GAF GAF PAS
BD
CBS CBS
ltransferase

CAC0432_Cace Tar4_Tten MXAN_6950_Mxan Daro_0925_Daro cyaB1_Ana VIH_000647_Vcho

7TMR-DISM
7TMR- CNMP
PAS PAS PAS GAF GGDEF NIT GGDEF EAL DISMED2 PAS GGDEF EAL PAS PAS GGDEF PBPI PAS GGDEF EAL BLUF
BD

slr0302_Ssp M446_5789_Meth HCH_05755_Hche Mmc1_0233_Magn Mmc1_2641_Magn

PBP2 7TMR-HD
7TMR-

4HB
4HB
CACHE ARTLGIC HDED HD DICT HD-GYP PilZ HD-GYP PAS PAS STAS NIT H GGDEF

Npun_F6469_Npun
Sde_2910_Sdeg
(NMDA)
TDE1241_Tden all4304_Ana Tcr_0555_Tcru sce1403_Scel CPS_3631_Cpsy

wH winged HTH H HAMP S S-Helix TM-Helix Signal Peptide FER Ferredoxin RRM
 C C
N
N N
C

PAS (FixL, PDB:1xj4) GAF (3’-5’ cyclic PDE2a CACHE (CitA, PDB:1p0z)
PDB:1mc0)

N
C

N C
C
SLBB
(transcobalamin
HNOB (TTE0680, PDB:1u56) PDB:2bbc) NUDIX (NrtR, PDB:3gz8)

Cu

C
N

C
N

HMA (Bacillus CopZ, ACT(3-phosphoglycerate GyrI (BmrR, PDB:1exi)

PDB:1k0v) dehydrogenase, PDB:1psd)
 C

N
CBS (Pyrobaculum STAS (SPOIIAA PBP1 (LuxP, PDB:2hj9A)
PAE2072, PDB:2rif) PDB:1buz)

C N
C
PBP2 (CatM T-OB (ModE,PDB:1o7l) 4-helical bundle - 4HB
N PDB:2f7c) (Aspartate receptor;
PDB:1vlt)

N
Fe

N
C C

Hemerythrin 4-helical cytochromes ATP-cone (Ribonucleotide

(DcrH,PDB:2awc) (cytochrome b562, reductase,PDB:3r1r)
PDB:1qpu)
 C
C

N
N
C
DSBH (AraC, PDB:2arc) UTRA (Chorismate ISOCOT (Ribose-5-Phosphate
lyase, PDB:1fw9) Isomerase,PDB: 1lk7)

N
C

N N
NTF2(Orange BLUF (Photoreceptor 7 TM receptor
carotenoid protein PDB: 2hfo) (sensory rhodopsin,
PDB: 1m98) PDB:1ap9)

N
N C

C
N
N

C C
cNMPBD PilZ (Vibrio VCA0042
ART-LGIC
(CAP, PDB:1cgp) PDB: 2rde)
(Acetylcholine-binding protein,
PDB:1uv6, Chains C,D)
 7T CH
EM MR
TR −D M
IS
CH A IS −D
AS HP NS M CHASE2 HISKIN Che R

cR
L
E3 T R_S M

EA
CBS AM 7T
STYKI
N

Po
ATPase

S
8TMR−UT PBPB

rQ

CB
CHASE
PBPI HTH Na YC
FHA ATPase

CACHE
IONCHANNE
L

HAMP AC P
IG

SWACOS
8TMR−UT GY
PocR TPR

REC HD
CACHE 5TMR−LYT IONCHANNEL
SHELIX
BarAN

GAF TLPCN
Hpr_kinase_N TPR
PAS PBPI
CheR_SAM−Methyltransferase
CHASE3
CHASE4 RADICAL_SA
M
Functional Network PP2C
GGDEF
CHASE RHOD_CDC25
MEDS
BACTERIALFRINGE
EAL PTS_EIIC HTH
HDGYP NIT
APATPase START SHELIX CHEM
Mbetalac PilZ STAS
BarAN GAF TRANS
NarQ S1 Protein−protein TrkAC

MHYT
S2P Ion Transport interaction STAS
Globin ACYC SAM
HAMP REC JAB

Phosphodiesterase
PBPB

LYTTR
SH3 WD40_EU
S
proteases Ferredoxin_RRM
PP2C Thermonuclease
PTS MNS

FN3

DHH CNMP Sm_MscS

CheW
Ferredoxin TLPCN HPT PAS MglB

_RRM CheRN_Alpha GGDEF TIR

Heme and CNMP
4HB
ACET sGTP
iron sensors CHASE4 HISKIN
Misc Receptors
ABC_ATPase GLYCO BetaPropeller

7TMR−HDED HNOBA CHASE2

7TMR−HD
IPP
two component Extracellular Sensory Domain PilZ
CheD

7TMR−DISMED2 5TMR−LYT KH
s
Apoptosis
DSBH

HNOBA
NACHT

NIT BACTERIALFRINGE

related
METHYLASE MNS
HxxxH 7TMR−HD

MEDS
MglB
POLYSACPOLYMERASE
Mbetalac

Ferredoxin_betagrasp
PTX EFHAND CASPASE 1 SWACOS
CheB_Methylesterase

4HB 7TMR−DISMED Signal Transmitter Domains

PDZ

CN Signaling STYKIN

7TMR−DISMED1
GTPase
MHYT

ABC_ATPase

7TMR−DISMED2
Globin APATPase
FHACheB_Methylesterase

Signaling
Cyclic Nucleotide and HTH Adhesion
Diguanylate Binding MA chemotaxis Two Component systems
Intracellular Sensory Domains
ubiquitin
PTS-Accessory

GAF
GGDEF HISKIN Lipid signaling GGDE PAS C
RNA Metabolism ANK
F ACY ELIX
CHASE REC SH se
ATPa
GAF
PAS Cal Signaling Misc LRR HTH
REC TRYPSERINEPROTEASE
TPR
HISKIN TRANSGLUTAMINASE

SHELIX CHASE2 INTEGRINBET

A

BetaPropeller
IG

PP2C PBPI
7TMR−DISMED1
MACRODOMAI
N

CNMP MNS NACHT CHEM TRANS

8TMR−UT 5TMR−LYT PP2C
OBFOLD_NUCLEASE

SWACOS APATPase
HAMP
7TMR−DISMED2
KELCH
PAP2

A D B EAL MalT WD40_EUS

Protein 1
VWA
PTS_EIIA
1

TPR
FN3
CLOSTRIPAIN RICIN

ACYC TIR
7TMR−HD 7TMR−DISM ASH_IG
PTX

HDGYP A B C SH3
RnasePH

LyttR A C RNA_Helicase_SFI

sGTP_APGTPase
FHA RNA_Helicase_SFI
I

Protein 2 PP2A RING

EAL
CASPASE
HD
PASTA GINGIPAIN SAM

STYKIN
7TMR−HDED HDGYP S2P

HPT
HTH C D GLYCO
S1COLD

CHEM
Protein 3 D Ferredoxin_RRM
PilZ APPLE
ABC_ATPas
e

TRANS PDZ BACTERIALFRINGE

CytC

STAS
Architecture
HMGL_TIM_Barrel DISCOIDI
N
HPT FBOX
Globin

B D Network HAMP Ferredoxin_betagrasp

Transmembrane Receptors
Protein 4 Apoptosis-related systems
 a Complexity quotient b Sensory Domain Containing Proteins

Caur * Oter Daro Haur * Npun

600
*
Bxen
Hche Cbei *
MagnSwoo* * ***Ana * * Paer ** *Daci
* Mxan Scel Rleg
Amet * * * *Mmag * * * Bjap
**** * ***Gura
Ping Bxen y = 0.0002x1.6602
Meth * *Amar Rleg *
200

500
Ctha * * *
* * * * R² = 0.8383
Complexity quoteint

*
* * ** * * ** * * AtumMlot Susi Daci
* * Sery Bjap * * Scoe * Reut Scel
* ***** * * ***** ** * Rpal
*
* * Smel * * Smel * Paer Mlot *
* **** * *** * ** * * Bpet Fran * * *

400
Mari Atum

Protein Counts
* Hche Scoe
** * * * ** ** * * * * Rhod * Cbei ** Pola Meth * *
150

* *** **** * * **** Nfar* * Msme Ahyd Cvio * Bpet *

* * * * Npun Fran Rhod
* *** *** *** **** ** * * Daro * * *Rpic ** *

300
* * **Sery
*********** ** * *** * Vhar Msme
* * * **Ana* Mxan * * Susi
***** ***** * *
** * * ** *
*
* *Amar
100

* * * *
** * ***** ** * ** *
* * ********* **** ** **

200
*
* *** *
* y = 60.604ln(x) - 210.56 * ** * * * ** *
** R² = 0.785 ** *** ** * *** * * Rbal
**** * ** * * ** ****** ************ ** **** *

100
* * * ** * * *
* * Maer
*** * * * * ****************** *
50

******* * * y = 0.0449x + 19.949

* ******** ** * * * **
* ************ *** R² = 0.7681
* *

0
0 500 1000 1500 2000 4000 6000 8000

Number of Proteins Proteome Size

c PAS d GAF

Mhun * Scel *
100

Mmag *
*

80
y = 8E-06x1.7626 Scel y = 1.5575e0.0004x * Npun
R² = 0.4622 * Daro R² = 0.3768
Magn *
80

Npun * Meth
Ddes Avar
60
* * Gura Haur
Sfum * * Ana
*
Protein Counts

Protein Counts
*
Lcho
Hmar * * Mace Avar Mxan Krad
60

Oter * Rrub* Rpal * * *Ana * * Susi* Bjap *

Umet * *Caur * Mxan * Amar
40

*Caur AhydAnae Hche Amar

* *
Ping* Dhaf
*Swoo * Haur Paer * Bxen* * Scoe *
* *
40

* * *
** ** * Krad * ** *
Cpsy * *
* * * *** ** * ** * * * Scoe
* *
** * * Rhod
* * **
* **
* *
20

* * * * * *
** * * * ***** **** * * ** *** * Bxen
20

** * ** Rhod * * * * * * * * ** * ** * * *
* * ****** ******** * *** * * ***** * * * * * * * *Bjap
* * * * ** ** * * * *
* *** * ** *** * ** **** * *** ******** ** * ** * * **
* * * * ** * ** * * ** * * * * * *
* * * * ** *********** ** * ** ** **** * * * * **
*
* ***** *** ************ ** ****** * * * * ** * ***** **** * * ** * *
0
0

2000 4000 6000 8000 2000 4000 6000 8000

Proteome Size Proteome Size
 a cNMPBD b Chemotaxis Transducers

* Bjap Mmag *
30

Fjoh
y = 1.3208e0.0003x Mmag* *Cbei

60
*
R² = 0.3626 *Meth
25

Rrub *
* Npun

50
*Mari
Vcho

Protein Counts
Protein Counts

Amar * * Cvio Lsph * Meth

20

** * Scel Ahyd * * *

40
* * * * Bxen * * Dhaf
Aave
* * * *Bjap
* Magn * * Hche
* * * Wsuc * Bxen
15

Daci

30
**
**
** ** * * * * Rleg
*
* * * * *
** * * ** * ** * * ** *
* * * * ** * **
10

20
** * * * * * * ** * *
** * * * *
** * * * * * *
* * *** * * Scoe *
** * *** ** * * *
*
* * * Amar
* * * * ** * * * * * * *

10
* * * * * *
5

*** * ** ** * * * * *** ** * * *
* * * ** * * *** * * * * * * Rhod *
* * * * * * * * * * * * Scel*
** ** *** * ** * * * *** * * * * * ** * * * * *
* * *** ** * * * * * ***** * * ***** * ** *** * *
* * * * ** * * *
* ** ******* * ** * ***** *
* * **
*
*
* *** ****** * * **** ******** ** *** * * * * * *** Scoe*

0
0

2000 4000 6000 8000 2000 4000 6000 8000

Proteome Size Proteome Size

c Histidine Kinases d Receivers vs Histidine Kinases

Npun * Mxan * Npun
150

* Scel* *
y = 1E-05x1.7846 Scel y = 0.7428x + 1.3445 Magn Susi

150
Mxan * *
R² = 0.6636 Ana R² = 0.9145 Amar * * Daro * Oter
* *
* Avar Hche Meth Anae Ana
Avar *
*
* * Gura *
* *Mmag *
Oter * Abac * Bjap
Haur*
* Mmag * Susi
100
Protein Counts

* * **Anae
Receivers
100 Bxen
Amar * ****
* * * Bjap *
* * * * ** *
* ** * *
* * Bxen *
* Scoe * *********** *
* * * ** ******** * * *
** * * ***
*** * ** * *** * * *
* *
**** *
**
50

50

* * *** ** ** ***
*** *
*
* * ** * ** * ** * ** ** Rhod * ********** ***** * ** **
**
**
* **** *** * * * * * *** * * *
* *
* ******************* * *
*
** * * ** * * * * ********** * *
* * *** ***** * *********** * ** * * * * ****** *
*
* ******* *
* * * ** *
* * * ************** ** **
* * *** ** * * * *****
* ******** ******* **
0
0

2000 4000 6000 8000 0 50 100 150

Proteome Size Histidine Kinases