Citrus Sinensis ID: 043441

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170---
Protein Sequence
MGGSAIDDDWELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLKVCF
Secondary Structure (PSIPRED)
ccccccccccccccccccEEEEEEEccccccHHHHHHHHHccccccccccccccccEEEEEEEEEEccEEEEEEccccccccccccHHHHHHHHHHHHHcccccEEEEEEEEccccccHHHHHHHHHHHHHHcHHHHccEEEEEEcccccccccccHHHHHcccccccccccc
Secondary Structure Prediction (SSPRO)
cccccccccHHccccccccEEEEEEEccccccccccccHccccHEHcccccccccHHHHHcccEcccccEEEEEEccccccccccHHHHHHHHHHHHHHcccccEEEEEEEEccccccHHHHHHHHHHHHHHHHHHHcEEEEEEEcccHHccccccHHHHHHccccHHHHHHc
Coil and Loop (DISEMBL)
mggsaidddweltspsngvrTVVFVGrtgngksatgnsilgrrafksrasssgvtstCEMQRTvlkdgqvvnvidtpglfdfsagsefvGMEIVKCIGLAKDGIHAVLVGFsvrsrfpqeEEAALHSWQTLFGKKVFDYMIVVFTggdelednEETLEDYlgrecpkplkvcf
Flexible Loop (DISEMBL)
mggsaidddweltspsngvrtvvfvgrtgngksatgnsilgrrafksrasssgvtstcemqrtvlkdgqvvnVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLedylgrecpkplkvcf
Low Complexity Region (SEG)
MGGSAIDDDWELTSPSngvrtvvfvgrtgngKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGdeledneetledylGRECPKPLKVCF
Disordered region (IsUnstruct)
******************VRTVVFVGR******************************CEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDEL***********************
Disordered Region (DISOPRED)
*********************VVFVGRTGNGKSATGNSILGRRAFKS***********EMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLKVCF
Disordered Region (DISEMBL)
MGGSAIDDDWELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAF*************EMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLKVCF
Disordered Region (DISPRO)
*****************GVRTVVFVGRTGNGKSAT****L*RRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLKVCF
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGGSAIDDDWELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLKVCF
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	173	2.2.26 [Sep-21-2011]
P54120	353	Protein AIG1 OS=Arabidops	no	no	0.936	0.458	0.570	9e-48
O81025	463	Putative protein PHLOEM P	no	no	0.907	0.339	0.478	1e-41
Q9NUV9	329	GTPase IMAP family member	yes	no	0.872	0.458	0.397	3e-25
Q8K3K9	310	GTPase IMAP family member	no	no	0.786	0.438	0.378	3e-19
Q8K349	305	GTPase IMAP family member	no	no	0.832	0.472	0.406	6e-19
Q99JY3	219	GTPase IMAP family member	no	no	0.815	0.643	0.369	8e-19
Q8NHV1	300	GTPase IMAP family member	no	no	0.739	0.426	0.369	7e-18
Q5FVN6	304	GTPase IMAP family member	no	no	0.774	0.440	0.4	3e-17
P70224	277	GTPase IMAP family member	no	no	0.786	0.490	0.382	1e-16
Q8ND71	665	GTPase IMAP family member	no	no	0.820	0.213	0.346	2e-16

>sp|P54120|AIG1_ARATH Protein AIG1 OS=Arabidopsis thaliana GN=AIG1 PE=2 SV=1

 Score =  189 bits (480), Expect = 9e-48,   Method: Compositional matrix adjust.
 Identities = 93/163 (57%), Positives = 115/163 (70%), Gaps = 1/163 (0%)

Query: 8   DDWELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD 67
           D++  + P + V  +V VGRTGNGKSATGNSI+  + FKS+  SSGVT  C   + V  +
Sbjct: 32  DEFSASQP-HPVENIVLVGRTGNGKSATGNSIVRSKVFKSKTKSSGVTMECHAVKAVTPE 90

Query: 68  GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHS 127
           G ++NVIDTPGLFD S  +EF+G EIVKC+ LA  G+HAVL+  SVR+R  QEEE  L +
Sbjct: 91  GPILNVIDTPGLFDLSVSAEFIGKEIVKCLTLADGGLHAVLLVLSVRTRISQEEEMVLST 150

Query: 128 WQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLK 170
            Q LFG K+ DY+IVVFTGGD LED+  TLEDYLG   P  LK
Sbjct: 151 LQVLFGSKIVDYLIVVFTGGDVLEDDGMTLEDYLGDNMPDFLK 193

Arabidopsis thaliana (taxid: 3702)

>sp|O81025|P2A03_ARATH Putative protein PHLOEM PROTEIN 2-LIKE A3 OS=Arabidopsis thaliana GN=PP2A3 PE=4 SV=1

 Score =  169 bits (427), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 77/161 (47%), Positives = 114/161 (70%), Gaps = 4/161 (2%)

Query: 16  SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVID 75
           S  ++ +V VGRTGNGKS+TGN++LG + FKS+  + GVT  CEM R  ++DG ++NVID
Sbjct: 2   SEPIKNIVLVGRTGNGKSSTGNTLLGTKQFKSKNQAKGVTMICEMYRAAIQDGPIINVID 61

Query: 76  TPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK 135
           TPGL D     + +  EI+ C+ +A++GIHAVL+  S R R  +EEE+ +++ Q +FG +
Sbjct: 62  TPGLCDSFVPGDDISNEIINCLTMAEEGIHAVLLVLSARGRISKEEESTVNTLQCIFGSQ 121

Query: 136 VFDYMIVVFTGGDELEDNEETLEDYLGRECP----KPLKVC 172
           + DY IVVFTGGD+LE++++TL+DY    CP    K L++C
Sbjct: 122 ILDYCIVVFTGGDDLEEDDQTLDDYFRAGCPEFLTKVLRLC 162

Arabidopsis thaliana (taxid: 3702)

>sp|Q9NUV9|GIMA4_HUMAN GTPase IMAP family member 4 OS=Homo sapiens GN=GIMAP4 PE=1 SV=1

 Score =  114 bits (286), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 62/156 (39%), Positives = 93/156 (59%), Gaps = 5/156 (3%)

Query: 15  PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVI 74
           P N    +V VG+TG GKSATGNSILGR+ F S  ++  +T  CE + +  K+ ++V V+
Sbjct: 26  PRNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKETELV-VV 84

Query: 75  DTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK 134
           DTPG+FD    +     EI++CI L   G HA+L+   +  R+ +EE  A      +FG+
Sbjct: 85  DTPGIFDTEVPNAETSKEIIRCILLTSPGPHALLLVVPL-GRYTEEEHKATEKILKMFGE 143

Query: 135 KVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLK 170
           +   +MI++FT  D+L D    L DYL RE P+ ++
Sbjct: 144 RARSFMILIFTRKDDLGDT--NLHDYL-REAPEDIQ 176

May play a role in regulating lymphocyte apoptosis (By similarity). Exhibits intrisinic GTPase activity. Shows a higher affinity for GDP over GTP (about 12-fold higher), and binding shows an absolute requirement for magnesium.

Homo sapiens (taxid: 9606)

>sp|Q8K3K9|GIMA4_RAT GTPase IMAP family member 4 OS=Rattus norvegicus GN=Gimap4 PE=2 SV=1

 Score = 94.4 bits (233), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 53/140 (37%), Positives = 81/140 (57%), Gaps = 4/140 (2%)

Query: 22  VVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 81
           +V +G+TG GKS+TGNSILGR+AF S   +  +T  CE   ++  DG+ + V+DTPG+FD
Sbjct: 33  IVLLGKTGAGKSSTGNSILGRKAFLSGICAKSITKVCEKGVSIW-DGKELVVVDTPGIFD 91

Query: 82  FSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMI 141
                     EI +C+ L   G HA+L+   +   +  EE  A     ++F KK   +MI
Sbjct: 92  TEVPDADTQKEITRCVALTSPGPHALLLVIPLGC-YTVEEHKATRKLLSMFEKKARRFMI 150

Query: 142 VVFTGGDELEDNEETLEDYL 161
           ++ T  D+LED +  + +YL
Sbjct: 151 LLLTRKDDLEDTD--IHEYL 168

May play a role in regulating lymphocyte apoptosis. Exhibits intrisinic GTPase activity. Shows a higher affinity for GDP over GTP (about 12-fold higher), and binding shows an absolute requirement for magnesium.

Rattus norvegicus (taxid: 10116)

>sp|Q8K349|GIMA6_MOUSE GTPase IMAP family member 6 OS=Mus musculus GN=Gimap6 PE=2 SV=1

 Score = 93.6 bits (231), Expect = 6e-19,   Method: Compositional matrix adjust.
 Identities = 61/150 (40%), Positives = 89/150 (59%), Gaps = 6/150 (4%)

Query: 22  VVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 81
           ++ VG+TG+GKSATGNSILGR+AF+S+ S+  VT+T + + T   +G+ + VIDTP +F 
Sbjct: 106 LLLVGKTGSGKSATGNSILGRQAFESKISARPVTTTFQ-KGTREFEGKELEVIDTPDIFS 164

Query: 82  FSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMI 141
                E    +I  C  LA  G HAVL+   V  R+  E++A     Q +FG  +  Y I
Sbjct: 165 PQNQPEATAKKI--CDLLASPGPHAVLLVIQV-GRYTAEDQAVARCLQEIFGNTILAYTI 221

Query: 142 VVFTGGDELEDNEETLEDYLGRECPKPLKV 171
           +VFT  ++L   E +LE+Y+     K L V
Sbjct: 222 LVFTRKEDLA--EGSLEEYIQENNNKSLDV 249

Mus musculus (taxid: 10090)

>sp|Q99JY3|GIMA4_MOUSE GTPase IMAP family member 4 OS=Mus musculus GN=Gimap4 PE=1 SV=1

 Score = 93.2 bits (230), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 54/146 (36%), Positives = 82/146 (56%), Gaps = 5/146 (3%)

Query: 22  VVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 81
           +V +G+TG GKS+TGNSILG + F S   +  +T  CE +R    DG+ + V+DTPG+FD
Sbjct: 33  IVLLGKTGAGKSSTGNSILGEKVFNSGICAKSITKVCE-KRVSTWDGKELVVVDTPGIFD 91

Query: 82  FSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMI 141
                     EI + + L   G HA+L+   +  R+  EE  A      +FGK+   +MI
Sbjct: 92  TEVPDADTQREITRYVALTSPGPHALLLVVPL-GRYTVEEHKATQKILDMFGKQARRFMI 150

Query: 142 VVFTGGDELEDNEETLEDYLGRECPK 167
           ++ T  D+LED +  + +YL +  PK
Sbjct: 151 LLLTRKDDLEDTD--IHEYLEK-APK 173

Exhibits intrisinic GTPase activity. Shows a higher affinity for GDP over GTP (about 12-fold higher), and binding shows an absolute requirement for magnesium (By similarity). May play a role in regulating lymphocyte apoptosis.

Mus musculus (taxid: 10090)

>sp|Q8NHV1|GIMA7_HUMAN GTPase IMAP family member 7 OS=Homo sapiens GN=GIMAP7 PE=2 SV=1

 Score = 89.7 bits (221), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 48/130 (36%), Positives = 77/130 (59%), Gaps = 2/130 (1%)

Query: 22  VVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 81
           +V VG+TG+GKSAT N+ILG   F SR ++  VT  C+      + G+ + V+DTPGLFD
Sbjct: 11  IVLVGKTGSGKSATANTILGEEIFDSRIAAQAVTKNCQKASREWQ-GRDLLVVDTPGLFD 69

Query: 82  FSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMI 141
                +    EI +CI  +  G HA+++   +  R+ +EE+  +   + +FGK    +M+
Sbjct: 70  TKESLDTTCKEISRCIISSCPGPHAIVLVLLL-GRYTEEEQKTVALIKAVFGKSAMKHMV 128

Query: 142 VVFTGGDELE 151
           ++FT  +ELE
Sbjct: 129 ILFTRKEELE 138

Homo sapiens (taxid: 9606)

>sp|Q5FVN6|GIMA6_RAT GTPase IMAP family member 6 OS=Rattus norvegicus GN=Gimap6 PE=2 SV=1

 Score = 87.8 bits (216), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 56/140 (40%), Positives = 81/140 (57%), Gaps = 6/140 (4%)

Query: 22  VVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 81
           ++ VG+TG+GKSATGNSILGR+ F+S+ S+  VT   +     L +G+ + VIDTP +  
Sbjct: 105 LLLVGKTGSGKSATGNSILGRQVFESKISARPVTMAFQKGSREL-EGKELEVIDTPDILS 163

Query: 82  FSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMI 141
                E    +I  C  LA  G HAVL+   V  R+  E++ A    Q +FG  +  Y I
Sbjct: 164 PQNQPEATAKKI--CDILASPGPHAVLLVIQV-GRYTTEDQEAARCLQEIFGNGILAYTI 220

Query: 142 VVFTGGDELEDNEETLEDYL 161
           +VFT  +EL   E +LE+Y+
Sbjct: 221 LVFTRKEELA--EGSLEEYI 238

Rattus norvegicus (taxid: 10116)

>sp|P70224|GIMA1_MOUSE GTPase IMAP family member 1 OS=Mus musculus GN=Gimap1 PE=1 SV=3

 Score = 85.9 bits (211), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 54/141 (38%), Positives = 83/141 (58%), Gaps = 5/141 (3%)

Query: 22  VVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 81
           ++ VGRTG GKSATGNSILG++ F SR  +  VT +C +  + +  G  V V+DTP +F 
Sbjct: 6   LILVGRTGTGKSATGNSILGQKCFLSRLGAVPVTRSCTLA-SRMWAGWQVEVVDTPDIFS 64

Query: 82  FSAGSEFVG-MEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYM 140
                   G +E  +C  L+  G HA+L+   +  RF  ++  AL + + LFGK+V    
Sbjct: 65  SEIPRTDPGCVETARCFVLSAPGPHALLLVTQL-GRFTMQDSQALAAVKRLFGKQVMART 123

Query: 141 IVVFTGGDELEDNEETLEDYL 161
           +VVFT  ++L  +  +L+DY+
Sbjct: 124 VVVFTRQEDLAGD--SLQDYV 142

May regulate lymphocyte survival. Required for normal levels of mature T-lymphocytes and mature B-cells.

Mus musculus (taxid: 10090)

>sp|Q8ND71|GIMA8_HUMAN GTPase IMAP family member 8 OS=Homo sapiens GN=GIMAP8 PE=1 SV=2

 Score = 85.5 bits (210), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 54/156 (34%), Positives = 88/156 (56%), Gaps = 14/156 (8%)

Query: 22  VVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 81
           ++ +G+  +GKSATGN+ILG+  FKS+ S   V   C+ +  VL++ +VV VIDTP LF 
Sbjct: 13  LLLLGKCRSGKSATGNAILGKHVFKSKFSDQTVIKMCQRESWVLRERKVV-VIDTPDLFS 71

Query: 82  FSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMI 141
             A +E     I  C+ L+   +HA+L+  ++   F +E+E      Q +FG +   ++I
Sbjct: 72  SIACAEDKQRNIQHCLELSAPSLHALLLVIAI-GHFTREDEETAKGIQQVFGAEARRHII 130

Query: 142 VVFTGGDE---------LEDN---EETLEDYLGREC 165
           +VFT  D+         +E N   ++ ++DY GR C
Sbjct: 131 IVFTRKDDLGDDLLQDFIEKNKPLKQLVQDYEGRYC 166

Exerts an anti-apoptotic effect in the immune system and is involved in responses to infections.

Homo sapiens (taxid: 9606)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	173
255539412	339	aig1, putative [Ricinus communis] gi|223	0.982	0.501	0.864	2e-84
224146305	335	predicted protein [Populus trichocarpa]	0.982	0.507	0.858	7e-84
296089429	345	unnamed protein product [Vitis vinifera]	0.982	0.492	0.829	9e-82
225460273	340	PREDICTED: protein AIG1 [Vitis vinifera]	0.982	0.5	0.829	9e-82
147836179	566	hypothetical protein VITISV_037325 [Viti	0.982	0.300	0.823	1e-78
224136037	259	predicted protein [Populus trichocarpa]	0.907	0.606	0.866	2e-75
363814318	336	uncharacterized protein LOC100807910 [Gl	0.982	0.505	0.788	1e-73
356526433	350	PREDICTED: protein AIG1-like [Glycine ma	0.959	0.474	0.795	2e-73
4097585	344	NTGP4, partial [Nicotiana tabacum]	0.971	0.488	0.735	3e-70
388500386	335	unknown [Lotus japonicus]	0.976	0.504	0.729	4e-67

>gi|255539412|ref|XP_002510771.1| aig1, putative [Ricinus communis] gi|223551472|gb|EEF52958.1| aig1, putative [Ricinus communis]

 Score =  316 bits (810), Expect = 2e-84,   Method: Compositional matrix adjust.
 Identities = 147/170 (86%), Positives = 160/170 (94%)

Query: 1   MGGSAIDDDWELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 60
           MGGSAIDDDWELTSPSNGVRTVV VGRTGNGKSATGNS+LGR+AFKSRASSSGVTSTCE+
Sbjct: 1   MGGSAIDDDWELTSPSNGVRTVVLVGRTGNGKSATGNSLLGRKAFKSRASSSGVTSTCEL 60

Query: 61  QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQE 120
           Q+TV+ DGQV+NV+DTPGLFDFSA SEFVG EIVKCI +AKDGIHAVLV FSVR+RF QE
Sbjct: 61  QQTVITDGQVINVVDTPGLFDFSAESEFVGKEIVKCINMAKDGIHAVLVVFSVRTRFSQE 120

Query: 121 EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLK 170
           EEAAL S QTLFG K+FDYMIVVFTGGDELEDN+ETLEDYLGRECP+PL+
Sbjct: 121 EEAALRSLQTLFGSKIFDYMIVVFTGGDELEDNDETLEDYLGRECPQPLQ 170

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224146305|ref|XP_002325957.1| predicted protein [Populus trichocarpa] gi|222862832|gb|EEF00339.1| predicted protein [Populus trichocarpa]

 Score =  314 bits (805), Expect = 7e-84,   Method: Compositional matrix adjust.
 Identities = 146/170 (85%), Positives = 159/170 (93%)

Query: 1   MGGSAIDDDWELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 60
           MGGSA+DDDWE  SPSNGVRT+V VGRTGNGKSATGNSILGR+AFKSRASSSGVTS+CE+
Sbjct: 1   MGGSAMDDDWEFASPSNGVRTIVLVGRTGNGKSATGNSILGRKAFKSRASSSGVTSSCEL 60

Query: 61  QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQE 120
           QRTVL+DGQ++NVIDTPGLFDFSAGSEFVG EIVKCI +AKDGIHAVLV FSVR+RF QE
Sbjct: 61  QRTVLRDGQIINVIDTPGLFDFSAGSEFVGREIVKCINMAKDGIHAVLVVFSVRTRFSQE 120

Query: 121 EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLK 170
           EEAAL S QTLFG K+ DYMIVVFTGGDELEDN+ETLEDYLGRECP+PLK
Sbjct: 121 EEAALRSLQTLFGSKILDYMIVVFTGGDELEDNDETLEDYLGRECPQPLK 170

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296089429|emb|CBI39248.3| unnamed protein product [Vitis vinifera]

 Score =  307 bits (787), Expect = 9e-82,   Method: Compositional matrix adjust.
 Identities = 141/170 (82%), Positives = 159/170 (93%)

Query: 1   MGGSAIDDDWELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 60
           MGGS+IDD+WE T+PS+GVRT+V VGRTGNGKSATGNSILGR++FKSRASSSGVTSTCE+
Sbjct: 6   MGGSSIDDEWEFTAPSSGVRTLVLVGRTGNGKSATGNSILGRKSFKSRASSSGVTSTCEL 65

Query: 61  QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQE 120
           QRT+L+DGQ+VNVIDTPGLFD SA S+FVG EIVKCI LAKDG+HAVLV FSVR+RF +E
Sbjct: 66  QRTILRDGQIVNVIDTPGLFDLSAESDFVGKEIVKCIDLAKDGVHAVLVVFSVRTRFSKE 125

Query: 121 EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLK 170
           EEAALHS QTLFG K+ DYMIVVFTGGDELEDN+ETLEDYLGRECP+PLK
Sbjct: 126 EEAALHSLQTLFGSKIIDYMIVVFTGGDELEDNDETLEDYLGRECPEPLK 175

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225460273|ref|XP_002281996.1| PREDICTED: protein AIG1 [Vitis vinifera]

 Score =  307 bits (787), Expect = 9e-82,   Method: Compositional matrix adjust.
 Identities = 141/170 (82%), Positives = 159/170 (93%)

Query: 1   MGGSAIDDDWELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 60
           MGGS+IDD+WE T+PS+GVRT+V VGRTGNGKSATGNSILGR++FKSRASSSGVTSTCE+
Sbjct: 1   MGGSSIDDEWEFTAPSSGVRTLVLVGRTGNGKSATGNSILGRKSFKSRASSSGVTSTCEL 60

Query: 61  QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQE 120
           QRT+L+DGQ+VNVIDTPGLFD SA S+FVG EIVKCI LAKDG+HAVLV FSVR+RF +E
Sbjct: 61  QRTILRDGQIVNVIDTPGLFDLSAESDFVGKEIVKCIDLAKDGVHAVLVVFSVRTRFSKE 120

Query: 121 EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLK 170
           EEAALHS QTLFG K+ DYMIVVFTGGDELEDN+ETLEDYLGRECP+PLK
Sbjct: 121 EEAALHSLQTLFGSKIIDYMIVVFTGGDELEDNDETLEDYLGRECPEPLK 170

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147836179|emb|CAN68778.1| hypothetical protein VITISV_037325 [Vitis vinifera]

 Score =  297 bits (760), Expect = 1e-78,   Method: Compositional matrix adjust.
 Identities = 140/170 (82%), Positives = 158/170 (92%)

Query: 1   MGGSAIDDDWELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 60
           MGGS+IDD+WE T+PS+GVRT+V VGRTGNGKSATGNSILGR++FKSRASSSGVTSTCE+
Sbjct: 1   MGGSSIDDEWEFTAPSSGVRTLVLVGRTGNGKSATGNSILGRKSFKSRASSSGVTSTCEL 60

Query: 61  QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQE 120
           QRT+L+DGQ+VNVIDTPGLFD SA S+FVG EIVKCI LAKDG+HAVLV FSVR+RF +E
Sbjct: 61  QRTILRDGQIVNVIDTPGLFDLSAESDFVGKEIVKCIDLAKDGVHAVLVVFSVRTRFSKE 120

Query: 121 EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLK 170
           EEAALHS QTLFG K+ DYMIVVFTGGDELEDN+E LEDYLGRECP+PLK
Sbjct: 121 EEAALHSLQTLFGSKIIDYMIVVFTGGDELEDNDEXLEDYLGRECPEPLK 170

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224136037|ref|XP_002327365.1| predicted protein [Populus trichocarpa] gi|222835735|gb|EEE74170.1| predicted protein [Populus trichocarpa]

 Score =  286 bits (733), Expect = 2e-75,   Method: Compositional matrix adjust.
 Identities = 136/157 (86%), Positives = 146/157 (92%)

Query: 14  SPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNV 73
           SPSNGVRTVV VGRTGNGKSATGNSILG++AFKSRASSSGVTSTCE+Q TVL DGQ++NV
Sbjct: 2   SPSNGVRTVVLVGRTGNGKSATGNSILGKKAFKSRASSSGVTSTCELQSTVLGDGQIINV 61

Query: 74  IDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFG 133
           IDTPGLFDFSAGSEFVG EIVKCI +AKDGIHAVLV FSVR+RF QEEEAAL S QTLFG
Sbjct: 62  IDTPGLFDFSAGSEFVGREIVKCINMAKDGIHAVLVVFSVRTRFSQEEEAALRSLQTLFG 121

Query: 134 KKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLK 170
            K+ DYMIVVFTGGDELEDN+ETLEDYLGRECP+PLK
Sbjct: 122 SKILDYMIVVFTGGDELEDNDETLEDYLGRECPQPLK 158

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363814318|ref|NP_001242800.1| uncharacterized protein LOC100807910 [Glycine max] gi|255639255|gb|ACU19926.1| unknown [Glycine max]

 Score =  280 bits (717), Expect = 1e-73,   Method: Compositional matrix adjust.
 Identities = 134/170 (78%), Positives = 148/170 (87%)

Query: 1   MGGSAIDDDWELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 60
           MGGS+I DDWELTS SN  RTVV VGRTGNGKSATGN+ILGR+ FKSRASSS V+++CE+
Sbjct: 1   MGGSSIGDDWELTSSSNEGRTVVLVGRTGNGKSATGNTILGRKVFKSRASSSAVSTSCEL 60

Query: 61  QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQE 120
           Q T L DGQ+VNVIDTPGLFD S GSEFVG EIVKCI LAKDGIHAV+V FSVR+RF +E
Sbjct: 61  QTTELNDGQIVNVIDTPGLFDLSVGSEFVGKEIVKCIDLAKDGIHAVIVVFSVRTRFTEE 120

Query: 121 EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLK 170
           EE AL S QTLFG K+ DYMIVVFTGGDELE+N ETLEDYLGRECP+PLK
Sbjct: 121 EETALRSLQTLFGSKIVDYMIVVFTGGDELEENAETLEDYLGRECPEPLK 170

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356526433|ref|XP_003531822.1| PREDICTED: protein AIG1-like [Glycine max]

 Score =  279 bits (714), Expect = 2e-73,   Method: Compositional matrix adjust.
 Identities = 132/166 (79%), Positives = 149/166 (89%)

Query: 5   AIDDDWELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTV 64
           +IDDDWELTS SN VRTVV VGRTGNGKSATGN+ILGR+AFKSRASSS V+++CE++ T 
Sbjct: 19  SIDDDWELTSSSNEVRTVVLVGRTGNGKSATGNTILGRKAFKSRASSSAVSTSCELKTTE 78

Query: 65  LKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAA 124
           L +GQ+VNVIDTPGLFD SAGSEFVG EIVKCI LAKDGIHAV+V FSVR+RF +EEE A
Sbjct: 79  LNNGQIVNVIDTPGLFDLSAGSEFVGKEIVKCIDLAKDGIHAVIVVFSVRTRFTEEEETA 138

Query: 125 LHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLK 170
           L S QTLFG K+ DYMIVVFTGGDELE+N+ETLEDYLGRECP+PLK
Sbjct: 139 LRSLQTLFGSKIVDYMIVVFTGGDELEENDETLEDYLGRECPEPLK 184

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|4097585|gb|AAD09518.1| NTGP4, partial [Nicotiana tabacum]

 Score =  269 bits (687), Expect = 3e-70,   Method: Compositional matrix adjust.
 Identities = 125/170 (73%), Positives = 149/170 (87%), Gaps = 2/170 (1%)

Query: 1   MGGSAIDDDWELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 60
           MGGSAI DDWE    +NG RT+V VGRTGNGKSATGNSILGR+AF+S +SS+GVTSTCE+
Sbjct: 6   MGGSAISDDWEF--AANGARTLVLVGRTGNGKSATGNSILGRKAFRSMSSSAGVTSTCEL 63

Query: 61  QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQE 120
           QRTVL+DGQ+++VIDTPGLFDFSA  EF+G EIVKCI +AKDGIHAVLV  SVR+RF +E
Sbjct: 64  QRTVLEDGQILDVIDTPGLFDFSAEPEFIGNEIVKCINMAKDGIHAVLVVLSVRTRFSRE 123

Query: 121 EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLK 170
           E+AA+ S +  FG K+ DYM++VFTGGD+LEDNEETLEDYLGR+CP+PLK
Sbjct: 124 EQAAVQSLREFFGGKISDYMVLVFTGGDDLEDNEETLEDYLGRDCPEPLK 173

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|388500386|gb|AFK38259.1| unknown [Lotus japonicus]

 Score =  258 bits (660), Expect = 4e-67,   Method: Compositional matrix adjust.
 Identities = 124/170 (72%), Positives = 144/170 (84%), Gaps = 1/170 (0%)

Query: 1   MGGSAIDDDWELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 60
           MGG++ D+DWELTS +N VRTVV VGRTGNGKSATGNSILG++ FKSRASS GVTS+CE 
Sbjct: 1   MGGNSFDEDWELTSSANEVRTVVSVGRTGNGKSATGNSILGKKVFKSRASSVGVTSSCES 60

Query: 61  QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQE 120
             T+  DGQ VNVIDTPGLFD SAGS+FVG EIV CI LAKDGIHA++V FSVR+RF QE
Sbjct: 61  H-TIELDGQTVNVIDTPGLFDISAGSDFVGKEIVNCINLAKDGIHAIIVVFSVRTRFSQE 119

Query: 121 EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLK 170
           E  AL S QTLFG K++DY +VVFTGGDELE+ ++TLEDYLG +CP+PLK
Sbjct: 120 EATALRSLQTLFGDKIYDYTVVVFTGGDELEEEDQTLEDYLGCDCPEPLK 169

Source: Lotus japonicus

Species: Lotus japonicus

Genus: Lotus

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	173
TAIR|locus:2009041	342	AT1G33970 [Arabidopsis thalian	0.976	0.494	0.523	1.1e-41
TAIR|locus:2203817	311	AT1G33950 [Arabidopsis thalian	0.803	0.446	0.496	2.5e-33
TAIR|locus:2203807	353	AIG1 "AVRRPT2-INDUCED GENE 1"	0.803	0.393	0.517	3.7e-32
TAIR|locus:2203832	336	AT1G33930 [Arabidopsis thalian	0.942	0.485	0.447	4.7e-32
TAIR|locus:2140558	394	AT4G09940 [Arabidopsis thalian	0.658	0.289	0.578	6e-32
TAIR|locus:2203797	326	AT1G33900 [Arabidopsis thalian	0.982	0.521	0.405	1.4e-30
TAIR|locus:2203802	334	AT1G33890 [Arabidopsis thalian	0.803	0.416	0.460	7.9e-30
TAIR|locus:2039528	463	PP2-A3 "phloem protein 2-A3" [	0.815	0.304	0.420	7.7e-28
TAIR|locus:2140548	335	AT4G09930 [Arabidopsis thalian	0.658	0.340	0.535	1.2e-26
TAIR|locus:2140568	336	AT4G09950 [Arabidopsis thalian	0.658	0.339	0.5	6.6e-26

TAIR|locus:2009041 AT1G33970 [Arabidopsis thaliana (taxid:3702)]

 Score = 442 (160.7 bits), Expect = 1.1e-41, P = 1.1e-41
 Identities = 89/170 (52%), Positives = 109/170 (64%)

Query:     1 MGGSAIDDDWELTSPSXXXXXXXXXXXXXXXKSATGNSILGRRAFKSRASSSGVTSTCEM 60
             MGG  ++DDWE  S S               KSATGNSILGR+AF+SRA + GVTSTCE 
Sbjct:     6 MGGDMMEDDWEFASSSNPKRTLVLVGRTGNGKSATGNSILGRKAFRSRARTVGVTSTCES 65

Query:    61 QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQE 120
             QR V +DG ++NV+DTPGLFD S  ++F+G EIV+CI LA+DGIHA+L+ FSVR R  +E
Sbjct:    66 QRVVQEDGDIINVVDTPGLFDLSTAADFIGKEIVRCISLAEDGIHAILLVFSVR-RLAEE 124

Query:   121 EEAALHSWQTLFGKKVFDYMIVVFTGGXXXXXXXXXXXXXXGRECPKPLK 170
             E+  L   Q LFG K+ DYMIVVFTGG                 CP+ LK
Sbjct:   125 EQTVLSFLQALFGSKIADYMIVVFTGGDELEENEETLEEYLADYCPEFLK 174

GO:0005525 "GTP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0009617 "response to bacterium" evidence=ISS

GO:0006897 "endocytosis" evidence=RCA

TAIR|locus:2203817 AT1G33950 [Arabidopsis thaliana (taxid:3702)]

 Score = 363 (132.8 bits), Expect = 2.5e-33, P = 2.5e-33
 Identities = 69/139 (49%), Positives = 92/139 (66%)

Query:    32 KSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGM 91
             KSATGNS++G++ F S+A +SGVT  C+    V KDG  +NVIDTPGLFD S  +E++  
Sbjct:    29 KSATGNSLIGKKVFASKAHASGVTMKCQTHGVVTKDGHKINVIDTPGLFDLSVSAEYISK 88

Query:    92 EIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGXXXX 151
             EIV+C+ LA+ GIHAVL+  S R+R  QEEE  L + Q LFG ++ DY++VVFTGG    
Sbjct:    89 EIVRCLTLAEGGIHAVLLVLSARTRITQEEENTLRTLQALFGSQILDYVVVVFTGGDVLE 148

Query:   152 XXXXXXXXXXGRECPKPLK 170
                       GR+CP  +K
Sbjct:   149 ECKETLEDYLGRDCPTFIK 167

GO:0005525 "GTP binding" evidence=IEA

GO:0009617 "response to bacterium" evidence=ISS

TAIR|locus:2203807 AIG1 "AVRRPT2-INDUCED GENE 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 352 (129.0 bits), Expect = 3.7e-32, P = 3.7e-32
 Identities = 72/139 (51%), Positives = 88/139 (63%)

Query:    32 KSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGM 91
             KSATGNSI+  + FKS+  SSGVT  C   + V  +G ++NVIDTPGLFD S  +EF+G 
Sbjct:    55 KSATGNSIVRSKVFKSKTKSSGVTMECHAVKAVTPEGPILNVIDTPGLFDLSVSAEFIGK 114

Query:    92 EIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGXXXX 151
             EIVKC+ LA  G+HAVL+  SVR+R  QEEE  L + Q LFG K+ DY+IVVFTGG    
Sbjct:   115 EIVKCLTLADGGLHAVLLVLSVRTRISQEEEMVLSTLQVLFGSKIVDYLIVVFTGGDVLE 174

Query:   152 XXXXXXXXXXGRECPKPLK 170
                       G   P  LK
Sbjct:   175 DDGMTLEDYLGDNMPDFLK 193

GO:0005525 "GTP binding" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

GO:0009617 "response to bacterium" evidence=IEP;ISS

GO:0006897 "endocytosis" evidence=RCA

GO:0009627 "systemic acquired resistance" evidence=RCA

GO:0009697 "salicylic acid biosynthetic process" evidence=RCA

GO:0009863 "salicylic acid mediated signaling pathway" evidence=RCA

GO:0031348 "negative regulation of defense response" evidence=RCA

GO:0045087 "innate immune response" evidence=RCA

TAIR|locus:2203832 AT1G33930 [Arabidopsis thaliana (taxid:3702)]

 Score = 351 (128.6 bits), Expect = 4.7e-32, P = 4.7e-32
 Identities = 73/163 (44%), Positives = 97/163 (59%)

Query:     8 DDWELTSPSXXXXXXXXXXXXXXXKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD 67
             D WEL S S               KSATGNSI+GR+ F+S+  + GVT+ C+  R V  D
Sbjct:    24 DRWELPSASEPVKNVVLVGRTGNGKSATGNSIIGRKVFESKYQAVGVTTRCKTFRAVTPD 83

Query:    68 GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHS 127
             G ++NVIDTPGLFD +  +EF+  EIV C+ LA++G+HAV++  S+ +R  QEEE AL +
Sbjct:    84 GPIINVIDTPGLFDLAVSAEFISKEIVNCLILAREGLHAVVLVLSLSTRISQEEENALCT 143

Query:   128 WQTLFGKKVFDYMIVVFTGGXXXXXXXXXXXXXXGRECPKPLK 170
              Q LFG K+ DY+IVVFT G                 CP+ LK
Sbjct:   144 LQMLFGGKIVDYLIVVFTCGDMLEDRNMTLEDYLSNGCPEFLK 186

GO:0005525 "GTP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0009617 "response to bacterium" evidence=ISS

TAIR|locus:2140558 AT4G09940 [Arabidopsis thaliana (taxid:3702)]

 Score = 350 (128.3 bits), Expect = 6.0e-32, P = 6.0e-32
 Identities = 66/114 (57%), Positives = 89/114 (78%)

Query:    32 KSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGM 91
             KSATGNSILGR+AFKS+  +SGVT+ CE+Q + L +GQ++NVIDTPGLF  S  +EF   
Sbjct:    60 KSATGNSILGRKAFKSKGRASGVTTACELQSSTLPNGQIINVIDTPGLFSLSPSTEFTCR 119

Query:    92 EIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFT 145
             EI++C  L K+GI AVL+ FS+++R  +EE++AL + + LFG K+ DYMIVVFT
Sbjct:   120 EILRCFSLTKEGIDAVLLVFSLKNRLTEEEKSALFALKILFGSKIVDYMIVVFT 173

GO:0005525 "GTP binding" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

GO:0009617 "response to bacterium" evidence=ISS

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0006897 "endocytosis" evidence=RCA

TAIR|locus:2203797 AT1G33900 [Arabidopsis thaliana (taxid:3702)]

 Score = 337 (123.7 bits), Expect = 1.4e-30, P = 1.4e-30
 Identities = 69/170 (40%), Positives = 97/170 (57%)

Query:     1 MGGSAIDDDWELTSPSXXXXXXXXXXXXXXXKSATGNSILGRRAFKSRASSSGVTSTCEM 60
             M G     D  L S S               KSATGNS++G++ F+S   ++GVT  CE 
Sbjct:     1 MAGLEDTTDLRLPSASEPIKNIVLVGRTGNGKSATGNSLIGKQVFRSETRATGVTMKCET 60

Query:    61 QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQE 120
                V   G  +NVIDTPGLFD S  +E++  EI+ C+ LA+DG+HAV++  SVR+R  QE
Sbjct:    61 CVAVTPCGTGINVIDTPGLFDLSVSAEYLSQEIINCLVLAEDGLHAVVLVLSVRTRISQE 120

Query:   121 EEAALHSWQTLFGKKVFDYMIVVFTGGXXXXXXXXXXXXXXGRECPKPLK 170
             EEA L++ Q +FG ++ DY++V+FTGG               + CP+ LK
Sbjct:   121 EEATLNTLQVIFGSQIIDYLVVLFTGGDELEANNMTLDDYLSKGCPEFLK 170

GO:0005525 "GTP binding" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

GO:0009617 "response to bacterium" evidence=ISS

GO:0006897 "endocytosis" evidence=RCA

TAIR|locus:2203802 AT1G33890 [Arabidopsis thaliana (taxid:3702)]

 Score = 330 (121.2 bits), Expect = 7.9e-30, P = 7.9e-30
 Identities = 64/139 (46%), Positives = 87/139 (62%)

Query:    32 KSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGM 91
             KSATGNS++G+  F S A ++GVT TC+  + V   G  +NVIDTPGLFD S  +EF+  
Sbjct:    26 KSATGNSLIGKDVFVSEAKATGVTKTCQTYKAVTPGGSRINVIDTPGLFDLSVSAEFISK 85

Query:    92 EIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGXXXX 151
             EI+ C+ LA+ G+H V++  SVR+R  QEEE  L + Q LFG ++ DY+IV+FTGG    
Sbjct:    86 EIINCLRLAEGGLHVVVLVLSVRTRITQEEENTLSTLQVLFGNEILDYLIVLFTGGDELE 145

Query:   152 XXXXXXXXXXGRECPKPLK 170
                        + CP  LK
Sbjct:   146 ANNQTLDDYFHQGCPYFLK 164

GO:0005525 "GTP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0009617 "response to bacterium" evidence=ISS

GO:0006897 "endocytosis" evidence=RCA

TAIR|locus:2039528 PP2-A3 "phloem protein 2-A3" [Arabidopsis thaliana (taxid:3702)]

 Score = 312 (114.9 bits), Expect = 7.7e-28, P = 7.7e-28
 Identities = 61/145 (42%), Positives = 89/145 (61%)

Query:    32 KSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGM 91
             KS+TGN++LG + FKS+  + GVT  CEM R  ++DG ++NVIDTPGL D     + +  
Sbjct:    18 KSSTGNTLLGTKQFKSKNQAKGVTMICEMYRAAIQDGPIINVIDTPGLCDSFVPGDDISN 77

Query:    92 EIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGXXXX 151
             EI+ C+ +A++GIHAVL+  S R R  +EEE+ +++ Q +FG ++ DY IVVFTGG    
Sbjct:    78 EIINCLTMAEEGIHAVLLVLSARGRISKEEESTVNTLQCIFGSQILDYCIVVFTGGDDLE 137

Query:   152 XXXXXXXXXXGRECP----KPLKVC 172
                          CP    K L++C
Sbjct:   138 EDDQTLDDYFRAGCPEFLTKVLRLC 162

GO:0005525 "GTP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0009617 "response to bacterium" evidence=ISS

GO:0030246 "carbohydrate binding" evidence=ISS

GO:0006826 "iron ion transport" evidence=RCA

GO:0006897 "endocytosis" evidence=RCA

GO:0010106 "cellular response to iron ion starvation" evidence=RCA

GO:0010167 "response to nitrate" evidence=RCA

GO:0015706 "nitrate transport" evidence=RCA

TAIR|locus:2140548 AT4G09930 [Arabidopsis thaliana (taxid:3702)]

 Score = 300 (110.7 bits), Expect = 1.2e-26, P = 1.2e-26
 Identities = 61/114 (53%), Positives = 80/114 (70%)

Query:    32 KSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGM 91
             KSATGNSIL   AFKS+  ++ VT  CE++ T   +GQ++NVIDTPGLF     +E    
Sbjct:    39 KSATGNSILRSEAFKSKGQAAAVTKECELKSTKRPNGQIINVIDTPGLFSLFPSNESTIR 98

Query:    92 EIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFT 145
             EI+KC  LAK+GI AVL+ FS+RSR  +EE++     +TLFG  +FDY+IVVFT
Sbjct:    99 EILKCSHLAKEGIDAVLMVFSLRSRLTEEEKSVPFVLKTLFGDSIFDYLIVVFT 152

GO:0005525 "GTP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0009617 "response to bacterium" evidence=ISS

GO:0006897 "endocytosis" evidence=RCA

TAIR|locus:2140568 AT4G09950 [Arabidopsis thaliana (taxid:3702)]

 Score = 293 (108.2 bits), Expect = 6.6e-26, P = 6.6e-26
 Identities = 57/114 (50%), Positives = 83/114 (72%)

Query:    32 KSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGM 91
             KSATGNSILG+  F+S+A    +T  C++ ++ L +G  +NVIDTPGLF  S+ ++F   
Sbjct:    30 KSATGNSILGKTMFQSKARGKFITKECKLHKSKLPNGLTINVIDTPGLFSASSTTDFTIR 89

Query:    92 EIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFT 145
             EIV+C+ LAK GI AVL+ FS+R+R  +EE++ L + + LFG ++ DY+IVVFT
Sbjct:    90 EIVRCLLLAKGGIDAVLLVFSLRNRLTEEEQSTLRTLKILFGSQIVDYIIVVFT 143

GO:0005525 "GTP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0009617 "response to bacterium" evidence=ISS

GO:0006897 "endocytosis" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	173
pfam04548	211	pfam04548, AIG1, AIG1 family	8e-71
cd01852	201	cd01852, AIG1, AvrRpt2-Induced Gene 1 (AIG1)	1e-64
cd01853	248	cd01853, Toc34_like, Translocon at the Outer-envel	2e-10
TIGR00993	763	TIGR00993, 3a0901s04IAP86, chloroplast protein imp	1e-07
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	1e-06
cd00880	161	cd00880, Era_like, E	2e-05
cd09912	180	cd09912, DLP_2, Dynamin-like protein including dyn	3e-05
TIGR00991	313	TIGR00991, 3a0901s02IAP34, GTP-binding protein (Ch	5e-05
pfam01926	117	pfam01926, MMR_HSR1, 50S ribosome-binding GTPase	5e-05
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	0.001
pfam00735	280	pfam00735, Septin, Septin	0.001
cd01850	275	cd01850, CDC_Septin, CDC/Septin GTPase family	0.002

>gnl|CDD|218141 pfam04548, AIG1, AIG1 family

 Score =  212 bits (542), Expect = 8e-71
 Identities = 83/151 (54%), Positives = 110/151 (72%), Gaps = 4/151 (2%)

Query: 20  RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL 79
             +V VG+TGNGKSATGNSILGR+AF+S+  + GVT TC++      DG+++NVIDTPGL
Sbjct: 1   LRIVLVGKTGNGKSATGNSILGRKAFESKLRAQGVTKTCQLVSRTW-DGRIINVIDTPGL 59

Query: 80  FDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDY 139
           FD S  ++F+  EI++C+ LA+ G HAVL+  S+  RF +EEE AL + Q LFG K+ DY
Sbjct: 60  FDLSVSNDFISKEIIRCLLLAEPGPHAVLLVLSLG-RFTEEEEQALRTLQELFGSKILDY 118

Query: 140 MIVVFTGGDELEDNEETLEDYLGRECPKPLK 170
           MIVVFT  D+LED+   L+DYL   CP+ LK
Sbjct: 119 MIVVFTRKDDLEDDS--LDDYLSDGCPEFLK 147

Arabidopsis protein AIG1 appears to be involved in plant resistance to bacteria. Length = 211

>gnl|CDD|206651 cd01852, AIG1, AvrRpt2-Induced Gene 1 (AIG1)

 Score =  196 bits (501), Expect = 1e-64
 Identities = 77/147 (52%), Positives = 101/147 (68%), Gaps = 4/147 (2%)

Query: 20  RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL 79
             +V VG+TGNGKSATGN+ILGR+ F+S+ S+SGVT TC+ +  V  DG+ VNVIDTPGL
Sbjct: 1   LRLVLVGKTGNGKSATGNTILGRKVFESKLSASGVTKTCQKESAVW-DGRRVNVIDTPGL 59

Query: 80  FDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDY 139
           FD S   E +  EI++C+ L+  G HA L+   +  RF +EEE A+   Q LFG+KV D+
Sbjct: 60  FDTSVSPEQLSKEIIRCLSLSAPGPHAFLLVVPLG-RFTEEEEQAVEELQELFGEKVLDH 118

Query: 140 MIVVFTGGDELEDNEETLEDYLGRECP 166
            IV+FT GD+LE    +LEDYL   C 
Sbjct: 119 TIVLFTRGDDLEG--GSLEDYLEDSCE 143

This group represents Arabidoposis protein AIG1 (avrRpt2-induced gene 1) that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins). Length = 201

>gnl|CDD|206652 cd01853, Toc34_like, Translocon at the Outer-envelope membrane of Chloroplasts 34-like (Toc34-like)

 Score = 57.3 bits (139), Expect = 2e-10
 Identities = 28/66 (42%), Positives = 37/66 (56%), Gaps = 2/66 (3%)

Query: 21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF 80
          T++ +G+TG GKS+T NSI G R     A  S      E+ RTV  DG  +N+IDTPGL 
Sbjct: 33 TILVLGKTGVGKSSTINSIFGERKVSVSAFQSETLRPREVSRTV--DGFKLNIIDTPGLL 90

Query: 81 DFSAGS 86
          +     
Sbjct: 91 ESQDQR 96

The Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts) family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon. Length = 248

>gnl|CDD|233224 TIGR00993, 3a0901s04IAP86, chloroplast protein import component Toc86/159, G and M domains

 Score = 50.0 bits (119), Expect = 1e-07
 Identities = 26/59 (44%), Positives = 35/59 (59%), Gaps = 2/59 (3%)

Query: 21  TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL 79
            ++ +G++G GKSAT NSI G   F + A   G TS  E++  V   G  + VIDTPGL
Sbjct: 120 NILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTTSVQEIEGLV--QGVKIRVIDTPGL 176

The long precursor of the 86K protein originally described is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation. The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M [Transport and binding proteins, Amino acids, peptides and amines]. Length = 763

>gnl|CDD|206648 cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases)

 Score = 45.9 bits (109), Expect = 1e-06
 Identities = 42/150 (28%), Positives = 64/150 (42%), Gaps = 12/150 (8%)

Query: 23  VFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQV-VNVIDTPGLFD 81
           V VGR G GKS+  N++LG       +   G T   ++    L  G+V + ++DTPGL +
Sbjct: 1   VVVGRGGVGKSSLLNALLGGE-VGEVSDVPGTTRDPDVYVKELDKGKVKLVLVDTPGLDE 59

Query: 82  FSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMI 141
           F       G+   +   L   G   +L+      R   EE+A L   + L  + +   +I
Sbjct: 60  FG------GLGREELARLLLRGADLILLVVDSTDR-ESEEDAKLLILRRLRKEGI--PII 110

Query: 142 VVFTGGDELEDNEETLEDYLGRECPKPLKV 171
           +V    D L +  E  E     E  K L V
Sbjct: 111 LVGNKID-LLEEREVEELLRLEELAKILGV 139

Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulates initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Members of the Ras superfamily are identified by the GTP binding site, which is made up of five characteristic sequence motifs, and the switch I and switch II regions. Length = 161

>gnl|CDD|206646 cd00880, Era_like, E

 Score = 42.2 bits (100), Expect = 2e-05
 Identities = 34/133 (25%), Positives = 48/133 (36%), Gaps = 11/133 (8%)

Query: 23  VFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF 82
              GR   GKS+  N++LG+      +   G T     +   L     V +IDTPGL + 
Sbjct: 1   AIFGRPNVGKSSLLNALLGQNVGIV-SPIPGTTRDPVRKEWELLPLGPVVLIDTPGLDEE 59

Query: 83  SAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIV 142
                    E  +      D    VL    V S     EE A        GK V    ++
Sbjct: 60  GGLGRERVEEARQVA----DRADLVL--LVVDSDLTPVEEEAKLGLLRERGKPV----LL 109

Query: 143 VFTGGDELEDNEE 155
           V    D + ++EE
Sbjct: 110 VLNKIDLVPESEE 122

coli Ras-like protein (Era)-like GTPase. The Era (E. coli Ras-like protein)-like family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngB), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Length = 161

>gnl|CDD|206739 cd09912, DLP_2, Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins

 Score = 42.1 bits (100), Expect = 3e-05
 Identities = 32/141 (22%), Positives = 47/141 (33%), Gaps = 27/141 (19%)

Query: 21  TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF 80
            +  VG    GKS   N++LG     +    +  T+   + R  L  G  V ++DTPGL 
Sbjct: 2   LLAVVGEFSAGKSTLLNALLGEEVLPT--GVTPTTAVITVLRYGLLKG--VVLVDTPGL- 56

Query: 81  DFSAGSEFVGME------IVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK 134
                S            + +          AV+   S      + E   L       GK
Sbjct: 57  ----NSTIEHHTEITESFLPRA--------DAVIFVLSADQPLTESEREFLKEILKWSGK 104

Query: 135 KVFDYMIVVFTGGDELEDNEE 155
           K+F     V    D L + E 
Sbjct: 105 KIF----FVLNKIDLLSEEEL 121

The dynamin family of large mechanochemical GTPases includes the classical dynamins and dynamin-like proteins (DLPs) that are found throughout the Eukarya. This family also includes bacterial DLPs. These proteins catalyze membrane fission during clathrin-mediated endocytosis. Dynamin consists of five domains; an N-terminal G domain that binds and hydrolyzes GTP, a middle domain (MD) involved in self-assembly and oligomerization, a pleckstrin homology (PH) domain responsible for interactions with the plasma membrane, GED, which is also involved in self-assembly, and a proline arginine rich domain (PRD) that interacts with SH3 domains on accessory proteins. To date, three vertebrate dynamin genes have been identified; dynamin 1, which is brain specific, mediates uptake of synaptic vesicles in presynaptic terminals; dynamin-2 is expressed ubiquitously and similarly participates in membrane fission; mutations in the MD, PH and GED domains of dynamin 2 have been linked to human diseases such as Charcot-Marie-Tooth peripheral neuropathy and rare forms of centronuclear myopathy. Dynamin 3 participates in megakaryocyte progenitor amplification, and is also involved in cytoplasmic enlargement and the formation of the demarcation membrane system. This family also includes mitofusins (MFN1 and MFN2 in mammals) that are involved in mitochondrial fusion. Dynamin oligomerizes into helical structures around the neck of budding vesicles in a GTP hydrolysis-dependent manner. Length = 180

>gnl|CDD|130064 TIGR00991, 3a0901s02IAP34, GTP-binding protein (Chloroplast Envelope Protein Translocase)

 Score = 42.2 bits (99), Expect = 5e-05
 Identities = 24/61 (39%), Positives = 35/61 (57%), Gaps = 2/61 (3%)

Query: 21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF 80
          T++ +G+ G GKS+T NSI+G R     A  S       + RT  + G  +N+IDTPGL 
Sbjct: 40 TILVMGKGGVGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRT--RAGFTLNIIDTPGLI 97

Query: 81 D 81
          +
Sbjct: 98 E 98

[Transport and binding proteins, Nucleosides, purines and pyrimidines]. Length = 313

>gnl|CDD|216791 pfam01926, MMR_HSR1, 50S ribosome-binding GTPase

 Score = 40.4 bits (95), Expect = 5e-05
 Identities = 20/71 (28%), Positives = 33/71 (46%), Gaps = 3/71 (4%)

Query: 21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF 80
           V  VGR   GKS   N++ G +     +   G T   +    VL  G+ + ++DTPGL 
Sbjct: 1  RVALVGRPNVGKSTLINALTGAKVAIV-SDYPGTTR--DPILGVLGLGRQIILVDTPGLI 57

Query: 81 DFSAGSEFVGM 91
          + ++  + V  
Sbjct: 58 EGASEGKGVEG 68

The full-length GTPase protein is required for the complete activity of the protein of interacting with the 50S ribosome and binding of both adenine and guanine nucleotides, with a preference for guanine nucleotide. Length = 117

>gnl|CDD|232886 TIGR00231, small_GTP, small GTP-binding protein domain

 Score = 37.4 bits (87), Expect = 0.001
 Identities = 17/64 (26%), Positives = 24/64 (37%), Gaps = 2/64 (3%)

Query: 22 VVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQV-VNVIDTPGLF 80
          +V VG    GKS   N +LG +   +     G T                 N++DT G  
Sbjct: 4  IVIVGDPNVGKSTLLNRLLGNKISIT-EYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQE 62

Query: 81 DFSA 84
          D+ A
Sbjct: 63 DYDA 66

Proteins with a small GTP-binding domain recognized by this model include Ras, RhoA, Rab11, translation elongation factor G, translation initiation factor IF-2, tetratcycline resistance protein TetM, CDC42, Era, ADP-ribosylation factors, tdhF, and many others. In some proteins the domain occurs more than once.This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model [Unknown function, General]. Length = 162

>gnl|CDD|201420 pfam00735, Septin, Septin

 Score = 37.7 bits (88), Expect = 0.001
 Identities = 17/71 (23%), Positives = 29/71 (40%), Gaps = 8/71 (11%)

Query: 21 TVVFVGRTGNGKSATGNSILGR-----RAFKSRASSSGVTSTCEMQRTVLKDGQV---VN 72
          T++ VG +G GK+   N++        R     +     T   +     +++  V   + 
Sbjct: 6  TLMVVGESGLGKTTLINTLFLTDLIPERGIPGPSEKIKKTVEIKATTVEIEEDGVKLNLT 65

Query: 73 VIDTPGLFDFS 83
          VIDTPG  D  
Sbjct: 66 VIDTPGFGDAI 76

Members of this family include CDC3, CDC10, CDC11 and CDC12/Septin. Members of this family bind GTP. As regards the septins, these are polypeptides of 30-65kDa with three characteristic GTPase motifs (G-1, G-3 and G-4) that are similar to those of the Ras family. The G-4 motif is strictly conserved with a unique septin consensus of AKAD. Most septins are thought to have at least one coiled-coil region, which in some cases is necessary for intermolecular interactions that allow septins to polymerise to form rod-shaped complexes. In turn, these are arranged into tandem arrays to form filaments. They are multifunctional proteins, with roles in cytokinesis, sporulation, germ cell development, exocytosis and apoptosis. Length = 280

>gnl|CDD|206649 cd01850, CDC_Septin, CDC/Septin GTPase family

 Score = 37.1 bits (87), Expect = 0.002
 Identities = 22/70 (31%), Positives = 37/70 (52%), Gaps = 8/70 (11%)

Query: 21 TVVFVGRTGNGKSATGNSILGRRAFKSR---ASSSGVTSTCEMQRT--VLKDGQV---VN 72
           ++ VG +G GKS   N++ G + + S+   A    +T T E++ +   L++  V   + 
Sbjct: 6  NIMVVGESGLGKSTFINTLFGTKLYPSKYPPAPGEHITKTVEIKISKAELEENGVKLKLT 65

Query: 73 VIDTPGLFDF 82
          VIDTPG  D 
Sbjct: 66 VIDTPGFGDN 75

Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities. Length = 275

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	173
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	99.96
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.95
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	99.92
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	99.89
COG1159	298	Era GTPase [General function prediction only]	99.88
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	99.87
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.83
COG1160	444	Predicted GTPases [General function prediction onl	99.82
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.8
PRK00089	292	era GTPase Era; Reviewed	99.79
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.79
COG1084	346	Predicted GTPase [General function prediction only	99.78
COG0218	200	Predicted GTPase [General function prediction only	99.77
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.76
PRK15494	339	era GTPase Era; Provisional	99.76
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	99.76
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.75
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.75
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.75
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.75
PRK12298	390	obgE GTPase CgtA; Reviewed	99.75
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.75
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.74
PRK12299	335	obgE GTPase CgtA; Reviewed	99.74
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.74
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.73
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.73
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.73
PRK03003	472	GTP-binding protein Der; Reviewed	99.73
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.73
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.73
PRK00093	435	GTP-binding protein Der; Reviewed	99.73
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.73
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.72
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.72
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.72
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.72
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.72
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.72
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.71
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.71
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.71
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.71
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.71
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.71
PRK12297	424	obgE GTPase CgtA; Reviewed	99.71
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.71
PRK00093	435	GTP-binding protein Der; Reviewed	99.7
COG1160	444	Predicted GTPases [General function prediction onl	99.7
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.7
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.7
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.7
PRK12296	500	obgE GTPase CgtA; Reviewed	99.7
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.7
PRK11058	426	GTPase HflX; Provisional	99.7
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.7
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.7
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.7
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.7
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.7
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.69
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.69
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.69
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.69
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.69
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.69
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.69
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.69
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.69
PLN03110	216	Rab GTPase; Provisional	99.69
COG3596	296	Predicted GTPase [General function prediction only	99.69
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.69
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.69
COG0486	454	ThdF Predicted GTPase [General function prediction	99.69
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.68
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.68
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.68
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.68
PLN03118	211	Rab family protein; Provisional	99.68
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.68
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.68
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.68
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.68
cd00881	189	GTP_translation_factor GTP translation factor fami	99.68
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.67
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.67
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.67
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.67
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.67
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.67
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.67
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.67
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.67
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.67
PRK03003	472	GTP-binding protein Der; Reviewed	99.67
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.67
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.67
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	99.66
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.66
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.66
PTZ00369	189	Ras-like protein; Provisional	99.66
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.66
COG2262	411	HflX GTPases [General function prediction only]	99.66
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	99.66
PTZ00133	182	ADP-ribosylation factor; Provisional	99.66
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.66
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.66
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.66
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.66
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.66
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.66
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.66
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.66
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.66
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.65
PLN00223	181	ADP-ribosylation factor; Provisional	99.65
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.65
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.65
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.65
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.65
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.65
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.65
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.65
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.65
PLN03108	210	Rab family protein; Provisional	99.64
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.64
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.64
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.64
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.64
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.64
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.64
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.64
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	99.64
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.64
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	99.64
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.64
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.63
PRK04213	201	GTP-binding protein; Provisional	99.63
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.63
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.63
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.63
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.63
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.63
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.63
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.62
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	99.62
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.62
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.62
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.62
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.62
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.62
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.62
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.62
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.62
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.61
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.61
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.61
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.61
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.61
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	99.61
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.61
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.6
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.6
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.6
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.6
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	99.6
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	99.59
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.59
PLN00023	334	GTP-binding protein; Provisional	99.59
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.59
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	99.59
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.58
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.58
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.58
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.58
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.58
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	99.58
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.57
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.57
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.57
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.57
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.56
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.56
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	99.56
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.56
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	99.56
CHL00071	409	tufA elongation factor Tu	99.56
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.56
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.56
COG0536	369	Obg Predicted GTPase [General function prediction	99.55
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.54
PRK05306	787	infB translation initiation factor IF-2; Validated	99.54
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	99.54
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	99.54
PRK12317	425	elongation factor 1-alpha; Reviewed	99.54
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.53
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.53
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.53
CHL00189	742	infB translation initiation factor 2; Provisional	99.52
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	99.52
COG1100	219	GTPase SAR1 and related small G proteins [General	99.52
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	99.52
COG5019	373	CDC3 Septin family protein [Cell division and chro	99.51
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.51
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	99.51
PRK12735	396	elongation factor Tu; Reviewed	99.5
PRK09866	741	hypothetical protein; Provisional	99.5
KOG1547	336	consensus Septin CDC10 and related P-loop GTPases	99.5
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.49
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.49
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.49
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	99.48
PRK12739	691	elongation factor G; Reviewed	99.48
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.48
PRK12736	394	elongation factor Tu; Reviewed	99.47
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.47
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.47
PRK10218	607	GTP-binding protein; Provisional	99.47
PRK00007	693	elongation factor G; Reviewed	99.47
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.47
KOG2655	366	consensus Septin family protein (P-loop GTPase) [C	99.47
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	99.47
PRK00049	396	elongation factor Tu; Reviewed	99.46
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.46
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.45
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.45
PRK04004	586	translation initiation factor IF-2; Validated	99.45
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.45
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.45
PLN03127	447	Elongation factor Tu; Provisional	99.45
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.44
KOG0394	210	consensus Ras-related GTPase [General function pre	99.44
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.44
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	99.44
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.44
COG2229	187	Predicted GTPase [General function prediction only	99.43
PRK13351	687	elongation factor G; Reviewed	99.43
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.43
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.42
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.42
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.42
PLN03126	478	Elongation factor Tu; Provisional	99.41
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.4
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.39
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.39
KOG0395	196	consensus Ras-related GTPase [General function pre	99.37
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	99.37
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	99.35
PRK05433	600	GTP-binding protein LepA; Provisional	99.34
PTZ00141	446	elongation factor 1- alpha; Provisional	99.32
PTZ00416	836	elongation factor 2; Provisional	99.32
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.3
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	99.3
PTZ00258	390	GTP-binding protein; Provisional	99.3
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	99.29
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.29
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.29
PLN00116	843	translation elongation factor EF-2 subunit; Provis	99.26
COG1163	365	DRG Predicted GTPase [General function prediction	99.26
PRK09601	364	GTP-binding protein YchF; Reviewed	99.25
KOG0090	238	consensus Signal recognition particle receptor, be	99.24
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	99.24
KOG4252	246	consensus GTP-binding protein [Signal transduction	99.22
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	99.22
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	99.2
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	99.2
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	99.2
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	99.2
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	99.19
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	99.19
KOG1145	683	consensus Mitochondrial translation initiation fac	99.19
PRK12740	668	elongation factor G; Reviewed	99.19
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	99.17
PRK09602	396	translation-associated GTPase; Reviewed	99.16
KOG3883	198	consensus Ras family small GTPase [Signal transduc	99.14
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	99.13
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.13
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	99.13
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	99.13
PLN00043	447	elongation factor 1-alpha; Provisional	99.12
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.12
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	99.12
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.12
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.12
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	99.1
KOG0447	980	consensus Dynamin-like GTP binding protein [Genera	99.1
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	99.1
PRK07560	731	elongation factor EF-2; Reviewed	99.1
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	99.1
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	99.09
KOG0410	410	consensus Predicted GTP binding protein [General f	99.09
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	99.09
KOG2486	320	consensus Predicted GTPase [General function predi	99.07
PRK09563	287	rbgA GTPase YlqF; Reviewed	99.04
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	99.03
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	99.03
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	99.03
PRK13768	253	GTPase; Provisional	99.01
KOG0462	650	consensus Elongation factor-type GTP-binding prote	99.01
PRK12288	347	GTPase RsgA; Reviewed	99.01
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.0
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	99.0
COG1162	301	Predicted GTPases [General function prediction onl	99.0
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.99
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	98.99
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	98.97
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.97
PRK12289	352	GTPase RsgA; Reviewed	98.96
COG1161	322	Predicted GTPases [General function prediction onl	98.95
KOG1486	364	consensus GTP-binding protein DRG2 (ODN superfamil	98.94
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	98.94
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.92
PRK00098	298	GTPase RsgA; Reviewed	98.91
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	98.89
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	98.88
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.88
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	98.85
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	98.85
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	98.84
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	98.84
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.84
KOG0077	193	consensus Vesicle coat complex COPII, GTPase subun	98.83
PRK10416	318	signal recognition particle-docking protein FtsY;	98.83
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	98.81
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	98.8
COG3523	1188	IcmF Type VI protein secretion system component Va	98.8
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	98.8
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	98.79
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.79
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	98.76
COG0012	372	Predicted GTPase, probable translation factor [Tra	98.76
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	98.75
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	98.74
PRK13796	365	GTPase YqeH; Provisional	98.72
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	98.72
cd03216	163	ABC_Carb_Monos_I This family represents the domain	98.71
cd03246	173	ABCC_Protease_Secretion This family represents the	98.71
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	98.7
COG0488	530	Uup ATPase components of ABC transporters with dup	98.7
TIGR00064	272	ftsY signal recognition particle-docking protein F	98.69
PRK14845	1049	translation initiation factor IF-2; Provisional	98.69
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	98.68
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	98.68
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	98.67
cd03215	182	ABC_Carb_Monos_II This family represents domain II	98.67
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	98.66
KOG1491	391	consensus Predicted GTP-binding protein (ODN super	98.66
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	98.66
COG3276	447	SelB Selenocysteine-specific translation elongatio	98.65
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	98.64
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	98.64
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	98.64
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	98.64
COG4988	559	CydD ABC-type transport system involved in cytochr	98.64
KOG3886	295	consensus GTP-binding protein [Signal transduction	98.63
PTZ00099	176	rab6; Provisional	98.63
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	98.63
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	98.63
PRK14974	336	cell division protein FtsY; Provisional	98.62
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	98.62
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	98.61
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	98.61
cd03112	158	CobW_like The function of this protein family is u	98.61
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	98.61
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	98.61
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	98.6
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	98.6
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	98.6
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	98.6
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	98.59
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	98.59
PRK13536	340	nodulation factor exporter subunit NodI; Provision	98.59
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	98.59
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	98.58
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	98.58
KOG3859	406	consensus Septins (P-loop GTPases) [Cell cycle con	98.58
PRK10908	222	cell division protein FtsE; Provisional	98.57
PRK13537	306	nodulation ABC transporter NodI; Provisional	98.57
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	98.57
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	98.56
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	98.56
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	98.56
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	98.56
cd03269	210	ABC_putative_ATPase This subfamily is involved in	98.55
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	98.55
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	98.55
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	98.55
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	98.54
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	98.54
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	98.54
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	98.54
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	98.54
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	98.54
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	98.54
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	98.53
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	98.53
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	98.53
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	98.53
KOG1673	205	consensus Ras GTPases [General function prediction	98.53
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	98.53
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	98.53
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	98.52
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	98.51
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	98.51
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	98.51
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	98.51
TIGR01288	303	nodI ATP-binding ABC transporter family nodulation	98.51
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	98.51
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	98.51
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	98.51
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	98.5
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	98.5
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	98.5
PRK10771	232	thiQ thiamine transporter ATP-binding subunit; Pro	98.5
TIGR02857	529	CydD thiol reductant ABC exporter, CydD subunit. U	98.5
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	98.49
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	98.49
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	98.48
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	98.48
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	98.48
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	98.48
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	98.48
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	98.47
COG1135	339	AbcC ABC-type metal ion transport system, ATPase c	98.47
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	98.47
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	98.47
PRK11650	356	ugpC glycerol-3-phosphate transporter ATP-binding	98.47
PRK11000	369	maltose/maltodextrin transporter ATP-binding prote	98.47
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	98.47
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	98.47
TIGR03797	686	NHPM_micro_ABC2 NHPM bacteriocin system ABC transp	98.46
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	98.46
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	98.46
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	98.46
KOG2485	335	consensus Conserved ATP/GTP binding protein [Gener	98.45
PRK10790	592	putative multidrug transporter membrane\ATP-bindin	98.45
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	98.45
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	98.45
COG0488	530	Uup ATPase components of ABC transporters with dup	98.45
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	98.44
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	98.44
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	98.44
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	98.44
KOG0467	887	consensus Translation elongation factor 2/ribosome	98.44
TIGR03265	353	PhnT2 putative 2-aminoethylphosphonate ABC transpo	98.43
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	98.42
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	98.42
TIGR00958	711	3a01208 Conjugate Transporter-2 (CT2) Family prote	98.42
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	98.42
PRK11144	352	modC molybdate transporter ATP-binding protein; Pr	98.42
TIGR03375	694	type_I_sec_LssB type I secretion system ATPase, Ls	98.42
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	98.41
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	98.41
PRK09452	375	potA putrescine/spermidine ABC transporter ATPase	98.41
TIGR02204	576	MsbA_rel ABC transporter, permease/ATP-binding pro	98.41
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	98.41
TIGR02203	571	MsbA_lipidA lipid A export permease/ATP-binding pr	98.41
PRK09435	332	membrane ATPase/protein kinase; Provisional	98.41
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	98.4
PRK13548	258	hmuV hemin importer ATP-binding subunit; Provision	98.4
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	98.4
TIGR01186	363	proV glycine betaine/L-proline transport ATP bindi	98.4
PRK11607	377	potG putrescine transporter ATP-binding subunit; P	98.4
KOG0082	354	consensus G-protein alpha subunit (small G protein	98.4
PRK13648	269	cbiO cobalt transporter ATP-binding subunit; Provi	98.4
TIGR02142	354	modC_ABC molybdenum ABC transporter, ATP-binding p	98.4
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	98.4
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	98.39
TIGR03796	710	NHPM_micro_ABC1 NHPM bacteriocin system ABC transp	98.39
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	98.39
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	98.39
PRK09536	402	btuD corrinoid ABC transporter ATPase; Reviewed	98.39
TIGR02314	343	ABC_MetN D-methionine ABC transporter, ATP-binding	98.39
PRK10851	353	sulfate/thiosulfate transporter subunit; Provision	98.38
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	98.38
cd03297	214	ABC_ModC_molybdenum_transporter ModC is an ABC-typ	98.38
PRK00771	437	signal recognition particle protein Srp54; Provisi	98.38
PRK13644	274	cbiO cobalt transporter ATP-binding subunit; Provi	98.38
TIGR03258	362	PhnT 2-aminoethylphosphonate ABC transport system,	98.37
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	98.37
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	98.37
PRK11153	343	metN DL-methionine transporter ATP-binding subunit	98.36
PRK13635	279	cbiO cobalt transporter ATP-binding subunit; Provi	98.36
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	98.35
PRK11614	237	livF leucine/isoleucine/valine transporter ATP-bin	98.35
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	98.35
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	98.35
KOG0058	716	consensus Peptide exporter, ABC superfamily [Intra	98.35
TIGR00968	237	3a0106s01 sulfate ABC transporter, ATP-binding pro	98.35
PRK10070	400	glycine betaine transporter ATP-binding subunit; P	98.34
PRK11160	574	cysteine/glutathione ABC transporter membrane/ATP-	98.34
TIGR03873	256	F420-0_ABC_ATP proposed F420-0 ABC transporter, AT	98.34
COG0050	394	TufB GTPases - translation elongation factors [Tra	98.34
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	98.33
PRK10789	569	putative multidrug transporter membrane\ATP-bindin	98.33
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	98.33
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	98.33
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	98.32
PRK13632	271	cbiO cobalt transporter ATP-binding subunit; Provi	98.32
PRK13647	274	cbiO cobalt transporter ATP-binding subunit; Provi	98.32

>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria

Probab=99.96  E-value=2.7e-29  Score=179.35  Aligned_cols=149  Identities=43%  Similarity=0.721  Sum_probs=123.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      ++|+|+|.+|+||||++|+|+|...|..+......|..+....... .+..+.||||||+.+.....+....++.+++..
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~-~g~~v~VIDTPGl~d~~~~~~~~~~~i~~~l~~   79 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEV-DGRQVTVIDTPGLFDSDGSDEEIIREIKRCLSL   79 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEE-TTEEEEEEE--SSEETTEEHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccceeeccccCCcccccceeeeee-cceEEEEEeCCCCCCCcccHHHHHHHHHHHHHh
Confidence            4899999999999999999999999888877777888888777777 899999999999998877777788889998888


Q ss_pred             ccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHHHhcccCCCCcccc
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLKVC  172 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~~~~~~l~~~  172 (173)
                      +.+++|+++||++.. +++..+...++.+.+.|+.+.+.+++||+|++|.+.++  .+++|+++..++.|+++
T Consensus        80 ~~~g~ha~llVi~~~-r~t~~~~~~l~~l~~~FG~~~~k~~ivvfT~~d~~~~~--~~~~~l~~~~~~~l~~l  149 (212)
T PF04548_consen   80 CSPGPHAFLLVIPLG-RFTEEDREVLELLQEIFGEEIWKHTIVVFTHADELEDD--SLEDYLKKESNEALQEL  149 (212)
T ss_dssp             TTT-ESEEEEEEETT-B-SHHHHHHHHHHHHHHCGGGGGGEEEEEEEGGGGTTT--THHHHHHHHHHHHHHHH
T ss_pred             ccCCCeEEEEEEecC-cchHHHHHHHHHHHHHccHHHHhHhhHHhhhccccccc--cHHHHHhccCchhHhHH
Confidence            889999999999999 99999999999999999999999999999999999985  58889886444455543

The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.95  E-value=2.9e-27  Score=167.21  Aligned_cols=147  Identities=53%  Similarity=0.822  Sum_probs=125.9

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .+|+++|.+|+||||++|+|+|...+..+....+.|..+....... .+..+.++||||+.+.....+....++.+++..
T Consensus         1 ~~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~-~~~~i~viDTPG~~d~~~~~~~~~~~i~~~~~~   79 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVW-DGRRVNVIDTPGLFDTSVSPEQLSKEIVRCLSL   79 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEE-CCeEEEEEECcCCCCccCChHHHHHHHHHHHHh
Confidence            4799999999999999999999988777766667787777777777 888999999999998876666777788888888


Q ss_pred             ccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHHHhcccCCCCccc
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLKV  171 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~~~~~~l~~  171 (173)
                      +.+++|++++|+++. .++..+...++.+++.|+...+.++++|+||+|.+...  ++++|+... ...|+.
T Consensus        80 ~~~g~~~illVi~~~-~~t~~d~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~~~--~~~~~~~~~-~~~l~~  147 (196)
T cd01852          80 SAPGPHAFLLVVPLG-RFTEEEEQAVETLQELFGEKVLDHTIVLFTRGDDLEGG--TLEDYLENS-CEALKR  147 (196)
T ss_pred             cCCCCEEEEEEEECC-CcCHHHHHHHHHHHHHhChHhHhcEEEEEECccccCCC--cHHHHHHhc-cHHHHH
Confidence            889999999999998 59999999999999999998889999999999999874  888888873 344544

This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=99.92  E-value=3.9e-24  Score=157.83  Aligned_cols=152  Identities=23%  Similarity=0.274  Sum_probs=110.4

Q ss_pred             CCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           14 SPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      .......+|+++|.+|+||||++|+|+|...+.... ....+.......... .+..+.||||||+.+.....+    +.
T Consensus        33 ~~~~~~~rIllvGktGVGKSSliNsIlG~~v~~vs~-f~s~t~~~~~~~~~~-~G~~l~VIDTPGL~d~~~~~e----~~  106 (313)
T TIGR00991        33 EEDVSSLTILVMGKGGVGKSSTVNSIIGERIATVSA-FQSEGLRPMMVSRTR-AGFTLNIIDTPGLIEGGYIND----QA  106 (313)
T ss_pred             cccccceEEEEECCCCCCHHHHHHHHhCCCcccccC-CCCcceeEEEEEEEE-CCeEEEEEECCCCCchHHHHH----HH
Confidence            334567899999999999999999999987643322 112222222233334 788999999999998532222    22


Q ss_pred             HHHHHh--ccCCceEEEEEeecC-CCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHHHhcccCCCCcc
Q 043441           94 VKCIGL--AKDGIHAVLVGFSVR-SRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLK  170 (173)
Q Consensus        94 ~~~~~~--~~~~~~~ii~v~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~~~~~~l~  170 (173)
                      ...++.  ...++|+++||.+.. .+++..+...++.+.+.|+...+.++++|+||+|.+.+++.++++|+.+ ....|+
T Consensus       107 ~~~ik~~l~~~g~DvVLyV~rLD~~R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~~pd~~~~e~fv~~-~~~~lq  185 (313)
T TIGR00991       107 VNIIKRFLLGKTIDVLLYVDRLDAYRVDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFSPPDGLEYNDFFSK-RSEALL  185 (313)
T ss_pred             HHHHHHHhhcCCCCEEEEEeccCcccCCHHHHHHHHHHHHHhhhhhhccEEEEEECCccCCCCCCCHHHHHHh-cHHHHH
Confidence            333332  224789999996653 2788888999999999999999999999999999997777899999988 444555


Q ss_pred             cc
Q 043441          171 VC  172 (173)
Q Consensus       171 ~~  172 (173)
                      ++
T Consensus       186 ~~  187 (313)
T TIGR00991       186 RV  187 (313)
T ss_pred             HH
Confidence            43

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=99.89  E-value=4.7e-22  Score=157.87  Aligned_cols=152  Identities=20%  Similarity=0.253  Sum_probs=111.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+|+|+|++|+||||++|+|+|...+...... ..|+......... .+..+.||||||+.+..... ....++.+.
T Consensus       116 dfslrIvLVGKTGVGKSSLINSILGekvf~vss~~-~~TTr~~ei~~~i-dG~~L~VIDTPGL~dt~~dq-~~neeILk~  192 (763)
T TIGR00993       116 DFSLNILVLGKSGVGKSATINSIFGEVKFSTDAFG-MGTTSVQEIEGLV-QGVKIRVIDTPGLKSSASDQ-SKNEKILSS  192 (763)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhccccccccCCC-CCceEEEEEEEEE-CCceEEEEECCCCCccccch-HHHHHHHHH
Confidence            34578999999999999999999998877655332 3444444333444 67899999999999874432 233444444


Q ss_pred             HHhc--cCCceEEEEEeecCC-CCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCc-----ccHHHHhcccCCCC
Q 043441           97 IGLA--KDGIHAVLVGFSVRS-RFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNE-----ETLEDYLGRECPKP  168 (173)
Q Consensus        97 ~~~~--~~~~~~ii~v~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~-----~~~~~~~~~~~~~~  168 (173)
                      +..+  ..++|++|+|..... ....++..+++.|.+.||.++|.+++||+||+|.+.+++     .++++|+.+ +...
T Consensus       193 Ik~~Lsk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lppdg~ng~~~tye~fv~~-rs~~  271 (763)
T TIGR00993       193 VKKFIKKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAASAPPDGPNGTPLSYDVFVAQ-RSHI  271 (763)
T ss_pred             HHHHHhcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCccCCCCCCCCCCcCHHHHHhh-ChHH
Confidence            4333  236899999988752 233467799999999999999999999999999997543     689999988 4444


Q ss_pred             cccc
Q 043441          169 LKVC  172 (173)
Q Consensus       169 l~~~  172 (173)
                      |+++
T Consensus       272 Lq~~  275 (763)
T TIGR00993       272 VQQA  275 (763)
T ss_pred             HHHH
Confidence            5544

The long precursor of the 86K protein originally described is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation. The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M.

>COG1159 Era GTPase [General function prediction only]

Probab=99.88  E-value=2.8e-21  Score=140.26  Aligned_cols=127  Identities=20%  Similarity=0.251  Sum_probs=108.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      .....++++|++++|||||+|.|+|...  +..++.+.|+......+...+...++++||||+..+   ...+++.|.+.
T Consensus         4 ~ksGfVaIiGrPNvGKSTLlN~l~G~Ki--sIvS~k~QTTR~~I~GI~t~~~~QiIfvDTPGih~p---k~~l~~~m~~~   78 (298)
T COG1159           4 FKSGFVAIIGRPNVGKSTLLNALVGQKI--SIVSPKPQTTRNRIRGIVTTDNAQIIFVDTPGIHKP---KHALGELMNKA   78 (298)
T ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhcCce--EeecCCcchhhhheeEEEEcCCceEEEEeCCCCCCc---chHHHHHHHHH
Confidence            3457899999999999999999999887  555666677777766666657889999999999975   57788889999


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      +...+.++|+++||+++...+...+...++.++..     ..|+++++||.|+....
T Consensus        79 a~~sl~dvDlilfvvd~~~~~~~~d~~il~~lk~~-----~~pvil~iNKID~~~~~  130 (298)
T COG1159          79 ARSALKDVDLILFVVDADEGWGPGDEFILEQLKKT-----KTPVILVVNKIDKVKPK  130 (298)
T ss_pred             HHHHhccCcEEEEEEeccccCCccHHHHHHHHhhc-----CCCeEEEEEccccCCcH
Confidence            99999999999999999977999998888888772     27899999999999875

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=99.87  E-value=6.3e-21  Score=138.77  Aligned_cols=137  Identities=26%  Similarity=0.280  Sum_probs=101.0

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      ......+|+|+|.+|+|||||+|+|+|...+... ...+.|.......... .+..+.+|||||+.+..... ....++.
T Consensus        27 ~~~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~-~~~~~T~~~~~~~~~~-~g~~i~vIDTPGl~~~~~~~-~~~~~~~  103 (249)
T cd01853          27 ELDFSLTILVLGKTGVGKSSTINSIFGERKAATS-AFQSETLRVREVSGTV-DGFKLNIIDTPGLLESVMDQ-RVNRKIL  103 (249)
T ss_pred             hccCCeEEEEECCCCCcHHHHHHHHhCCCCcccC-CCCCceEEEEEEEEEE-CCeEEEEEECCCcCcchhhH-HHHHHHH
Confidence            4567799999999999999999999998765443 2334555555555555 77889999999999763221 1222333


Q ss_pred             HHHHhcc--CCceEEEEEeecC-CCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCc
Q 043441           95 KCIGLAK--DGIHAVLVGFSVR-SRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNE  154 (173)
Q Consensus        95 ~~~~~~~--~~~~~ii~v~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~  154 (173)
                      ..+..+.  ..+|+++++.... .+++..+..+++.|.+.|+...+.++++|+||+|...+++
T Consensus       104 ~~I~~~l~~~~idvIL~V~rlD~~r~~~~d~~llk~I~e~fG~~i~~~~ivV~T~~d~~~p~~  166 (249)
T cd01853         104 SSIKRYLKKKTPDVVLYVDRLDMYRRDYLDLPLLRAITDSFGPSIWRNAIVVLTHAASSPPDG  166 (249)
T ss_pred             HHHHHHHhccCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhChhhHhCEEEEEeCCccCCCCC
Confidence            3333222  3578888887664 2677888899999999999988899999999999997654

This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=99.83  E-value=3.3e-19  Score=115.83  Aligned_cols=116  Identities=20%  Similarity=0.271  Sum_probs=79.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      +|+++|.+|+|||||+|+|++......+. ..+.|.......... .+..+.++||||+.+...... ....+.......
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~-~~~~T~~~~~~~~~~-~~~~~~~vDtpG~~~~~~~~~-~~~~~~~~~~~~   77 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKVSN-IPGTTRDPVYGQFEY-NNKKFILVDTPGINDGESQDN-DGKEIRKFLEQI   77 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEESS-STTSSSSEEEEEEEE-TTEEEEEEESSSCSSSSHHHH-HHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHhccccccccc-cccceeeeeeeeeee-ceeeEEEEeCCCCcccchhhH-HHHHHHHHHHHH
Confidence            68999999999999999999865433332 234555554445555 788889999999987532222 112333344444


Q ss_pred             cCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeC
Q 043441          101 KDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTG  146 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk  146 (173)
                       ..+|++++|+++.......+...+++++      ...|+++|+||
T Consensus        78 -~~~d~ii~vv~~~~~~~~~~~~~~~~l~------~~~~~i~v~NK  116 (116)
T PF01926_consen   78 -SKSDLIIYVVDASNPITEDDKNILRELK------NKKPIILVLNK  116 (116)
T ss_dssp             -CTESEEEEEEETTSHSHHHHHHHHHHHH------TTSEEEEEEES
T ss_pred             -HHCCEEEEEEECCCCCCHHHHHHHHHHh------cCCCEEEEEcC
Confidence             7889999999987533444556666663      22899999998

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.82  E-value=2.8e-19  Score=136.49  Aligned_cols=124  Identities=24%  Similarity=0.200  Sum_probs=105.5

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      +.|++||.+++|||||+|.|++....... ..++.|.+..+....+ .+..+.+|||+|+.+.  ..+.+..++...+..
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~AIV~-D~pGvTRDr~y~~~~~-~~~~f~lIDTgGl~~~--~~~~l~~~i~~Qa~~   79 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRIAIVS-DTPGVTRDRIYGDAEW-LGREFILIDTGGLDDG--DEDELQELIREQALI   79 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCeeeEee-cCCCCccCCccceeEE-cCceEEEEECCCCCcC--CchHHHHHHHHHHHH
Confidence            78999999999999999999998864433 4567888888888888 8888999999999963  335677788888888


Q ss_pred             ccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...++|++|||+|....++..+....++++..     +.|+++|+||+|-...
T Consensus        80 Ai~eADvilfvVD~~~Git~~D~~ia~~Lr~~-----~kpviLvvNK~D~~~~  127 (444)
T COG1160          80 AIEEADVILFVVDGREGITPADEEIAKILRRS-----KKPVILVVNKIDNLKA  127 (444)
T ss_pred             HHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhc-----CCCEEEEEEcccCchh
Confidence            88899999999999988999999998888832     2899999999998843

>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions

Probab=99.80  E-value=3e-19  Score=120.62  Aligned_cols=122  Identities=21%  Similarity=0.232  Sum_probs=84.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      +|+++|.+++|||||+|+|+|....  -...++.|.........+ .+..+.++|+||.++......  .+++...+ ..
T Consensus         2 ~ialvG~PNvGKStLfN~Ltg~~~~--v~n~pG~Tv~~~~g~~~~-~~~~~~lvDlPG~ysl~~~s~--ee~v~~~~-l~   75 (156)
T PF02421_consen    2 RIALVGNPNVGKSTLFNALTGAKQK--VGNWPGTTVEKKEGIFKL-GDQQVELVDLPGIYSLSSKSE--EERVARDY-LL   75 (156)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTTSEE--EEESTTSSSEEEEEEEEE-TTEEEEEEE----SSSSSSSH--HHHHHHHH-HH
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCce--ecCCCCCCeeeeeEEEEe-cCceEEEEECCCcccCCCCCc--HHHHHHHH-Hh
Confidence            7899999999999999999998853  334677888877777777 789999999999987543321  11121111 12


Q ss_pred             cCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcc
Q 043441          101 KDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEE  155 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~  155 (173)
                      ...+|+++.|+|++ .+..+ ..++.++.+.     ..|+++++||+|+....+.
T Consensus        76 ~~~~D~ii~VvDa~-~l~r~-l~l~~ql~e~-----g~P~vvvlN~~D~a~~~g~  123 (156)
T PF02421_consen   76 SEKPDLIIVVVDAT-NLERN-LYLTLQLLEL-----GIPVVVVLNKMDEAERKGI  123 (156)
T ss_dssp             HTSSSEEEEEEEGG-GHHHH-HHHHHHHHHT-----TSSEEEEEETHHHHHHTTE
T ss_pred             hcCCCEEEEECCCC-CHHHH-HHHHHHHHHc-----CCCEEEEEeCHHHHHHcCC
Confidence            46789999999998 54333 3444455544     2899999999999976543

FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....

>PRK00089 era GTPase Era; Reviewed

Probab=99.79  E-value=5.4e-18  Score=126.78  Aligned_cols=124  Identities=20%  Similarity=0.243  Sum_probs=87.9

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ....|+++|++|||||||+|+|+|.....  .++...|+...........+..+.++||||+....   ..+.+.+...+
T Consensus         4 ~~g~V~iiG~pn~GKSTLin~L~g~~~~~--vs~~~~tt~~~i~~i~~~~~~qi~~iDTPG~~~~~---~~l~~~~~~~~   78 (292)
T PRK00089          4 KSGFVAIVGRPNVGKSTLLNALVGQKISI--VSPKPQTTRHRIRGIVTEDDAQIIFVDTPGIHKPK---RALNRAMNKAA   78 (292)
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhCCceee--cCCCCCcccccEEEEEEcCCceEEEEECCCCCCch---hHHHHHHHHHH
Confidence            45789999999999999999999977532  22233333333333332245689999999998643   33445555566


Q ss_pred             HhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      ...+..+|++++|+|+++.++..+...++.+...     ..|+++|+||+|+..
T Consensus        79 ~~~~~~~D~il~vvd~~~~~~~~~~~i~~~l~~~-----~~pvilVlNKiDl~~  127 (292)
T PRK00089         79 WSSLKDVDLVLFVVDADEKIGPGDEFILEKLKKV-----KTPVILVLNKIDLVK  127 (292)
T ss_pred             HHHHhcCCEEEEEEeCCCCCChhHHHHHHHHhhc-----CCCEEEEEECCcCCC
Confidence            6677889999999999866776666665555531     278999999999984

>TIGR00436 era GTP-binding protein Era

Probab=99.79  E-value=5.4e-18  Score=125.38  Aligned_cols=121  Identities=19%  Similarity=0.175  Sum_probs=82.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      +|+++|.+|+|||||+|+|++....  ..++.+.|+...........+..+.++||||+....   ......+.+.+..+
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~--~vs~~~~TTr~~i~~i~~~~~~qii~vDTPG~~~~~---~~l~~~~~~~~~~~   76 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKIS--ITSPKAQTTRNRISGIHTTGASQIIFIDTPGFHEKK---HSLNRLMMKEARSA   76 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEe--ecCCCCCcccCcEEEEEEcCCcEEEEEECcCCCCCc---chHHHHHHHHHHHH
Confidence            6899999999999999999997742  222333333333333333255679999999998642   23344455555567


Q ss_pred             cCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          101 KDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +..+|++++|+|+++..+. +..+++.+..     ...|+++|+||+|+...
T Consensus        77 l~~aDvvl~VvD~~~~~~~-~~~i~~~l~~-----~~~p~ilV~NK~Dl~~~  122 (270)
T TIGR00436        77 IGGVDLILFVVDSDQWNGD-GEFVLTKLQN-----LKRPVVLTRNKLDNKFK  122 (270)
T ss_pred             HhhCCEEEEEEECCCCCch-HHHHHHHHHh-----cCCCEEEEEECeeCCCH
Confidence            7889999999999854433 3344444433     23789999999999743

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.78  E-value=9.7e-18  Score=123.15  Aligned_cols=132  Identities=19%  Similarity=0.184  Sum_probs=94.5

Q ss_pred             ccCCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHH-H
Q 043441           11 ELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEF-V   89 (173)
Q Consensus        11 ~~~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~-~   89 (173)
                      .+|+-.+..+++++.|++++|||||++.+++...  .-++.+..|......+... +..++++|||||+.+....... .
T Consensus       160 ~LP~Idp~~pTivVaG~PNVGKSSlv~~lT~Akp--EvA~YPFTTK~i~vGhfe~-~~~R~QvIDTPGlLDRPl~ErN~I  236 (346)
T COG1084         160 KLPAIDPDLPTIVVAGYPNVGKSSLVRKLTTAKP--EVAPYPFTTKGIHVGHFER-GYLRIQVIDTPGLLDRPLEERNEI  236 (346)
T ss_pred             cCCCCCCCCCeEEEecCCCCcHHHHHHHHhcCCC--ccCCCCccccceeEeeeec-CCceEEEecCCcccCCChHHhcHH
Confidence            3466667889999999999999999999999875  3444444566666666666 8889999999999985432222 2


Q ss_pred             HHHHHHHHHhccCCceEEEEEeecCCCCCHH---HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           90 GMEIVKCIGLAKDGIHAVLVGFSVRSRFPQE---EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        90 ~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..+...   ...+-.++|+|++|.+..+...   +..+++.++..|.    .|+++|+||.|..+.
T Consensus       237 E~qAi~---AL~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~----~p~v~V~nK~D~~~~  295 (346)
T COG1084         237 ERQAIL---ALRHLAGVILFLFDPSETCGYSLEEQISLLEEIKELFK----APIVVVINKIDIADE  295 (346)
T ss_pred             HHHHHH---HHHHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhcC----CCeEEEEecccccch
Confidence            222222   2222347899999998655433   4566777777654    689999999998855

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.77  E-value=4.3e-17  Score=112.68  Aligned_cols=127  Identities=18%  Similarity=0.226  Sum_probs=95.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCc---HHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGS---EFVGME   92 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~---~~~~~~   92 (173)
                      .+..+-|+++|.+++||||+||+|++......-...++.|.........    ..+.++|.||+.-+....   +.|...
T Consensus        21 ~~~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~----~~~~lVDlPGYGyAkv~k~~~e~w~~~   96 (200)
T COG0218          21 EDDLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVD----DELRLVDLPGYGYAKVPKEVKEKWKKL   96 (200)
T ss_pred             CCCCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEec----CcEEEEeCCCcccccCCHHHHHHHHHH
Confidence            3466789999999999999999999966433334556777777665542    338899999999766544   334444


Q ss_pred             HHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           93 IVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        93 ~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +..++..-. ...++++++|+...+...+.++++++.+.   .  .|+++|+||+|++..
T Consensus        97 i~~YL~~R~-~L~~vvlliD~r~~~~~~D~em~~~l~~~---~--i~~~vv~tK~DKi~~  150 (200)
T COG0218          97 IEEYLEKRA-NLKGVVLLIDARHPPKDLDREMIEFLLEL---G--IPVIVVLTKADKLKK  150 (200)
T ss_pred             HHHHHhhch-hheEEEEEEECCCCCcHHHHHHHHHHHHc---C--CCeEEEEEccccCCh
Confidence            444443322 36788999999878888899999999886   2  789999999999986

>cd01894 EngA1 EngA1 subfamily

Probab=99.76  E-value=1.8e-17  Score=112.55  Aligned_cols=121  Identities=23%  Similarity=0.243  Sum_probs=84.2

Q ss_pred             EEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccC
Q 043441           23 VFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKD  102 (173)
Q Consensus        23 ~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~  102 (173)
                      +++|.+|+|||||+|.|++....... ...+.|.......... .+..+.++||||+.+...   .....+........+
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~~-~~~~~t~~~~~~~~~~-~~~~~~i~DtpG~~~~~~---~~~~~~~~~~~~~~~   75 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVE-DTPGVTRDRIYGEAEW-GGREFILIDTGGIEPDDE---GISKEIREQAELAIE   75 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEeec-CCCCceeCceeEEEEE-CCeEEEEEECCCCCCchh---HHHHHHHHHHHHHHH
Confidence            47999999999999999987532111 2233444444445555 677899999999987432   234444444455667


Q ss_pred             CceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441          103 GIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus       103 ~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .+|++++++++.+..+..+....+.+++.     ..|+++|+||+|+....
T Consensus        76 ~~d~ii~v~d~~~~~~~~~~~~~~~~~~~-----~~piiiv~nK~D~~~~~  121 (157)
T cd01894          76 EADVILFVVDGREGLTPADEEIAKYLRKS-----KKPVILVVNKVDNIKEE  121 (157)
T ss_pred             hCCEEEEEEeccccCCccHHHHHHHHHhc-----CCCEEEEEECcccCChH
Confidence            78999999999866666665555555542     27899999999998753

This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.

>PRK15494 era GTPase Era; Provisional

Probab=99.76  E-value=4.3e-17  Score=123.97  Aligned_cols=123  Identities=21%  Similarity=0.236  Sum_probs=85.6

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCc-cceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSG-VTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~-~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ..+++++|.+|+|||||+|+|++....  ..++.. .|.......... ++..+.+|||||+.+..   ..+...+.+.+
T Consensus        52 ~~kV~ivG~~nvGKSTLin~l~~~k~~--ivs~k~~tTr~~~~~~~~~-~~~qi~~~DTpG~~~~~---~~l~~~~~r~~  125 (339)
T PRK15494         52 TVSVCIIGRPNSGKSTLLNRIIGEKLS--IVTPKVQTTRSIITGIITL-KDTQVILYDTPGIFEPK---GSLEKAMVRCA  125 (339)
T ss_pred             eeEEEEEcCCCCCHHHHHHHHhCCcee--eccCCCCCccCcEEEEEEe-CCeEEEEEECCCcCCCc---ccHHHHHHHHH
Confidence            348999999999999999999987642  222222 333322233344 67789999999997532   22344555555


Q ss_pred             HhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..++..+|++++|+|..+.+...+..+++.+.+.     ..+.++|+||+|+...
T Consensus       126 ~~~l~~aDvil~VvD~~~s~~~~~~~il~~l~~~-----~~p~IlViNKiDl~~~  175 (339)
T PRK15494        126 WSSLHSADLVLLIIDSLKSFDDITHNILDKLRSL-----NIVPIFLLNKIDIESK  175 (339)
T ss_pred             HHHhhhCCEEEEEEECCCCCCHHHHHHHHHHHhc-----CCCEEEEEEhhcCccc
Confidence            5567889999999999867777666666666543     1567889999998644

>KOG0084 consensus GTPase Rab1/YPT1, small G protein superfamily, and related GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.76  E-value=1.8e-17  Score=113.29  Aligned_cols=128  Identities=13%  Similarity=0.099  Sum_probs=94.1

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ...+|+|+|.+|+|||.|+..+.+...........++....+...+.. +...++||||+|.           ++++.+.
T Consensus         8 ylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~g-k~iKlQIWDTAGQ-----------ERFrtit   75 (205)
T KOG0084|consen    8 YLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDG-KTIKLQIWDTAGQ-----------ERFRTIT   75 (205)
T ss_pred             eEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecc-eEEEEEeeecccc-----------HHHhhhh
Confidence            447899999999999999999988775444444444444444333433 4458999999994           4778888


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHH
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLED  159 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~  159 (173)
                      ..+|+++|+||+|+|+++.-+-+. ..|++++.......  .+.++|.||+|+.+....+.++
T Consensus        76 ~syYR~ahGii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~--v~~lLVGNK~Dl~~~~~v~~~~  136 (205)
T KOG0084|consen   76 SSYYRGAHGIIFVYDITKQESFNNVKRWIQEIDRYASEN--VPKLLVGNKCDLTEKRVVSTEE  136 (205)
T ss_pred             HhhccCCCeEEEEEEcccHHHhhhHHHHHHHhhhhccCC--CCeEEEeeccccHhheecCHHH
Confidence            899999999999999995544442 56777776665443  6999999999999765444443

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=99.75  E-value=1.4e-16  Score=111.06  Aligned_cols=128  Identities=19%  Similarity=0.272  Sum_probs=83.1

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      ......+++++|.+|+|||||+|.|++...........+.|.....+..   . ..+.+|||||+........ ...++.
T Consensus        14 ~~~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~---~-~~~~liDtpG~~~~~~~~~-~~~~~~   88 (179)
T TIGR03598        14 PPDDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEV---N-DGFRLVDLPGYGYAKVSKE-EKEKWQ   88 (179)
T ss_pred             CCCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEe---C-CcEEEEeCCCCccccCChh-HHHHHH
Confidence            3467789999999999999999999986521111122334444443322   2 3689999999876433221 112222


Q ss_pred             HHHHh---ccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           95 KCIGL---AKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        95 ~~~~~---~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .....   ....++++++|++++.+++..+...++.+...     ..|+++++||+|++..
T Consensus        89 ~~~~~~l~~~~~~~~ii~vvd~~~~~~~~~~~~~~~~~~~-----~~pviiv~nK~D~~~~  144 (179)
T TIGR03598        89 KLIEEYLEKRENLKGVVLLMDIRHPLKELDLEMLEWLRER-----GIPVLIVLTKADKLKK  144 (179)
T ss_pred             HHHHHHHHhChhhcEEEEEecCCCCCCHHHHHHHHHHHHc-----CCCEEEEEECcccCCH
Confidence            22222   22346899999999877887777666555432     2789999999999854

Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=99.75  E-value=8e-17  Score=109.29  Aligned_cols=121  Identities=25%  Similarity=0.242  Sum_probs=81.1

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .+++++|++|+|||||++++++....... ...+.+.......... .+..+.++||||+.+.....+   .........
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~i~DtpG~~~~~~~~~---~~~~~~~~~   76 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDRAIVS-DIAGTTRDVIEESIDI-GGIPVRLIDTAGIRETEDEIE---KIGIERARE   76 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCceEecc-CCCCCccceEEEEEEe-CCEEEEEEECCCcCCCcchHH---HHHHHHHHH
Confidence            58999999999999999999987632112 2233344443344444 567899999999987543222   111122224


Q ss_pred             ccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ++..+|++++|+|+++..+..+...+..       ....|+++|+||+|+...
T Consensus        77 ~~~~~~~~v~v~d~~~~~~~~~~~~~~~-------~~~~~vi~v~nK~D~~~~  122 (157)
T cd04164          77 AIEEADLVLFVIDASRGLDEEDLEILEL-------PADKPIIVVLNKSDLLPD  122 (157)
T ss_pred             HHhhCCEEEEEEECCCCCCHHHHHHHHh-------hcCCCEEEEEEchhcCCc
Confidence            5668899999999986665555444333       122789999999999865

It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.

>cd04163 Era Era subfamily

Probab=99.75  E-value=6.2e-17  Score=110.60  Aligned_cols=123  Identities=21%  Similarity=0.191  Sum_probs=81.4

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ..+|+++|++|+|||||+|.+++......... ...+.......... .+..+.++||||+.......   ...+.....
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~~~~~~~~-~~~~~~~~~~~~~~-~~~~~~liDtpG~~~~~~~~---~~~~~~~~~   77 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKISIVSPK-PQTTRNRIRGIYTD-DDAQIIFVDTPGIHKPKKKL---GERMVKAAW   77 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCceEeccCC-CCceeceEEEEEEc-CCeEEEEEECCCCCcchHHH---HHHHHHHHH
Confidence            47899999999999999999998764322211 11222222222222 45689999999998653221   222333444


Q ss_pred             hccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      .....+|.+++|+++++..........+.+...     ..|.++++||+|+..
T Consensus        78 ~~~~~~d~i~~v~d~~~~~~~~~~~~~~~~~~~-----~~~~iiv~nK~Dl~~  125 (168)
T cd04163          78 SALKDVDLVLFVVDASEPIGEGDEFILELLKKS-----KTPVILVLNKIDLVK  125 (168)
T ss_pred             HHHHhCCEEEEEEECCCccCchHHHHHHHHHHh-----CCCEEEEEEchhccc
Confidence            566788999999999855555555555555443     268999999999984

Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=99.75  E-value=5.7e-17  Score=111.58  Aligned_cols=125  Identities=24%  Similarity=0.177  Sum_probs=77.9

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcH-HHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSE-FVGMEIVKCIG   98 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~-~~~~~~~~~~~   98 (173)
                      ++|+++|.+|+|||||+|+|++......  .....|.......... ++..+.+|||||+.+.....+ .+....   +.
T Consensus         1 ~~i~~~G~~~~GKssli~~l~~~~~~~~--~~~~~t~~~~~~~~~~-~~~~~~i~Dt~G~~~~~~~~~~~~~~~~---~~   74 (168)
T cd01897           1 PTLVIAGYPNVGKSSLVNKLTRAKPEVA--PYPFTTKSLFVGHFDY-KYLRWQVIDTPGLLDRPLEERNTIEMQA---IT   74 (168)
T ss_pred             CeEEEEcCCCCCHHHHHHHHhcCCCccC--CCCCcccceeEEEEcc-CceEEEEEECCCcCCccccCCchHHHHH---HH
Confidence            5799999999999999999998764211  1122344444444444 567899999999864322111 111111   11


Q ss_pred             hccCCceEEEEEeecCCCCC---HHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFP---QEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .....+|++++|+|+++..+   .....+++.+.+.+.   ..|+++|+||+|+....
T Consensus        75 ~~~~~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~~---~~pvilv~NK~Dl~~~~  129 (168)
T cd01897          75 ALAHLRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLFK---NKPVIVVLNKIDLLTFE  129 (168)
T ss_pred             HHHhccCcEEEEEeCCcccccchHHHHHHHHHHHhhcC---cCCeEEEEEccccCchh
Confidence            11223578999999975433   223455666655432   37999999999997653

NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.75  E-value=9.3e-17  Score=123.80  Aligned_cols=126  Identities=17%  Similarity=0.161  Sum_probs=82.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      -|+|||.++||||||+|+|++...  .-...+..|.......+...+...++++||||+.........+...+.+    .
T Consensus       161 dValVG~PNaGKSTLln~Lt~~k~--~vs~~p~TT~~p~~Giv~~~~~~~i~~vDtPGi~~~a~~~~~Lg~~~l~----~  234 (390)
T PRK12298        161 DVGLLGLPNAGKSTFIRAVSAAKP--KVADYPFTTLVPNLGVVRVDDERSFVVADIPGLIEGASEGAGLGIRFLK----H  234 (390)
T ss_pred             cEEEEcCCCCCHHHHHHHHhCCcc--cccCCCCCccCcEEEEEEeCCCcEEEEEeCCCccccccchhhHHHHHHH----H
Confidence            599999999999999999998764  2222333444444444555234579999999998765444445555553    4


Q ss_pred             cCCceEEEEEeecCC---C-CCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          101 KDGIHAVLVGFSVRS---R-FPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~---~-~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..+++++++|+|++.   . .......+++.+......-...|.++|+||+|+...
T Consensus       235 i~radvlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~  290 (390)
T PRK12298        235 LERCRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDE  290 (390)
T ss_pred             HHhCCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCCh
Confidence            557799999999861   1 112224454555443221123789999999998754

>cd01895 EngA2 EngA2 subfamily

Probab=99.75  E-value=9e-17  Score=110.66  Aligned_cols=127  Identities=19%  Similarity=0.147  Sum_probs=80.5

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ..+|+++|.+|+|||||+|+|++........ ..+.+.......... .+..+.+|||||+.+.......+.........
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~~-~~~~~~~~~~~~~~~-~~~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~   79 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSD-IAGTTRDSIDVPFEY-DGKKYTLIDTAGIRRKGKVEEGIEKYSVLRTL   79 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceeccC-CCCCccCceeeEEEE-CCeeEEEEECCCCccccchhccHHHHHHHHHH
Confidence            4789999999999999999999876322221 122232222233344 66778999999998653221111111111112


Q ss_pred             hccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..+..+|++++|+|+.+..+......++.+..   .  ..|+++++||+|+...
T Consensus        80 ~~~~~~d~vi~v~d~~~~~~~~~~~~~~~~~~---~--~~~~iiv~nK~Dl~~~  128 (174)
T cd01895          80 KAIERADVVLLVIDATEGITEQDLRIAGLILE---E--GKALVIVVNKWDLVEK  128 (174)
T ss_pred             HHHhhcCeEEEEEeCCCCcchhHHHHHHHHHh---c--CCCEEEEEeccccCCc
Confidence            34567899999999986666555444443332   1  2789999999998866

This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.

>cd01898 Obg Obg subfamily

Probab=99.74  E-value=5.9e-17  Score=111.66  Aligned_cols=125  Identities=19%  Similarity=0.153  Sum_probs=76.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCc-eEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ-VVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .|+++|.+|+|||||+|+|.+... ..+ .....|.......... .+. .+.++||||+.+.....+.....+.    .
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~-~v~-~~~~~t~~~~~~~~~~-~~~~~~~l~DtpG~~~~~~~~~~~~~~~~----~   74 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKP-KIA-DYPFTTLVPNLGVVRV-DDGRSFVVADIPGLIEGASEGKGLGHRFL----R   74 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCc-ccc-CCCccccCCcceEEEc-CCCCeEEEEecCcccCcccccCCchHHHH----H
Confidence            589999999999999999998653 111 1122333333333444 444 8999999998653222211222222    2


Q ss_pred             ccCCceEEEEEeecCCC-CCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSR-FPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~-~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .+..+|++++|+|+++. -+.. ...+++.+.+........|+++|+||+|+...
T Consensus        75 ~~~~~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~  129 (170)
T cd01898          75 HIERTRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDE  129 (170)
T ss_pred             HHHhCCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCc
Confidence            23467999999999843 1222 23555555554221124789999999998765

The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.74  E-value=2e-16  Score=119.79  Aligned_cols=126  Identities=17%  Similarity=0.160  Sum_probs=83.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      .|+|||.++||||||+|+|++...  .....+..|.......+.+.++..++++||||+.+.......+..++.+    .
T Consensus       160 dVglVG~PNaGKSTLln~ls~a~~--~va~ypfTT~~p~~G~v~~~~~~~~~i~D~PGli~ga~~~~gLg~~flr----h  233 (335)
T PRK12299        160 DVGLVGLPNAGKSTLISAVSAAKP--KIADYPFTTLHPNLGVVRVDDYKSFVIADIPGLIEGASEGAGLGHRFLK----H  233 (335)
T ss_pred             CEEEEcCCCCCHHHHHHHHHcCCC--ccCCCCCceeCceEEEEEeCCCcEEEEEeCCCccCCCCccccHHHHHHH----H
Confidence            489999999999999999998653  2222233455555544554355689999999998755444444444443    4


Q ss_pred             cCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          101 KDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..+++++++|+|+++.-+.++ ..+.+.+......-...|+++|+||+|+...
T Consensus       234 ie~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~  286 (335)
T PRK12299        234 IERTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDE  286 (335)
T ss_pred             hhhcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCc
Confidence            456799999999984333332 3444445443221123799999999998754

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.74  E-value=1.3e-16  Score=125.30  Aligned_cols=122  Identities=22%  Similarity=0.226  Sum_probs=94.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      +|+++|.+|+|||||+|.|++....... ..++.|.........+ .+..+.+|||||+...   ...+...+...+..+
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~-~~~g~t~d~~~~~~~~-~~~~~~liDTpG~~~~---~~~~~~~~~~~~~~~   75 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVS-DTPGVTRDRKYGDAEW-GGREFILIDTGGIEED---DDGLDKQIREQAEIA   75 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcceec-CCCCcccCceEEEEEE-CCeEEEEEECCCCCCc---chhHHHHHHHHHHHH
Confidence            4899999999999999999987632212 2345666666666666 7889999999998642   233455666666677


Q ss_pred             cCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          101 KDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +..+|++++|+|+.+.++..+....+++++.     ..|+++|+||+|....
T Consensus        76 ~~~ad~vl~vvD~~~~~~~~d~~i~~~l~~~-----~~piilVvNK~D~~~~  122 (429)
T TIGR03594        76 IEEADVILFVVDGREGLTPEDEEIAKWLRKS-----GKPVILVANKIDGKKE  122 (429)
T ss_pred             HhhCCEEEEEEeCCCCCCHHHHHHHHHHHHh-----CCCEEEEEECccCCcc
Confidence            8889999999999878888887877777763     2789999999998764

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.73  E-value=1.7e-16  Score=121.05  Aligned_cols=129  Identities=22%  Similarity=0.154  Sum_probs=85.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+|+++|.+|+|||||+|+|++...+...  ....|.......+.++.+..+.++||||+...  ..+...+.+...
T Consensus       187 ~~~~~ValvG~~NvGKSSLln~L~~~~~~v~~--~~~tT~d~~~~~i~~~~~~~i~l~DT~G~~~~--l~~~lie~f~~t  262 (351)
T TIGR03156       187 ADVPTVALVGYTNAGKSTLFNALTGADVYAAD--QLFATLDPTTRRLDLPDGGEVLLTDTVGFIRD--LPHELVAAFRAT  262 (351)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCceeecc--CCccccCCEEEEEEeCCCceEEEEecCccccc--CCHHHHHHHHHH
Confidence            35589999999999999999999997643222  22344444445555545678999999998531  112333344443


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHH-HHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEE-AALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      + ..+..+|++++|+|+++.....+. .+.+.+.+. +. ...|+++|+||+|+...
T Consensus       263 l-e~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l-~~-~~~piIlV~NK~Dl~~~  316 (351)
T TIGR03156       263 L-EEVREADLLLHVVDASDPDREEQIEAVEKVLEEL-GA-EDIPQLLVYNKIDLLDE  316 (351)
T ss_pred             H-HHHHhCCEEEEEEECCCCchHHHHHHHHHHHHHh-cc-CCCCEEEEEEeecCCCh
Confidence            3 346688999999999855544432 233344443 22 12789999999998754

This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).

>cd01864 Rab19 Rab19 subfamily

Probab=99.73  E-value=1.7e-16  Score=109.00  Aligned_cols=119  Identities=10%  Similarity=0.138  Sum_probs=76.8

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ..+|+++|++|+|||||++++.+..........  ............ .+  ..+.+|||||..           .+...
T Consensus         3 ~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t--~~~~~~~~~~~~-~~~~~~l~i~D~~G~~-----------~~~~~   68 (165)
T cd01864           3 LFKIILIGDSNVGKTCVVQRFKSGTFSERQGNT--IGVDFTMKTLEI-EGKRVKLQIWDTAGQE-----------RFRTI   68 (165)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhhCCCcccCCCc--cceEEEEEEEEE-CCEEEEEEEEECCChH-----------HHHHH
Confidence            478999999999999999999875532211111  112222233333 33  378999999943           23334


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ...+++.+|++++|+++++..+... ..+++.+.....  ...|+++|.||+|+....
T Consensus        69 ~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~i~~~~~--~~~p~ivv~nK~Dl~~~~  124 (165)
T cd01864          69 TQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGA--SNVVLLLIGNKCDLEEQR  124 (165)
T ss_pred             HHHHhccCCEEEEEEECcCHHHHHhHHHHHHHHHHhCC--CCCcEEEEEECccccccc
Confidence            4456778999999999984433222 355555554322  236899999999987553

Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.73  E-value=1.7e-16  Score=109.29  Aligned_cols=119  Identities=14%  Similarity=0.094  Sum_probs=75.1

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ..+|+++|++|+|||||++++++... .....+.. ........+.. .+  ..+.+|||||...           +...
T Consensus         3 ~~ki~vvG~~~~GKSsl~~~~~~~~f-~~~~~~t~-~~~~~~~~~~~-~~~~~~l~l~D~~g~~~-----------~~~~   68 (167)
T cd01867           3 LFKLLLIGDSGVGKSCLLLRFSEDSF-NPSFISTI-GIDFKIRTIEL-DGKKIKLQIWDTAGQER-----------FRTI   68 (167)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCcC-CcccccCc-cceEEEEEEEE-CCEEEEEEEEeCCchHH-----------HHHH
Confidence            47999999999999999999998763 22222111 11112222233 33  4689999999442           2223


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ...++..+|++++|+|+++..+... ..+++.+.....  ...|+++|.||+|+.+..
T Consensus        69 ~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p~iiv~nK~Dl~~~~  124 (167)
T cd01867          69 TTAYYRGAMGIILVYDITDEKSFENIRNWMRNIEEHAS--EDVERMLVGNKCDMEEKR  124 (167)
T ss_pred             HHHHhCCCCEEEEEEECcCHHHHHhHHHHHHHHHHhCC--CCCcEEEEEECccccccc
Confidence            3456778999999999974332222 344444444322  236899999999998643

Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhi

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.73  E-value=2.8e-16  Score=124.46  Aligned_cols=126  Identities=23%  Similarity=0.196  Sum_probs=92.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ...++|+++|.+|+|||||+|+|++....... ..++.|.........+ .+..+.+|||||+....   ......+...
T Consensus        36 ~~~~~V~IvG~~nvGKSSL~nrl~~~~~~~v~-~~~gvT~d~~~~~~~~-~~~~~~l~DT~G~~~~~---~~~~~~~~~~  110 (472)
T PRK03003         36 GPLPVVAVVGRPNVGKSTLVNRILGRREAVVE-DVPGVTRDRVSYDAEW-NGRRFTVVDTGGWEPDA---KGLQASVAEQ  110 (472)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCcCccccc-CCCCCCEeeEEEEEEE-CCcEEEEEeCCCcCCcc---hhHHHHHHHH
Confidence            34578999999999999999999987642222 2344555555555556 77889999999986321   2244455555


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +..++..+|++|+|+|+++..+..+..+.+.++..     ..|+++|+||+|+...
T Consensus       111 ~~~~~~~aD~il~VvD~~~~~s~~~~~i~~~l~~~-----~~piilV~NK~Dl~~~  161 (472)
T PRK03003        111 AEVAMRTADAVLFVVDATVGATATDEAVARVLRRS-----GKPVILAANKVDDERG  161 (472)
T ss_pred             HHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHc-----CCCEEEEEECccCCcc
Confidence            56677789999999999977777776666666542     3799999999998643

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.73  E-value=1.9e-16  Score=108.67  Aligned_cols=120  Identities=18%  Similarity=0.104  Sum_probs=75.6

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .+|+++|++|+|||||++++++...........+............ ....+.+|||||...           +......
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~l~i~Dt~G~~~-----------~~~~~~~   68 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRN-KEVRVNFFDLSGHPE-----------YLEVRNE   68 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECC-eEEEEEEEECCccHH-----------HHHHHHH
Confidence            3799999999999999999998774322211111111111122211 235788999999642           2233345


Q ss_pred             ccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcc---cccceEEEEEeCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGK---KVFDYMIVVFTGGDELE  151 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~---~~~~~~~iv~tk~D~~~  151 (173)
                      +++.++++++|+|.+++-+.. ...+++.+......   ....|+++|.||+|+..
T Consensus        69 ~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  124 (168)
T cd04119          69 FYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTK  124 (168)
T ss_pred             HhccCCEEEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhccc
Confidence            678899999999998443222 23455555554332   12378999999999874

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.

>cd01878 HflX HflX subfamily

Probab=99.73  E-value=3.1e-16  Score=111.46  Aligned_cols=129  Identities=23%  Similarity=0.189  Sum_probs=81.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ++..+|+++|++|+|||||+|.+++........  ...|.........+.....+.+|||||+.+...  ......+...
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~~~~~~~--~~~t~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~--~~~~~~~~~~  114 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGADVYAEDQ--LFATLDPTTRRLRLPDGREVLLTDTVGFIRDLP--HQLVEAFRST  114 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcchhccCCc--cceeccceeEEEEecCCceEEEeCCCccccCCC--HHHHHHHHHH
Confidence            456899999999999999999999976422221  223333333344442334899999999865321  2222223332


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHH-HHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEE-AALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      + ..+..+|++++|+|+++....... .+.+.+... +. ...|+++|+||+|+...
T Consensus       115 ~-~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~-~~-~~~~viiV~NK~Dl~~~  168 (204)
T cd01878         115 L-EEVAEADLLLHVVDASDPDYEEQIETVEKVLKEL-GA-EDIPMILVLNKIDLLDD  168 (204)
T ss_pred             H-HHHhcCCeEEEEEECCCCChhhHHHHHHHHHHHc-Cc-CCCCEEEEEEccccCCh
Confidence            2 245678999999999855444432 333444433 21 12689999999999765

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.73  E-value=2.3e-16  Score=124.02  Aligned_cols=122  Identities=22%  Similarity=0.198  Sum_probs=91.8

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      ++|+++|.+|+|||||+|.|++....... ...+.|.........+ .+..+.+|||||+....   ......+......
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~-~~~~~t~d~~~~~~~~-~~~~~~liDT~G~~~~~---~~~~~~~~~~~~~   76 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVA-DTPGVTRDRIYGEAEW-LGREFILIDTGGIEPDD---DGFEKQIREQAEL   76 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeC-CCCCCcccceEEEEEE-CCcEEEEEECCCCCCcc---hhHHHHHHHHHHH
Confidence            57999999999999999999987642222 2344555555555666 77899999999998622   1244455555566


Q ss_pred             ccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      ++..+|++++|+|+.+.++..+....+++++.     ..|+++|+||+|...
T Consensus        77 ~~~~ad~il~vvd~~~~~~~~~~~~~~~l~~~-----~~piilv~NK~D~~~  123 (435)
T PRK00093         77 AIEEADVILFVVDGRAGLTPADEEIAKILRKS-----NKPVILVVNKVDGPD  123 (435)
T ss_pred             HHHhCCEEEEEEECCCCCCHHHHHHHHHHHHc-----CCcEEEEEECccCcc
Confidence            77889999999999877888877777777654     278999999999654

>cd01865 Rab3 Rab3 subfamily

Probab=99.73  E-value=2.5e-16  Score=108.27  Aligned_cols=119  Identities=11%  Similarity=0.051  Sum_probs=73.9

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      .+++++|.+|+|||||++++++...........+  ........... ....+.+|||||...           +.....
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~--~~~~~~~~~~~~~~~~~~l~Dt~g~~~-----------~~~~~~   68 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVG--IDFKVKTVFRNDKRVKLQIWDTAGQER-----------YRTITT   68 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcee--eEEEEEEEEECCEEEEEEEEECCChHH-----------HHHHHH
Confidence            5899999999999999999998763221111111  11111222221 224789999999542           233334


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .+++.++++++|+|.++.-+.+. ..+++.+......  ..|+++|.||+|+....
T Consensus        69 ~~~~~~~~~l~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~piivv~nK~Dl~~~~  122 (165)
T cd01865          69 AYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWD--NAQVILVGNKCDMEDER  122 (165)
T ss_pred             HHccCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCC--CCCEEEEEECcccCccc
Confidence            56889999999999974322211 3344444433222  26899999999987653

The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promot

>cd04122 Rab14 Rab14 subfamily

Probab=99.72  E-value=2.3e-16  Score=108.49  Aligned_cols=116  Identities=15%  Similarity=0.142  Sum_probs=74.0

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeE--EEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCE--MQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~--~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      .+|+++|.+|+|||||++++.+... .....   .|....  ...... .+  ..+.+|||||..           ++..
T Consensus         3 ~ki~iiG~~~vGKTsli~~~~~~~~-~~~~~---~t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~-----------~~~~   66 (166)
T cd04122           3 FKYIIIGDMGVGKSCLLHQFTEKKF-MADCP---HTIGVEFGTRIIEV-NGQKIKLQIWDTAGQE-----------RFRA   66 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCC-CCCCC---cccceeEEEEEEEE-CCEEEEEEEEECCCcH-----------HHHH
Confidence            5899999999999999999987653 22211   121111  112222 33  367999999943           3334


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ....++++++++++|+|+++.-+.+. ..+++.+.....  ...|+++|.||+|+....
T Consensus        67 ~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~--~~~~iiiv~nK~Dl~~~~  123 (166)
T cd04122          67 VTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTN--PNTVIFLIGNKADLEAQR  123 (166)
T ss_pred             HHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCC--CCCeEEEEEECccccccc
Confidence            44456788999999999984432221 244444433322  236899999999987653

Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GT

>cd01866 Rab2 Rab2 subfamily

Probab=99.72  E-value=2.9e-16  Score=108.30  Aligned_cols=120  Identities=15%  Similarity=0.069  Sum_probs=74.5

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ..+|+++|.+|+|||||++.+++...........+.+.......... ....+.+|||||..           ++.....
T Consensus         4 ~~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~i~Dt~G~~-----------~~~~~~~   71 (168)
T cd01866           4 LFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDG-KQIKLQIWDTAGQE-----------SFRSITR   71 (168)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECC-EEEEEEEEECCCcH-----------HHHHHHH
Confidence            47999999999999999999998764222221112222112222211 23478999999943           3333445


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .++..+|++++|+|+++..+... ..++..++....  ...|+++|.||.|+...
T Consensus        72 ~~~~~~d~il~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~pvivv~nK~Dl~~~  124 (168)
T cd01866          72 SYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSN--SNMTIMLIGNKCDLESR  124 (168)
T ss_pred             HHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCC--CCCcEEEEEECcccccc
Confidence            56778999999999984322221 233333333221  23789999999998854

Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key featur

>cd01861 Rab6 Rab6 subfamily

Probab=99.72  E-value=3.3e-16  Score=107.01  Aligned_cols=117  Identities=13%  Similarity=0.105  Sum_probs=74.8

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      .+|+++|++|+|||||++++++.......  .+..+.......... ++  ..+.+|||||..           .+....
T Consensus         1 ~ki~liG~~~~GKSsli~~l~~~~~~~~~--~~~~~~~~~~~~~~~-~~~~~~l~~~D~~G~~-----------~~~~~~   66 (161)
T cd01861           1 HKLVFLGDQSVGKTSIITRFMYDTFDNQY--QATIGIDFLSKTMYL-EDKTVRLQLWDTAGQE-----------RFRSLI   66 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccC--CCceeeeEEEEEEEE-CCEEEEEEEEECCCcH-----------HHHHHH
Confidence            37999999999999999999987642221  122222222222333 33  358999999943           223334


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...+..+|++++|+++++..+... ..+++.+....+.  ..|+++++||+|+...
T Consensus        67 ~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~~iilv~nK~D~~~~  120 (161)
T cd01861          67 PSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGN--DVIIVLVGNKTDLSDK  120 (161)
T ss_pred             HHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCC--CCEEEEEEEChhcccc
Confidence            456778899999999984433222 3444444443222  3799999999999654

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate

>cd04113 Rab4 Rab4 subfamily

Probab=99.72  E-value=2.9e-16  Score=107.40  Aligned_cols=118  Identities=14%  Similarity=0.135  Sum_probs=74.5

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      .+++++|++|+|||||++.+++..........  .+........... ....+.+|||||...           +.....
T Consensus         1 ~ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~l~l~D~~G~~~-----------~~~~~~   67 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRFVENKFKEDSQHT--IGVEFGSKIIRVGGKRVKLQIWDTAGQER-----------FRSVTR   67 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCc--eeeeEEEEEEEECCEEEEEEEEECcchHH-----------HHHhHH
Confidence            37999999999999999999986632222111  1111111222221 224688999999542           223334


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .+++.++++++|+|+++..+... ..++..++.....  ..|++++.||+|+...
T Consensus        68 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~~iivv~nK~D~~~~  120 (161)
T cd04113          68 SYYRGAAGALLVYDITNRTSFEALPTWLSDARALASP--NIVVILVGNKSDLADQ  120 (161)
T ss_pred             HHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCC--CCeEEEEEEchhcchh
Confidence            56778899999999985443332 3444444444322  3789999999998764

Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p

>cd04140 ARHI_like ARHI subfamily

Probab=99.72  E-value=3.1e-16  Score=107.84  Aligned_cols=120  Identities=18%  Similarity=0.115  Sum_probs=77.6

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .+|+++|.+|+|||||++++++... .....+.............. ....+.+|||||....           ......
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f-~~~~~~t~~~~~~~~~~~~~-~~~~l~i~Dt~G~~~~-----------~~~~~~   68 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTF-RESYIPTIEDTYRQVISCSK-NICTLQITDTTGSHQF-----------PAMQRL   68 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCC-CCCcCCcchheEEEEEEECC-EEEEEEEEECCCCCcc-----------hHHHHH
Confidence            5899999999999999999998663 22222222222222222222 3346889999997642           112224


Q ss_pred             ccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHccc-ccceEEEEEeCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKK-VFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~-~~~~~~iv~tk~D~~~~  152 (173)
                      ++..++++++|++.++..+.. ...+++.+.+..+.. ...|+++|.||+|+...
T Consensus        69 ~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~  123 (165)
T cd04140          69 SISKGHAFILVYSVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHK  123 (165)
T ss_pred             HhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECcccccc
Confidence            566789999999998554433 245666666654322 34799999999998753

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=99.72  E-value=3.6e-16  Score=107.47  Aligned_cols=115  Identities=14%  Similarity=0.107  Sum_probs=76.3

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee--CCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK--DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      +.++++|.+|+||||++|+|++......  ...+.|...........  .+..+.+|||||...           +....
T Consensus         1 ~~i~iiG~~~~GKtsli~~l~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~-----------~~~~~   67 (168)
T cd01887           1 PVVTVMGHVDHGKTTLLDKIRKTNVAAG--EAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEA-----------FTNMR   67 (168)
T ss_pred             CEEEEEecCCCCHHHHHHHHHhcccccc--cCCCeEEeeccEEEecccCCcceEEEEeCCCcHH-----------HHHHH
Confidence            4699999999999999999997664221  22233433333334331  256899999999643           12222


Q ss_pred             HhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...+..+|++++|+++++.........++.+..     ...|+++|+||+|+...
T Consensus        68 ~~~~~~~d~il~v~d~~~~~~~~~~~~~~~~~~-----~~~p~ivv~NK~Dl~~~  117 (168)
T cd01887          68 ARGASLTDIAILVVAADDGVMPQTIEAIKLAKA-----ANVPFIVALNKIDKPNA  117 (168)
T ss_pred             HHHHhhcCEEEEEEECCCCccHHHHHHHHHHHH-----cCCCEEEEEEceecccc
Confidence            335567899999999985554444444444433     22789999999998754

IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.

>cd01868 Rab11_like Rab11-like

Probab=99.71  E-value=4.5e-16  Score=106.84  Aligned_cols=119  Identities=16%  Similarity=0.128  Sum_probs=75.1

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ..+++++|++|+|||||++++++.... .... +..+.......+.. .+  ..+.+|||||..           ++...
T Consensus         3 ~~ki~vvG~~~~GKSsli~~l~~~~~~-~~~~-~t~~~~~~~~~~~~-~~~~~~~~l~D~~g~~-----------~~~~~   68 (165)
T cd01868           3 LFKIVLIGDSGVGKSNLLSRFTRNEFN-LDSK-STIGVEFATRSIQI-DGKTIKAQIWDTAGQE-----------RYRAI   68 (165)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCC-CCCC-CccceEEEEEEEEE-CCEEEEEEEEeCCChH-----------HHHHH
Confidence            368999999999999999999987632 2211 11222222223333 33  368899999954           22233


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ...+++.++++++|+|+++..+..+ ..+++.+.+....  ..|+++|.||.|+....
T Consensus        69 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~pi~vv~nK~Dl~~~~  124 (165)
T cd01868          69 TSAYYRGAVGALLVYDITKKQTFENVERWLKELRDHADS--NIVIMLVGNKSDLRHLR  124 (165)
T ss_pred             HHHHHCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCC--CCeEEEEEECccccccc
Confidence            3456678899999999984333222 2344444444222  27899999999987543

Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.71  E-value=5.9e-16  Score=121.50  Aligned_cols=127  Identities=19%  Similarity=0.139  Sum_probs=86.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+++++|.+|+|||||+|+|++....... ...+.|.......... .+..+.+|||||+.......+.+.......
T Consensus       170 ~~~~~v~ivG~~~~GKSsLin~l~~~~~~~~~-~~~gtt~~~~~~~~~~-~~~~~~liDT~G~~~~~~~~~~~e~~~~~~  247 (429)
T TIGR03594       170 DGPIKIAIIGRPNVGKSTLVNALLGEERVIVS-DIAGTTRDSIDIPFER-NGKKYLLIDTAGIRRKGKVTEGVEKYSVLR  247 (429)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCeeecC-CCCCceECcEeEEEEE-CCcEEEEEECCCccccccchhhHHHHHHHH
Confidence            34578999999999999999999987632222 2233444443344444 677899999999976543322221111111


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDEL  150 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~  150 (173)
                      ...+++.+|++++|+|+.+..+..+...++.+.+.     ..|+++|+||+|+.
T Consensus       248 ~~~~~~~ad~~ilV~D~~~~~~~~~~~~~~~~~~~-----~~~iiiv~NK~Dl~  296 (429)
T TIGR03594       248 TLKAIERADVVLLVLDATEGITEQDLRIAGLILEA-----GKALVIVVNKWDLV  296 (429)
T ss_pred             HHHHHHhCCEEEEEEECCCCccHHHHHHHHHHHHc-----CCcEEEEEECcccC
Confidence            22356788999999999978887777666555442     27899999999998

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.71  E-value=7.1e-16  Score=116.67  Aligned_cols=127  Identities=20%  Similarity=0.170  Sum_probs=81.1

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      -.|+|||.++||||||+|+|++...-  ....+..|.......+.+.+...+.++||||+.+.......+...+.+.   
T Consensus       158 adV~lvG~pnaGKSTLl~~lt~~~~~--va~y~fTT~~p~ig~v~~~~~~~~~i~D~PGli~~a~~~~gLg~~flrh---  232 (329)
T TIGR02729       158 ADVGLVGLPNAGKSTLISAVSAAKPK--IADYPFTTLVPNLGVVRVDDGRSFVIADIPGLIEGASEGAGLGHRFLKH---  232 (329)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhcCCcc--ccCCCCCccCCEEEEEEeCCceEEEEEeCCCcccCCcccccHHHHHHHH---
Confidence            35899999999999999999986531  1122233444444445552337899999999987554443444444433   


Q ss_pred             ccCCceEEEEEeecCCC---CCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSR---FPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~---~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                       ..+++++++|+|+++.   -..+ ...+.+++......-...|+++|+||+|+...
T Consensus       233 -ierad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~  288 (329)
T TIGR02729       233 -IERTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDE  288 (329)
T ss_pred             -HHhhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCCh
Confidence             4567999999999843   1111 23344444433211134799999999999765

This model describes a univeral, mostly one-gene-per-genome GTP-binding protein that associates with ribosomal subunits and appears to play a role in ribosomal RNA maturation. This GTPase, related to the nucleolar protein Obg, is designated CgtA in bacteria. Mutations in this gene are pleiotropic, but it appears that effects on cellular functions such as chromosome partition may be secondary to the effect on ribosome structure. Recent work done in Vibrio cholerae shows an essential role in the stringent response, in which RelA-dependent ability to synthesize the alarmone ppGpp is required for deletion of this GTPase to be lethal.

>cd04171 SelB SelB subfamily

Probab=99.71  E-value=7.6e-16  Score=105.32  Aligned_cols=116  Identities=21%  Similarity=0.303  Sum_probs=75.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCC--ccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRA--FKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~--~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      .|+++|.+|+|||||+|+|++...  +... ...+.|............+..+.+|||||...           +.....
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~DtpG~~~-----------~~~~~~   69 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIETDRLPEE-KKRGITIDLGFAYLDLPSGKRLGFIDVPGHEK-----------FIKNML   69 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhCcccccchhh-hccCceEEeeeEEEEecCCcEEEEEECCChHH-----------HHHHHH
Confidence            689999999999999999997531  1111 11233444444444442267899999999532           223333


Q ss_pred             hccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..+..+|++++|+|+++.........+..+... +   ..|+++++||+|+...
T Consensus        70 ~~~~~ad~ii~V~d~~~~~~~~~~~~~~~~~~~-~---~~~~ilv~NK~Dl~~~  119 (164)
T cd04171          70 AGAGGIDLVLLVVAADEGIMPQTREHLEILELL-G---IKRGLVVLTKADLVDE  119 (164)
T ss_pred             hhhhcCCEEEEEEECCCCccHhHHHHHHHHHHh-C---CCcEEEEEECccccCH
Confidence            456789999999999854444444444433222 2   1489999999998754

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo

>cd04124 RabL2 RabL2 subfamily

Probab=99.71  E-value=2.6e-16  Score=107.81  Aligned_cols=115  Identities=17%  Similarity=0.079  Sum_probs=73.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      .+|+++|.+|+|||||++.+++.............+...  ...... ....+.+|||||...           +.....
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~i~Dt~G~~~-----------~~~~~~   67 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYK--HNAKFEGKTILVDFWDTAGQER-----------FQTMHA   67 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEE--EEEEECCEEEEEEEEeCCCchh-----------hhhhhH
Confidence            378999999999999999998765321111111111111  112220 234678999999542           333444


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDEL  150 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~  150 (173)
                      .+++.+|++++|+|.++..+..+ ..+++.+++..   ...|+++|+||+|+.
T Consensus        68 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~---~~~p~ivv~nK~Dl~  117 (161)
T cd04124          68 SYYHKAHACILVFDVTRKITYKNLSKWYEELREYR---PEIPCIVVANKIDLD  117 (161)
T ss_pred             HHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhC---CCCcEEEEEECccCc
Confidence            57788999999999985444332 35555555432   237999999999974

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b

>cd01850 CDC_Septin CDC/Septin

Probab=99.71  E-value=7.5e-16  Score=114.04  Aligned_cols=127  Identities=21%  Similarity=0.257  Sum_probs=82.1

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCC------CCccceeeEEEEEEee-CC--ceEEEEeCCCCCCCCCCcHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRAS------SSGVTSTCEMQRTVLK-DG--QVVNVIDTPGLFDFSAGSEFV   89 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~------~~~~t~~~~~~~~~~~-~~--~~~~v~DtpG~~~~~~~~~~~   89 (173)
                      ..+|+++|.+|+|||||+|+|++.........      ....|........... ++  ..+.+|||||+.+...+.. .
T Consensus         4 ~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~~~~~-~   82 (276)
T cd01850           4 QFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDNINNSD-C   82 (276)
T ss_pred             EEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCccccccchh-h
Confidence            36899999999999999999999876543321      1233333332222221 33  3699999999998654332 2


Q ss_pred             HHHHHH--------HH-------H-h--ccCCceEEEEEeecCC-CCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCC
Q 043441           90 GMEIVK--------CI-------G-L--AKDGIHAVLVGFSVRS-RFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDEL  150 (173)
Q Consensus        90 ~~~~~~--------~~-------~-~--~~~~~~~ii~v~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~  150 (173)
                      .+.+.+        ++       . .  .-.++|+++++++.+. .+...+...++.+.+    .  .++++|+||+|++
T Consensus        83 ~~~i~~yi~~q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~~l~~~D~~~lk~l~~----~--v~vi~VinK~D~l  156 (276)
T cd01850          83 WKPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGHGLKPLDIEFMKRLSK----R--VNIIPVIAKADTL  156 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCCCCCHHHHHHHHHHhc----c--CCEEEEEECCCcC
Confidence            222221        11       1 1  1225789999998863 566777777777764    2  7899999999998


Q ss_pred             CC
Q 043441          151 ED  152 (173)
Q Consensus       151 ~~  152 (173)
                      ..
T Consensus       157 ~~  158 (276)
T cd01850         157 TP  158 (276)
T ss_pred             CH
Confidence            64

Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.71  E-value=9.8e-16  Score=118.93  Aligned_cols=124  Identities=16%  Similarity=0.104  Sum_probs=81.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      .|+|+|.++||||||+|+|++...  .....+..|.......+.+.++..++++||||+.+.......+..++.+    .
T Consensus       160 dVglVG~pNaGKSTLLn~Lt~ak~--kIa~ypfTTl~PnlG~v~~~~~~~~~laD~PGliega~~~~gLg~~fLr----h  233 (424)
T PRK12297        160 DVGLVGFPNVGKSTLLSVVSNAKP--KIANYHFTTLVPNLGVVETDDGRSFVMADIPGLIEGASEGVGLGHQFLR----H  233 (424)
T ss_pred             cEEEEcCCCCCHHHHHHHHHcCCC--ccccCCcceeceEEEEEEEeCCceEEEEECCCCcccccccchHHHHHHH----H
Confidence            799999999999999999998763  2222333455555555555236789999999998754444444444443    3


Q ss_pred             cCCceEEEEEeecCCC--CCH--HHHHHHHHHHHHHcccccceEEEEEeCCCCC
Q 043441          101 KDGIHAVLVGFSVRSR--FPQ--EEEAALHSWQTLFGKKVFDYMIVVFTGGDEL  150 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~~--~~~--~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~  150 (173)
                      ..+++++++|+|+++.  ...  ....+.+++..........|.+||+||+|+.
T Consensus       234 ier~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~  287 (424)
T PRK12297        234 IERTRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLP  287 (424)
T ss_pred             HhhCCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCc
Confidence            4567999999999732  111  1234444554432211347999999999964

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.71  E-value=4.6e-16  Score=106.94  Aligned_cols=118  Identities=16%  Similarity=0.163  Sum_probs=73.7

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      .+++++|++|+|||||++.+++........  +..+.......... .+  ..+.+|||||...           +....
T Consensus         3 ~ki~i~G~~~vGKSsli~~~~~~~~~~~~~--~t~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~-----------~~~~~   68 (166)
T cd01869           3 FKLLLIGDSGVGKSCLLLRFADDTYTESYI--STIGVDFKIRTIEL-DGKTIKLQIWDTAGQER-----------FRTIT   68 (166)
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCCCCC--CccceeEEEEEEEE-CCEEEEEEEEECCCcHh-----------HHHHH
Confidence            689999999999999999999866322111  11122222222333 33  3678999999442           23333


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ..+++.++++++|+|+++.-+... ..+++.+......  ..|++++.||.|+....
T Consensus        69 ~~~~~~~~~ii~v~d~~~~~s~~~l~~~~~~~~~~~~~--~~~~iiv~nK~Dl~~~~  123 (166)
T cd01869          69 SSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASE--NVNKLLVGNKCDLTDKR  123 (166)
T ss_pred             HHHhCcCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCC--CCcEEEEEEChhccccc
Confidence            456778999999999984322221 2344444433211  26899999999986543

Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.70  E-value=5.5e-16  Score=121.89  Aligned_cols=129  Identities=19%  Similarity=0.142  Sum_probs=87.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+++++|.+|+|||||+|+|++........ ..+.|.......... .+..+.++||||+.......+.........
T Consensus       171 ~~~~~v~ivG~~n~GKStlin~ll~~~~~~~~~-~~gtt~~~~~~~~~~-~~~~~~lvDT~G~~~~~~~~~~~e~~~~~~  248 (435)
T PRK00093        171 DEPIKIAIIGRPNVGKSSLINALLGEERVIVSD-IAGTTRDSIDTPFER-DGQKYTLIDTAGIRRKGKVTEGVEKYSVIR  248 (435)
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhCCCceeecC-CCCceEEEEEEEEEE-CCeeEEEEECCCCCCCcchhhHHHHHHHHH
Confidence            456899999999999999999999876432222 233444443344444 778899999999876433322221111111


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...+.+.+|++++|+|+++..+..+...+..+.+.     ..|+++++||+|+...
T Consensus       249 ~~~~~~~ad~~ilViD~~~~~~~~~~~i~~~~~~~-----~~~~ivv~NK~Dl~~~  299 (435)
T PRK00093        249 TLKAIERADVVLLVIDATEGITEQDLRIAGLALEA-----GRALVIVVNKWDLVDE  299 (435)
T ss_pred             HHHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHHc-----CCcEEEEEECccCCCH
Confidence            12356678999999999988887777666555542     2789999999999843

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.70  E-value=7.3e-17  Score=123.37  Aligned_cols=137  Identities=21%  Similarity=0.208  Sum_probs=99.1

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ...+++++|.+++|||||+|+|+|........ ..+.|.+.-....++ ++..+.++||+|+..-..-.+..  +..+..
T Consensus       177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~~-~aGTTRD~I~~~~e~-~~~~~~liDTAGiRrk~ki~e~~--E~~Sv~  252 (444)
T COG1160         177 DPIKIAIIGRPNVGKSSLINAILGEERVIVSD-IAGTTRDSIDIEFER-DGRKYVLIDTAGIRRKGKITESV--EKYSVA  252 (444)
T ss_pred             CceEEEEEeCCCCCchHHHHHhccCceEEecC-CCCccccceeeeEEE-CCeEEEEEECCCCCcccccccce--EEEeeh
Confidence            56999999999999999999999987643332 234555555555666 89999999999998643222211  111111


Q ss_pred             --HhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHHHhcc
Q 043441           98 --GLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGR  163 (173)
Q Consensus        98 --~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~  163 (173)
                        ......++++++|+|++..++..+...+..+.+.-     .+++||+||||+++.+..+.+++-+.
T Consensus       253 rt~~aI~~a~vvllviDa~~~~~~qD~~ia~~i~~~g-----~~~vIvvNKWDl~~~~~~~~~~~k~~  315 (444)
T COG1160         253 RTLKAIERADVVLLVIDATEGISEQDLRIAGLIEEAG-----RGIVIVVNKWDLVEEDEATMEEFKKK  315 (444)
T ss_pred             hhHhHHhhcCEEEEEEECCCCchHHHHHHHHHHHHcC-----CCeEEEEEccccCCchhhHHHHHHHH
Confidence              12455679999999999899999988888888762     67999999999998754456655444

>cd00154 Rab Rab family

Probab=99.70  E-value=7.2e-16  Score=104.46  Aligned_cols=117  Identities=16%  Similarity=0.104  Sum_probs=72.8

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .+|+++|++|+|||||++.+++...........+.+.......... ....+.+||+||..           .+......
T Consensus         1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~l~D~~g~~-----------~~~~~~~~   68 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDG-KTVKLQIWDTAGQE-----------RFRSITPS   68 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECC-EEEEEEEEecCChH-----------HHHHHHHH
Confidence            3799999999999999999998775332111111222111111111 23578899999964           23334445


Q ss_pred             ccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDEL  150 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~  150 (173)
                      ++..++++++|+++.+.-+... ..++..+.....  ...|+++++||+|+.
T Consensus        69 ~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~--~~~p~ivv~nK~D~~  118 (159)
T cd00154          69 YYRGAHGAILVYDITNRESFENLDKWLKELKEYAP--ENIPIILVGNKIDLE  118 (159)
T ss_pred             HhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCC--CCCcEEEEEEccccc
Confidence            6778899999999984221111 234444444321  237999999999996

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di

>cd04109 Rab28 Rab28 subfamily

Probab=99.70  E-value=7.3e-16  Score=110.48  Aligned_cols=118  Identities=17%  Similarity=0.128  Sum_probs=76.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeE--EEEEEeeC--CceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCE--MQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~--~~~~~~~~--~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      +++++|.+|+|||||++.+++... .....   .|....  ........  ...+.+|||||..           .....
T Consensus         2 Ki~ivG~~~vGKSsLi~~l~~~~~-~~~~~---~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~-----------~~~~l   66 (215)
T cd04109           2 KIVVLGDGAVGKTSLCRRFAKEGF-GKSYK---QTIGLDFFSKRVTLPGNLNVTLQVWDIGGQS-----------IGGKM   66 (215)
T ss_pred             EEEEECcCCCCHHHHHHHHhcCCC-CCCCC---CceeEEEEEEEEEeCCCCEEEEEEEECCCcH-----------HHHHH
Confidence            789999999999999999997653 22221   222212  22233312  3578999999943           22333


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcc-cccceEEEEEeCCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGK-KVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~-~~~~~~~iv~tk~D~~~~~  153 (173)
                      ...+++.+|++++|+|+++.-+.+. ..+++.+.+.... ....|+++|.||+|+....
T Consensus        67 ~~~~~~~ad~iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~  125 (215)
T cd04109          67 LDKYIYGAHAVFLVYDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNR  125 (215)
T ss_pred             HHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECccccccc
Confidence            4456789999999999984433332 3466666665432 1224789999999987543

First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumbly the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.70  E-value=9.1e-16  Score=105.01  Aligned_cols=119  Identities=15%  Similarity=0.065  Sum_probs=74.7

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .+++++|++|+|||||+|++++...........+.+.......... ....+.+|||||..           ++......
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~-~~~~~~i~D~~G~~-----------~~~~~~~~   69 (163)
T cd01860           2 FKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDD-TTVKFEIWDTAGQE-----------RYRSLAPM   69 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECC-EEEEEEEEeCCchH-----------HHHHHHHH
Confidence            5899999999999999999998774321222222112122222222 23478899999943           22333344


Q ss_pred             ccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +++.+|++++|+++++.-+-. ...+++.+.....  ...|++++.||.|+...
T Consensus        70 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~~iivv~nK~D~~~~  121 (163)
T cd01860          70 YYRGAAAAIVVYDITSEESFEKAKSWVKELQRNAS--PNIIIALVGNKADLESK  121 (163)
T ss_pred             HhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCC--CCCeEEEEEECcccccc
Confidence            677889999999997332222 2344455555432  23689999999998743

This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.70  E-value=1.4e-15  Score=119.61  Aligned_cols=125  Identities=15%  Similarity=0.107  Sum_probs=81.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      .|+|||.++||||||+|+|++....  ....+..|.......+.. .+..++++||||+.+.......+..++.+    .
T Consensus       161 dV~LVG~PNAGKSTLln~Ls~akpk--IadypfTTl~P~lGvv~~-~~~~f~laDtPGliegas~g~gLg~~fLr----h  233 (500)
T PRK12296        161 DVGLVGFPSAGKSSLISALSAAKPK--IADYPFTTLVPNLGVVQA-GDTRFTVADVPGLIPGASEGKGLGLDFLR----H  233 (500)
T ss_pred             eEEEEEcCCCCHHHHHHHHhcCCcc--ccccCcccccceEEEEEE-CCeEEEEEECCCCccccchhhHHHHHHHH----H
Confidence            5899999999999999999987642  222334455555555555 66789999999998754444444444443    3


Q ss_pred             cCCceEEEEEeecCCCC----CHHH-HHHHHHHHHHHc---------ccccceEEEEEeCCCCCCC
Q 043441          101 KDGIHAVLVGFSVRSRF----PQEE-EAALHSWQTLFG---------KKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~~~----~~~~-~~~~~~l~~~~~---------~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..+++++++|+|+++.-    ...+ ..+.+.|.....         .....|.+||+||+|+.+.
T Consensus       234 ieradvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da  299 (500)
T PRK12296        234 IERCAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDA  299 (500)
T ss_pred             HHhcCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhh
Confidence            45679999999997311    1111 222233333221         1123799999999998754

>cd04154 Arl2 Arl2 subfamily

Probab=99.70  E-value=6.8e-16  Score=106.94  Aligned_cols=120  Identities=12%  Similarity=0.124  Sum_probs=78.0

Q ss_pred             CCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           14 SPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      .......+++++|++|+|||||++++++... . ..   ..|.......... ++..+.+|||||...           +
T Consensus         9 ~~~~~~~kv~ivG~~~~GKTsL~~~l~~~~~-~-~~---~~t~g~~~~~~~~-~~~~l~l~D~~G~~~-----------~   71 (173)
T cd04154           9 KLKEREMRILILGLDNAGKTTILKKLLGEDI-D-TI---SPTLGFQIKTLEY-EGYKLNIWDVGGQKT-----------L   71 (173)
T ss_pred             hcCCCccEEEEECCCCCCHHHHHHHHccCCC-C-Cc---CCccccceEEEEE-CCEEEEEEECCCCHH-----------H
Confidence            3445568999999999999999999998643 1 11   1222223334444 567899999999642           2


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~  152 (173)
                      ...+..+++.+|++++|+|+++.-+..  ....++.+.+..  ....|+++|+||+|+...
T Consensus        72 ~~~~~~~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~  130 (173)
T cd04154          72 RPYWRNYFESTDALIWVVDSSDRLRLD--DCKRELKELLQEERLAGATLLILANKQDLPGA  130 (173)
T ss_pred             HHHHHHHhCCCCEEEEEEECCCHHHHH--HHHHHHHHHHhChhhcCCCEEEEEECcccccC
Confidence            233345677899999999998442222  122233333221  123799999999998754

Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity. Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix. The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI. Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different. In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport. In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis.

>PRK11058 GTPase HflX; Provisional

Probab=99.70  E-value=9.7e-16  Score=119.44  Aligned_cols=128  Identities=20%  Similarity=0.105  Sum_probs=83.7

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ..+.|+++|++|||||||+|+|++...+...  ..+.|.+.......+.....+.++||||+...  ........+....
T Consensus       196 ~~p~ValVG~~NaGKSSLlN~Lt~~~~~v~~--~~~tTld~~~~~i~l~~~~~~~l~DTaG~~r~--lp~~lve~f~~tl  271 (426)
T PRK11058        196 DVPTVSLVGYTNAGKSTLFNRITEARVYAAD--QLFATLDPTLRRIDVADVGETVLADTVGFIRH--LPHDLVAAFKATL  271 (426)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCceeecc--CCCCCcCCceEEEEeCCCCeEEEEecCccccc--CCHHHHHHHHHHH
Confidence            3468999999999999999999997654222  22344444444555533348899999999542  1233334444433


Q ss_pred             HhccCCceEEEEEeecCCCCCHHHHH-HHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEEEA-ALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                       .....+|++++|+|+++........ +.+.+.+. .. ...|+++|+||+|+...
T Consensus       272 -~~~~~ADlIL~VvDaS~~~~~e~l~~v~~iL~el-~~-~~~pvIiV~NKiDL~~~  324 (426)
T PRK11058        272 -QETRQATLLLHVVDAADVRVQENIEAVNTVLEEI-DA-HEIPTLLVMNKIDMLDD  324 (426)
T ss_pred             -HHhhcCCEEEEEEeCCCccHHHHHHHHHHHHHHh-cc-CCCCEEEEEEcccCCCc
Confidence             4567899999999998554444432 33344443 22 13789999999998753

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.70  E-value=9.6e-16  Score=104.79  Aligned_cols=117  Identities=20%  Similarity=0.110  Sum_probs=73.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEe---eCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL---KDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      +|+++|.+|+|||||++.+++.... ....+. ............   .....+.+|||||..           ++....
T Consensus         2 kv~~vG~~~~GKTsl~~~~~~~~~~-~~~~~t-~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~-----------~~~~~~   68 (162)
T cd04106           2 KVIVVGNGNVGKSSMIQRFVKGIFT-KDYKKT-IGVDFLEKQIFLRQSDEDVRLMLWDTAGQE-----------EFDAIT   68 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCC-CCCCCc-EEEEEEEEEEEEcCCCCEEEEEEeeCCchH-----------HHHHhH
Confidence            6999999999999999999986532 222111 111111122222   123578999999943           233334


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ..+++.++++++|+++.+.-+... ..+++.+....   ...|+++|+||.|+....
T Consensus        69 ~~~~~~~~~~v~v~d~~~~~s~~~l~~~~~~~~~~~---~~~p~iiv~nK~Dl~~~~  122 (162)
T cd04106          69 KAYYRGAQACILVFSTTDRESFEAIESWKEKVEAEC---GDIPMVLVQTKIDLLDQA  122 (162)
T ss_pred             HHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhC---CCCCEEEEEEChhccccc
Confidence            456788999999999974322221 23344343322   237999999999987653

Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G

>cd04120 Rab12 Rab12 subfamily

Probab=99.70  E-value=7.1e-16  Score=109.34  Aligned_cols=117  Identities=15%  Similarity=0.185  Sum_probs=76.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      .|+++|..|+|||||++.+.... |.....+ ..........+.. ++  ..+.+|||+|..           ++.....
T Consensus         2 ~vvvlG~~gVGKTSli~r~~~~~-f~~~~~~-Ti~~~~~~~~i~~-~~~~v~l~iwDtaGqe-----------~~~~l~~   67 (202)
T cd04120           2 QVIIIGSRGVGKTSLMRRFTDDT-FCEACKS-GVGVDFKIKTVEL-RGKKIRLQIWDTAGQE-----------RFNSITS   67 (202)
T ss_pred             EEEEECcCCCCHHHHHHHHHhCC-CCCcCCC-cceeEEEEEEEEE-CCEEEEEEEEeCCCch-----------hhHHHHH
Confidence            58999999999999999998765 3222211 1111222223333 33  578999999954           3344445


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .++++++++++|+|.+++-+-+. ..+++.+......  ..|+++|.||+|+...+
T Consensus        68 ~y~~~ad~iIlVfDvtd~~Sf~~l~~w~~~i~~~~~~--~~piilVgNK~DL~~~~  121 (202)
T cd04120          68 AYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASE--DAELLLVGNKLDCETDR  121 (202)
T ss_pred             HHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCC--CCcEEEEEECccccccc
Confidence            67889999999999985544333 3455555444222  37999999999986543

Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.70  E-value=5.1e-16  Score=109.84  Aligned_cols=118  Identities=19%  Similarity=0.152  Sum_probs=78.6

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCcc---ceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGV---TSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~---t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      .+|+++|.+|+|||||+|+|+|......+....+.   +....  .+.......+.+|||||+.+.....+.    +.+.
T Consensus         2 ~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~--~~~~~~~~~l~l~DtpG~~~~~~~~~~----~l~~   75 (197)
T cd04104           2 LNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRT--PYPHPKFPNVTLWDLPGIGSTAFPPDD----YLEE   75 (197)
T ss_pred             eEEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCce--eeecCCCCCceEEeCCCCCcccCCHHH----HHHH
Confidence            57999999999999999999996644333322221   11111  111112357899999999865433222    2211


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                        ..+.++|+++++. .. +++..+..+++.+.+. +    .++++|+||+|+...
T Consensus        76 --~~~~~~d~~l~v~-~~-~~~~~d~~~~~~l~~~-~----~~~ilV~nK~D~~~~  122 (197)
T cd04104          76 --MKFSEYDFFIIIS-ST-RFSSNDVKLAKAIQCM-G----KKFYFVRTKVDRDLS  122 (197)
T ss_pred             --hCccCcCEEEEEe-CC-CCCHHHHHHHHHHHHh-C----CCEEEEEecccchhh
Confidence              2356778888764 33 7888888888888775 2    679999999999754

The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei

>cd04123 Rab21 Rab21 subfamily

Probab=99.70  E-value=1e-15  Score=104.42  Aligned_cols=118  Identities=10%  Similarity=0.046  Sum_probs=74.1

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      .+++++|++|+|||||++++++.......  ....+........... ....+.+|||||...           +.....
T Consensus         1 ~ki~i~G~~~~GKStli~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~-----------~~~~~~   67 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRYVENKFNEKH--ESTTQASFFQKTVNIGGKRIDLAIWDTAGQER-----------YHALGP   67 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCc--CCccceeEEEEEEEECCEEEEEEEEECCchHH-----------HHHhhH
Confidence            37999999999999999999986642211  1111122222222221 223688999999432           222233


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .++..+|++++|+|.++..+.+. ..+++.+......  ..|+++++||+|+...
T Consensus        68 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~piiiv~nK~D~~~~  120 (162)
T cd04123          68 IYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGN--NISLVIVGNKIDLERQ  120 (162)
T ss_pred             HHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCC--CCeEEEEEECcccccc
Confidence            45678899999999974433222 3444555554433  3799999999998854

The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.70  E-value=1e-15  Score=119.87  Aligned_cols=126  Identities=17%  Similarity=0.154  Sum_probs=84.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      ..++.+++++|++|+|||||+|+|++....... ..++.|.........+ ++..+.+|||||+.+.....+...   ..
T Consensus       200 ~~~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs-~~pgtTrd~~~~~i~~-~g~~v~l~DTaG~~~~~~~ie~~g---i~  274 (442)
T TIGR00450       200 LDDGFKLAIVGSPNVGKSSLLNALLKQDRAIVS-DIKGTTRDVVEGDFEL-NGILIKLLDTAGIREHADFVERLG---IE  274 (442)
T ss_pred             hhcCCEEEEECCCCCcHHHHHHHHhCCCCcccC-CCCCcEEEEEEEEEEE-CCEEEEEeeCCCcccchhHHHHHH---HH
Confidence            346689999999999999999999986532122 2234455554555566 778899999999976432212111   11


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ....+++.+|++++|+|+++..+.++. ++..+..   .  ..|+++|+||+|+...
T Consensus       275 ~~~~~~~~aD~il~V~D~s~~~s~~~~-~l~~~~~---~--~~piIlV~NK~Dl~~~  325 (442)
T TIGR00450       275 KSFKAIKQADLVIYVLDASQPLTKDDF-LIIDLNK---S--KKPFILVLNKIDLKIN  325 (442)
T ss_pred             HHHHHHhhCCEEEEEEECCCCCChhHH-HHHHHhh---C--CCCEEEEEECccCCCc
Confidence            223456788999999999866655543 4333321   2  2789999999998654

TrmE, also called MnmE and previously designated ThdF (thiophene and furan oxidation protein), is a GTPase involved in tRNA modification to create 5-methylaminomethyl-2-thiouridine in the wobble position of some tRNAs. This protein and GidA form an alpha2/beta2 heterotetramer.

>cd04110 Rab35 Rab35 subfamily

Probab=99.69  E-value=1.1e-15  Score=108.37  Aligned_cols=120  Identities=16%  Similarity=0.138  Sum_probs=74.4

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ...+|+++|++|+|||||++.+.+...........+  .......+... ....+.+|||||...           +...
T Consensus         5 ~~~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~--~~~~~~~~~~~~~~~~l~l~D~~G~~~-----------~~~~   71 (199)
T cd04110           5 HLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIG--VDFKIRTVEINGERVKLQIWDTAGQER-----------FRTI   71 (199)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhcCCCCCCcCcccc--ceeEEEEEEECCEEEEEEEEeCCCchh-----------HHHH
Confidence            458999999999999999999998663211111111  11111222221 224688999999542           2233


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ...+++.++++++|+|+++.-+... ..+++.+....   ...|+++|.||+|+....
T Consensus        72 ~~~~~~~a~~iilv~D~~~~~s~~~~~~~~~~i~~~~---~~~piivVgNK~Dl~~~~  126 (199)
T cd04110          72 TSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNC---DDVCKVLVGNKNDDPERK  126 (199)
T ss_pred             HHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhC---CCCCEEEEEECccccccc
Confidence            3456778899999999985432221 23444444332   236899999999987643

Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is

>cd04112 Rab26 Rab26 subfamily

Probab=99.69  E-value=8.7e-16  Score=108.11  Aligned_cols=118  Identities=14%  Similarity=0.126  Sum_probs=74.6

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      .+|+++|++|+|||||++.+++.........+ ............. .+  ..+.+|||||..           .+....
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~-t~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~-----------~~~~~~   67 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGNFIA-TVGIDFRNKVVTV-DGVKVKLQIWDTAGQE-----------RFRSVT   67 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccCcCC-cccceeEEEEEEE-CCEEEEEEEEeCCCcH-----------HHHHhh
Confidence            37999999999999999999876632111111 1111111111222 22  468899999943           233333


Q ss_pred             HhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..++..+|++++|+|+++..+.. -..++..+.+....  ..|+++|+||.|+...
T Consensus        68 ~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~--~~piiiv~NK~Dl~~~  121 (191)
T cd04112          68 HAYYRDAHALLLLYDITNKASFDNIRAWLTEIKEYAQE--DVVIMLLGNKADMSGE  121 (191)
T ss_pred             HHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCC--CCcEEEEEEcccchhc
Confidence            45677899999999998443322 24556666665433  2799999999998643

First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.69  E-value=1e-15  Score=104.72  Aligned_cols=117  Identities=15%  Similarity=0.170  Sum_probs=73.9

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      .+|+++|++|+|||||++++++.......  ....+.......... .+  ..+.+|||||..           .+....
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~~--~~~~~~~~~~~~~~~-~~~~~~~~l~D~~G~~-----------~~~~~~   66 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFSEQY--KSTIGVDFKTKTIEV-DGKRVKLQIWDTAGQE-----------RFRSIT   66 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCC--CCceeeEEEEEEEEE-CCEEEEEEEEECCChH-----------HHHHHH
Confidence            37999999999999999999987642111  112222222233333 33  478899999943           222333


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..++..+|++++|++.++..+.+. ..++..+......  ..|++++.||+|+...
T Consensus        67 ~~~~~~~d~~ilv~d~~~~~s~~~~~~~l~~~~~~~~~--~~pivvv~nK~D~~~~  120 (164)
T smart00175       67 SSYYRGAVGALLVYDITNRESFENLKNWLKELREYADP--NVVIMLVGNKSDLEDQ  120 (164)
T ss_pred             HHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCC--CCeEEEEEEchhcccc
Confidence            456678899999999984333222 2344444333222  3799999999998764

Rab GTPases are implicated in vesicle trafficking.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.69  E-value=5.5e-16  Score=106.55  Aligned_cols=118  Identities=11%  Similarity=0.024  Sum_probs=75.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCcccc--CCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSR--ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      +|+++|++|+|||||++.|++......+  ......|.........+ .+..+.+|||||...           +.....
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~l~Dt~G~~~-----------~~~~~~   68 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIGTIEV-GNARLKFWDLGGQES-----------LRSLWD   68 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccceEEEEE-CCEEEEEEECCCChh-----------hHHHHH
Confidence            4899999999999999999875321111  11122344444445555 678999999999753           223334


Q ss_pred             hccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~  152 (173)
                      .++..++++++|+|+.+.-+  ......++.+.+..  ....|+++++||+|+...
T Consensus        69 ~~~~~~~~~v~vvd~~~~~~--~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~~  122 (167)
T cd04160          69 KYYAECHAIIYVIDSTDRER--FEESKSALEKVLRNEALEGVPLLILANKQDLPDA  122 (167)
T ss_pred             HHhCCCCEEEEEEECchHHH--HHHHHHHHHHHHhChhhcCCCEEEEEEccccccC
Confidence            56778999999999973321  11222333333322  123799999999998654

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.

>cd04149 Arf6 Arf6 subfamily

Probab=99.69  E-value=1.3e-15  Score=105.10  Aligned_cols=116  Identities=13%  Similarity=0.094  Sum_probs=76.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      .+..+|+++|.+|+|||||++.+..... ... .   +|.......... ....+.+|||||...           +...
T Consensus         7 ~~~~kv~i~G~~~~GKTsli~~l~~~~~-~~~-~---~t~g~~~~~~~~-~~~~~~l~Dt~G~~~-----------~~~~   69 (168)
T cd04149           7 NKEMRILMLGLDAAGKTTILYKLKLGQS-VTT-I---PTVGFNVETVTY-KNVKFNVWDVGGQDK-----------IRPL   69 (168)
T ss_pred             CCccEEEEECcCCCCHHHHHHHHccCCC-ccc-c---CCcccceEEEEE-CCEEEEEEECCCCHH-----------HHHH
Confidence            3457999999999999999999986542 211 1   122222223334 667899999999642           3333


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc--ccceEEEEEeCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK--VFDYMIVVFTGGDELE  151 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~  151 (173)
                      ...++.++|++++|+|+++..+.  ....+++.+.+...  ...|+++|.||+|+..
T Consensus        70 ~~~~~~~a~~ii~v~D~t~~~s~--~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  124 (168)
T cd04149          70 WRHYYTGTQGLIFVVDSADRDRI--DEARQELHRIINDREMRDALLLVFANKQDLPD  124 (168)
T ss_pred             HHHHhccCCEEEEEEeCCchhhH--HHHHHHHHHHhcCHhhcCCcEEEEEECcCCcc
Confidence            34577889999999999854322  22334444443321  2368999999999864

Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed t

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.69  E-value=3.7e-15  Score=105.06  Aligned_cols=127  Identities=17%  Similarity=0.240  Sum_probs=79.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      ....++|+++|.+|+|||||+|+|++...........+.|.......    .+..+.+|||||+........ ...++..
T Consensus        21 ~~~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~----~~~~l~l~DtpG~~~~~~~~~-~~~~~~~   95 (196)
T PRK00454         21 PDDGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFE----VNDKLRLVDLPGYGYAKVSKE-EKEKWQK   95 (196)
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEe----cCCeEEEeCCCCCCCcCCCch-HHHHHHH
Confidence            44678899999999999999999998652212222233444333322    246899999999875432221 1222222


Q ss_pred             HHHh---ccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           96 CIGL---AKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~---~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ....   ....+++++++++.....+..+....+++..     ...++++++||+|++..
T Consensus        96 ~~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~i~~~l~~-----~~~~~iiv~nK~Dl~~~  150 (196)
T PRK00454         96 LIEEYLRTRENLKGVVLLIDSRHPLKELDLQMIEWLKE-----YGIPVLIVLTKADKLKK  150 (196)
T ss_pred             HHHHHHHhCccceEEEEEEecCCCCCHHHHHHHHHHHH-----cCCcEEEEEECcccCCH
Confidence            2222   2345578888888876666655555554432     12679999999999865

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.69  E-value=1.2e-15  Score=108.19  Aligned_cols=117  Identities=11%  Similarity=-0.005  Sum_probs=74.4

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCcccee--eEEEEEEee--CCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTST--CEMQRTVLK--DGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~--~~~~~~~~~--~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      .+|+++|.+|+|||||++.+++... .....   .|..  .....+...  ....+.+|||||...           +..
T Consensus         1 ~KivivG~~~vGKTsli~~l~~~~~-~~~~~---~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~-----------~~~   65 (201)
T cd04107           1 LKVLVIGDLGVGKTSIIKRYVHGIF-SQHYK---ATIGVDFALKVIEWDPNTVVRLQLWDIAGQER-----------FGG   65 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCC-CCCCC---CceeEEEEEEEEEECCCCEEEEEEEECCCchh-----------hhh
Confidence            3799999999999999999998653 22211   2222  112223331  234689999999642           233


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcc--cccceEEEEEeCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGK--KVFDYMIVVFTGGDELE  151 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~  151 (173)
                      ....++++++++++|+|.++.-+-+. ..++..+......  ....|+++|.||.|+..
T Consensus        66 ~~~~~~~~a~~~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~  124 (201)
T cd04107          66 MTRVYYRGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKK  124 (201)
T ss_pred             hHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCccc
Confidence            33457789999999999984433222 2344445443221  13369999999999863

Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.69  E-value=2.5e-15  Score=103.57  Aligned_cols=113  Identities=14%  Similarity=0.078  Sum_probs=74.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      +|+++|.+|+|||||++.+.+..  .....   .|.......... .+..+.++||||..           ++...+..+
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~~--~~~~~---~t~g~~~~~~~~-~~~~~~i~D~~G~~-----------~~~~~~~~~   63 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGEI--PKKVA---PTVGFTPTKLRL-DKYEVCIFDLGGGA-----------NFRGIWVNY   63 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCC--Ccccc---CcccceEEEEEE-CCEEEEEEECCCcH-----------HHHHHHHHH
Confidence            47999999999999999999762  22222   222222234444 67789999999954           233344567


Q ss_pred             cCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc--ccceEEEEEeCCCCCCC
Q 043441          101 KDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK--VFDYMIVVFTGGDELED  152 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~  152 (173)
                      +..+|++++|+|+++..+..  ....++.+.....  ...|+++|.||.|+...
T Consensus        64 ~~~a~~ii~V~D~s~~~s~~--~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~  115 (167)
T cd04161          64 YAEAHGLVFVVDSSDDDRVQ--EVKEILRELLQHPRVSGKPILVLANKQDKKNA  115 (167)
T ss_pred             HcCCCEEEEEEECCchhHHH--HHHHHHHHHHcCccccCCcEEEEEeCCCCcCC
Confidence            78999999999998443222  2222333332221  23699999999998765

Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=99.69  E-value=2e-16  Score=109.49  Aligned_cols=123  Identities=17%  Similarity=0.080  Sum_probs=74.9

Q ss_pred             EEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeC-CceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccC
Q 043441           24 FVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD-GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKD  102 (173)
Q Consensus        24 lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~  102 (173)
                      ++|++|||||||+|+|++....  .......|.......... . +..+.++||||+.+.....+....++.    ..+.
T Consensus         1 iiG~~~~GKStll~~l~~~~~~--~~~~~~~t~~~~~~~~~~-~~~~~~~i~DtpG~~~~~~~~~~~~~~~~----~~~~   73 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPK--VANYPFTTLEPNLGVVEV-PDGARIQVADIPGLIEGASEGRGLGNQFL----AHIR   73 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCcc--ccCCCceeecCcceEEEc-CCCCeEEEEeccccchhhhcCCCccHHHH----HHHh
Confidence            5899999999999999997641  111222333333334444 5 788999999998653222222222222    2345


Q ss_pred             CceEEEEEeecCCCC-----CHH--HHHHHHHHHHHHcc-----cccceEEEEEeCCCCCCCC
Q 043441          103 GIHAVLVGFSVRSRF-----PQE--EEAALHSWQTLFGK-----KVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus       103 ~~~~ii~v~~~~~~~-----~~~--~~~~~~~l~~~~~~-----~~~~~~~iv~tk~D~~~~~  153 (173)
                      +++++++|+|+.+..     ...  ...+...+......     ....|+++|+||+|+....
T Consensus        74 ~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~  136 (176)
T cd01881          74 RADAILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAE  136 (176)
T ss_pred             ccCEEEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchh
Confidence            689999999998442     221  12333344332211     1247999999999998653

Four of these groups (Obg, DRG, YyaF/YchF, and Ygr210) are characterized by a distinct glycine-rich motif immediately following the Walker B motif (G3 box). Obg/CgtA is an essential gene that is involved in the initiation of sporulation and DNA replication in the bacteria Caulobacter and Bacillus, but its exact molecular role is unknown. Furthermore, several OBG family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. Nog1 is a nucleolar protein that might function in ribosome assembly. The DRG and Nog1 subfamilies are ubiquitous in archaea and eukaryotes, the Ygr210 subfamily is present in archaea and fungi, and the Obg and YyaF/YchF subfamilies are ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and DRG subfamilies appear to

>PLN03110 Rab GTPase; Provisional

Probab=99.69  E-value=1.8e-15  Score=108.47  Aligned_cols=122  Identities=14%  Similarity=0.099  Sum_probs=78.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      .+...+|+++|++|+|||||++.+++...........+..  .....+... ....+.+|||||..           ++.
T Consensus         9 ~~~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~--~~~~~v~~~~~~~~l~l~Dt~G~~-----------~~~   75 (216)
T PLN03110          9 YDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVE--FATRTLQVEGKTVKAQIWDTAGQE-----------RYR   75 (216)
T ss_pred             cCceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEE--EEEEEEEECCEEEEEEEEECCCcH-----------HHH
Confidence            3456899999999999999999999876422221111111  111222221 22478999999943           334


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .....+++.++++++|+|.++.-+.+. ..+++.+......  ..|+++|.||+|+...
T Consensus        76 ~~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~--~~piiiv~nK~Dl~~~  132 (216)
T PLN03110         76 AITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADS--NIVIMMAGNKSDLNHL  132 (216)
T ss_pred             HHHHHHhCCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCC--CCeEEEEEEChhcccc
Confidence            444567788999999999984433322 3455555554332  3789999999998644

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.69  E-value=1.5e-16  Score=114.42  Aligned_cols=128  Identities=23%  Similarity=0.202  Sum_probs=87.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      ..++.+++++|.+|+||||+||+|++.+.  ......+.+.....+......+..+++|||||+.+......    +.+.
T Consensus        36 ~~~pvnvLi~G~TG~GKSSliNALF~~~~--~~v~~vg~~t~~~~~~~~~~~~~~l~lwDtPG~gdg~~~D~----~~r~  109 (296)
T COG3596          36 EKEPVNVLLMGATGAGKSSLINALFQGEV--KEVSKVGVGTDITTRLRLSYDGENLVLWDTPGLGDGKDKDA----EHRQ  109 (296)
T ss_pred             ccCceeEEEecCCCCcHHHHHHHHHhccC--ceeeecccCCCchhhHHhhccccceEEecCCCcccchhhhH----HHHH
Confidence            45678889999999999999999996443  22222222222222222221568999999999998654433    3344


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .+...+.+.|.+++++++.++.-.-+...++.+.-....   .++++++|.+|+..+
T Consensus       110 ~~~d~l~~~DLvL~l~~~~draL~~d~~f~~dVi~~~~~---~~~i~~VtQ~D~a~p  163 (296)
T COG3596         110 LYRDYLPKLDLVLWLIKADDRALGTDEDFLRDVIILGLD---KRVLFVVTQADRAEP  163 (296)
T ss_pred             HHHHHhhhccEEEEeccCCCccccCCHHHHHHHHHhccC---ceeEEEEehhhhhcc
Confidence            444667778999999999877666666666666554332   789999999999876

>cd04125 RabA_like RabA-like subfamily

Probab=99.69  E-value=1.4e-15  Score=106.75  Aligned_cols=117  Identities=18%  Similarity=0.181  Sum_probs=73.6

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      .+|+++|.+|+|||||++.+++...........+.+  ........ .+  ..+.+|||||...           +....
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~--~~~~~~~~-~~~~~~~~i~Dt~g~~~-----------~~~~~   66 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVD--FKIKTVYI-ENKIIKLQIWDTNGQER-----------FRSLN   66 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeE--EEEEEEEE-CCEEEEEEEEECCCcHH-----------HHhhH
Confidence            379999999999999999999876422111111111  22222232 23  4678999999542           22233


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...++.+|++++|+|.++.-+... ..+++.+......  ..|++++.||.|+...
T Consensus        67 ~~~~~~~d~iilv~d~~~~~s~~~i~~~~~~i~~~~~~--~~~~ivv~nK~Dl~~~  120 (188)
T cd04125          67 NSYYRGAHGYLLVYDVTDQESFENLKFWINEINRYARE--NVIKVIVANKSDLVNN  120 (188)
T ss_pred             HHHccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCC--CCeEEEEEECCCCccc
Confidence            456788999999999984332221 2344444443222  2689999999998754

RabA was first identified in D. discoideum, where its expression levels were compared to other Rabs in growing and developing cells. The RabA mRNA levels were below the level of detection by Northern blot analysis, suggesting a very low level of expression. The function of RabA remains unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>cd04142 RRP22 RRP22 subfamily

Probab=99.69  E-value=1.4e-15  Score=107.64  Aligned_cols=127  Identities=15%  Similarity=0.108  Sum_probs=76.4

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      .+|+++|.+|+|||||++.+++... .....+. .+.......+.. ++  ..+.+|||||.......   ...+.....
T Consensus         1 ~kI~ivG~~~vGKTsLi~~~~~~~f-~~~~~pt-~~~~~~~~~i~~-~~~~~~l~i~Dt~G~~~~~~~---~~~e~~~~~   74 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQFLAQEF-PEEYIPT-EHRRLYRPAVVL-SGRVYDLHILDVPNMQRYPGT---AGQEWMDPR   74 (198)
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCC-CcccCCc-cccccceeEEEE-CCEEEEEEEEeCCCcccCCcc---chhHHHHHH
Confidence            3789999999999999999998663 2221111 111111122333 44  46789999998643211   122222222


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHc-ccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFG-KKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~-~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...+..+|++++|+|+++..+.+. ..+++.+.+... .....|+++|.||+|+...
T Consensus        75 ~~~~~~ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~  131 (198)
T cd04142          75 FRGLRNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRH  131 (198)
T ss_pred             HhhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECcccccc
Confidence            335678999999999985433332 344444544431 1123799999999999654

RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Like most Ras family proteins, RRP22 is farnesylated.

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.69  E-value=9.1e-16  Score=117.74  Aligned_cols=130  Identities=25%  Similarity=0.283  Sum_probs=98.1

Q ss_pred             CCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHH
Q 043441           13 TSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGME   92 (173)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~   92 (173)
                      ...-..+.+++++|+|++|||||+|+|++......- ..++.|.+.-...... ++..+.++||+|+.++...-++.+-+
T Consensus       211 g~ilr~G~kvvIiG~PNvGKSSLLNaL~~~d~AIVT-dI~GTTRDviee~i~i-~G~pv~l~DTAGiRet~d~VE~iGIe  288 (454)
T COG0486         211 GKILREGLKVVIIGRPNVGKSSLLNALLGRDRAIVT-DIAGTTRDVIEEDINL-NGIPVRLVDTAGIRETDDVVERIGIE  288 (454)
T ss_pred             hhhhhcCceEEEECCCCCcHHHHHHHHhcCCceEec-CCCCCccceEEEEEEE-CCEEEEEEecCCcccCccHHHHHHHH
Confidence            334467899999999999999999999998864333 2346777777778888 99999999999999876655555432


Q ss_pred             HHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           93 IVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        93 ~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ..   +.....+|.+++|+|++...+..+...++    ....  ..|+++|.||.|+....
T Consensus       289 Rs---~~~i~~ADlvL~v~D~~~~~~~~d~~~~~----~~~~--~~~~i~v~NK~DL~~~~  340 (454)
T COG0486         289 RA---KKAIEEADLVLFVLDASQPLDKEDLALIE----LLPK--KKPIIVVLNKADLVSKI  340 (454)
T ss_pred             HH---HHHHHhCCEEEEEEeCCCCCchhhHHHHH----hccc--CCCEEEEEechhccccc
Confidence            22   23455779999999999666777766655    2222  27899999999999763

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=99.68  E-value=2.3e-15  Score=104.57  Aligned_cols=116  Identities=11%  Similarity=0.047  Sum_probs=76.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ...+|+++|.+|+|||||++.+..... ..    ..+|.......... .+..+.+|||||...           +...+
T Consensus        12 ~~~ki~l~G~~~~GKTsL~~~~~~~~~-~~----~~~t~~~~~~~~~~-~~~~l~l~D~~G~~~-----------~~~~~   74 (175)
T smart00177       12 KEMRILMVGLDAAGKTTILYKLKLGES-VT----TIPTIGFNVETVTY-KNISFTVWDVGGQDK-----------IRPLW   74 (175)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHhcCCC-CC----cCCccccceEEEEE-CCEEEEEEECCCChh-----------hHHHH
Confidence            358999999999999999999964432 11    11233333333444 677899999999653           33344


Q ss_pred             HhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc--ccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK--VFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~  152 (173)
                      ..++++++++++|+|.++.-+.  ....+++.+.+...  ...|++||.||.|+...
T Consensus        75 ~~~~~~ad~ii~v~D~t~~~s~--~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~  129 (175)
T smart00177       75 RHYYTNTQGLIFVVDSNDRDRI--DEAREELHRMLNEDELRDAVILVFANKQDLPDA  129 (175)
T ss_pred             HHHhCCCCEEEEEEECCCHHHH--HHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccC
Confidence            4568899999999999843222  12233344433221  23689999999998654

Ras homologues involved in vesicular transport. Activator of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. ARFs are N-terminally myristoylated. Contains ATP/GTP-binding motif (P-loop).

>cd01862 Rab7 Rab7 subfamily

Probab=99.68  E-value=2.2e-15  Score=103.96  Aligned_cols=119  Identities=14%  Similarity=0.108  Sum_probs=72.3

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      .+|+++|++|+|||||++++++...........+.+...  ..... .+  ..+.+|||||...           +....
T Consensus         1 ~ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~--~~~~~-~~~~~~~~~~D~~g~~~-----------~~~~~   66 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLT--KEVTV-DDKLVTLQIWDTAGQER-----------FQSLG   66 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEE--EEEEE-CCEEEEEEEEeCCChHH-----------HHhHH
Confidence            379999999999999999999876322211111111111  12222 33  3567999999542           22233


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcc--cccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGK--KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~  152 (173)
                      ..+++.++++++++|+.+..+.+. ..+.+.+......  ....|+++|+||+|+..+
T Consensus        67 ~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~  124 (172)
T cd01862          67 VAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEK  124 (172)
T ss_pred             HHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccccc
Confidence            456778999999999974433222 2333333333221  123799999999999843

Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.68  E-value=2e-15  Score=104.33  Aligned_cols=120  Identities=16%  Similarity=0.112  Sum_probs=75.1

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHH-H
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIV-K   95 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~-~   95 (173)
                      ..+|+++|++|+|||||++++++.... ....+ ............. .+  ..+.+|||||...           +. .
T Consensus         2 ~~ki~vvG~~~vGKTsli~~~~~~~~~-~~~~~-t~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~-----------~~~~   67 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRFCAGRFP-ERTEA-TIGVDFRERTVEI-DGERIKVQLWDTAGQER-----------FRKS   67 (170)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCC-Ccccc-ceeEEEEEEEEEE-CCeEEEEEEEeCCChHH-----------HHHh
Confidence            468999999999999999999876532 22111 1111111222333 33  4789999999542           22 2


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ....+++.+|++++|+|+++.-+... ..+++.+...... ...|+++|.||+|+....
T Consensus        68 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~~p~iiv~nK~Dl~~~~  125 (170)
T cd04115          68 MVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLP-NEVPRILVGNKCDLREQI  125 (170)
T ss_pred             hHHHhhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcCC-CCCCEEEEEECccchhhc
Confidence            23456788999999999984433332 3444444443211 237999999999987543

Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.68  E-value=2.4e-15  Score=102.86  Aligned_cols=113  Identities=12%  Similarity=0.036  Sum_probs=74.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      +|+++|.+|+|||||++.+..... ...    .+|.......... ....+.+|||||...           +...+..+
T Consensus         2 kv~~~G~~~~GKTsli~~l~~~~~-~~~----~pt~g~~~~~~~~-~~~~~~l~D~~G~~~-----------~~~~~~~~   64 (159)
T cd04150           2 RILMVGLDAAGKTTILYKLKLGEI-VTT----IPTIGFNVETVEY-KNISFTVWDVGGQDK-----------IRPLWRHY   64 (159)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC-ccc----CCCCCcceEEEEE-CCEEEEEEECCCCHh-----------HHHHHHHH
Confidence            799999999999999999965442 221    1222222233444 667899999999642           33344567


Q ss_pred             cCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc--ccceEEEEEeCCCCCCC
Q 043441          101 KDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK--VFDYMIVVFTGGDELED  152 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~  152 (173)
                      +.++|++++|+|.++..+.  ....+++.+.....  ...|++++.||.|+...
T Consensus        65 ~~~ad~~i~v~D~~~~~s~--~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  116 (159)
T cd04150          65 FQNTQGLIFVVDSNDRERI--GEAREELQRMLNEDELRDAVLLVFANKQDLPNA  116 (159)
T ss_pred             hcCCCEEEEEEeCCCHHHH--HHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCC
Confidence            8899999999999843221  22233344443221  23699999999998654

This subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents

>PLN03118 Rab family protein; Provisional

Probab=99.68  E-value=2.5e-15  Score=107.39  Aligned_cols=126  Identities=13%  Similarity=0.125  Sum_probs=75.8

Q ss_pred             CCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHH
Q 043441           13 TSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGM   91 (173)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~   91 (173)
                      ++......+|+++|.+|+|||||++++++... . ...+. ............. ....+.+|||||....         
T Consensus         8 ~~~~~~~~kv~ivG~~~vGKTsli~~l~~~~~-~-~~~~t-~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~---------   75 (211)
T PLN03118          8 SSGYDLSFKILLIGDSGVGKSSLLVSFISSSV-E-DLAPT-IGVDFKIKQLTVGGKRLKLTIWDTAGQERF---------   75 (211)
T ss_pred             ccccCcceEEEEECcCCCCHHHHHHHHHhCCC-C-CcCCC-ceeEEEEEEEEECCEEEEEEEEECCCchhh---------
Confidence            33445568999999999999999999998653 1 21111 1112222223331 1246899999996532         


Q ss_pred             HHHHHHHhccCCceEEEEEeecCCCCCHHHH--HHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           92 EIVKCIGLAKDGIHAVLVGFSVRSRFPQEEE--AALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        92 ~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                        ......+++.+|++++|+|.++..+....  .+...+. .+......++++|.||+|+....
T Consensus        76 --~~~~~~~~~~~d~~vlv~D~~~~~sf~~~~~~~~~~~~-~~~~~~~~~~ilv~NK~Dl~~~~  136 (211)
T PLN03118         76 --RTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVE-LYSTNQDCVKMLVGNKVDRESER  136 (211)
T ss_pred             --HHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHH-HhcCCCCCCEEEEEECccccccC
Confidence              22223466788999999999843322221  1222222 22222235889999999987543

>cd04127 Rab27A Rab27a subfamily

Probab=99.68  E-value=2.6e-15  Score=104.51  Aligned_cols=124  Identities=10%  Similarity=-0.028  Sum_probs=75.4

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEe---------eCCceEEEEeCCCCCCCCCCcHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL---------KDGQVVNVIDTPGLFDFSAGSEF   88 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~---------~~~~~~~v~DtpG~~~~~~~~~~   88 (173)
                      ...+|+++|++|+|||||++.+.+...........+............         .....+.+|||||..        
T Consensus         3 ~~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~--------   74 (180)
T cd04127           3 YLIKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQE--------   74 (180)
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChH--------
Confidence            347899999999999999999988653221111111111111111110         023578999999933        


Q ss_pred             HHHHHHHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           89 VGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                         ++......+++.+|++++|+|+++.-+... ..++..+..... ....|+++|.||+|+....
T Consensus        75 ---~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~~piiiv~nK~Dl~~~~  136 (180)
T cd04127          75 ---RFRSLTTAFFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAY-CENPDIVLCGNKADLEDQR  136 (180)
T ss_pred             ---HHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCcEEEEEeCccchhcC
Confidence               344445567789999999999984322222 344444443311 1236899999999987643

The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated

>cd04136 Rap_like Rap-like subfamily

Probab=99.68  E-value=1.5e-15  Score=103.89  Aligned_cols=117  Identities=18%  Similarity=0.159  Sum_probs=72.9

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      .+|+++|.+|+|||||++++++.... ....+.......  ..... ++  ..+.+|||||....           ....
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~-~~~~~t~~~~~~--~~~~~-~~~~~~l~i~Dt~G~~~~-----------~~~~   66 (163)
T cd04136           2 YKVVVLGSGGVGKSALTVQFVQGIFV-EKYDPTIEDSYR--KQIEV-DGQQCMLEILDTAGTEQF-----------TAMR   66 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCC-cccCCchhhhEE--EEEEE-CCEEEEEEEEECCCcccc-----------chHH
Confidence            58999999999999999999876532 221111111111  12222 33  45778999996542           2222


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..++++++++++|++.++.-+.+. ..+++.+.+.... ...|+++|.||+|+...
T Consensus        67 ~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~-~~~piilv~nK~Dl~~~  121 (163)
T cd04136          67 DLYIKNGQGFVLVYSITSQSSFNDLQDLREQILRVKDT-ENVPMVLVGNKCDLEDE  121 (163)
T ss_pred             HHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCCEEEEEECcccccc
Confidence            345678899999999984433222 3444445443221 23689999999998654

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.

>cd04157 Arl6 Arl6 subfamily

Probab=99.68  E-value=1.3e-15  Score=104.06  Aligned_cols=117  Identities=12%  Similarity=0.022  Sum_probs=74.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      +|+++|.+|+|||||++.+++...+.....   .|.......... .+..+.+|||||...           +......+
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~---~t~g~~~~~~~~-~~~~~~l~Dt~G~~~-----------~~~~~~~~   65 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIV---PTVGFNVESFEK-GNLSFTAFDMSGQGK-----------YRGLWEHY   65 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceec---CccccceEEEEE-CCEEEEEEECCCCHh-----------hHHHHHHH
Confidence            489999999999999999998653222222   222222222333 667899999999653           22333456


Q ss_pred             cCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHc-ccccceEEEEEeCCCCCCC
Q 043441          101 KDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFG-KKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~-~~~~~~~~iv~tk~D~~~~  152 (173)
                      +..++++++|+|+++..+... ..+++.+..... .....|+++|+||+|+...
T Consensus        66 ~~~~d~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~  119 (162)
T cd04157          66 YKNIQGIIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDA  119 (162)
T ss_pred             HccCCEEEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCC
Confidence            778999999999985433221 233333332210 0123799999999998754

Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that A

>cd04131 Rnd Rnd subfamily

Probab=99.68  E-value=1.1e-15  Score=106.41  Aligned_cols=115  Identities=15%  Similarity=0.056  Sum_probs=76.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      .+|+++|.+|+|||||++.+.+.. |.....+.......  ..+... ....+.+|||+|...           +.....
T Consensus         2 ~Kiv~vG~~~vGKTsli~~~~~~~-f~~~~~~t~~~~~~--~~~~~~~~~~~l~iwDt~G~~~-----------~~~~~~   67 (178)
T cd04131           2 CKIVVVGDVQCGKTALLQVFAKDC-YPETYVPTVFENYT--ASFEIDEQRIELSLWDTSGSPY-----------YDNVRP   67 (178)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCc-CCCCcCCceEEEEE--EEEEECCEEEEEEEEECCCchh-----------hhhcch
Confidence            579999999999999999998765 33322221111111  122221 234688999999543           222223


Q ss_pred             hccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      .+++.++++++|+|.+++-+-+.  ..|++.+++..+   ..|+++|.||+|+..
T Consensus        68 ~~~~~a~~~ilvfdit~~~Sf~~~~~~w~~~i~~~~~---~~~iilVgnK~DL~~  119 (178)
T cd04131          68 LCYPDSDAVLICFDISRPETLDSVLKKWRGEIQEFCP---NTKVLLVGCKTDLRT  119 (178)
T ss_pred             hhcCCCCEEEEEEECCChhhHHHHHHHHHHHHHHHCC---CCCEEEEEEChhhhc
Confidence            46889999999999985555443  356666766532   379999999999753

The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8. These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos. Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated. In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity. They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.68  E-value=1.6e-15  Score=106.09  Aligned_cols=115  Identities=17%  Similarity=0.138  Sum_probs=77.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCC--------------CCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRAS--------------SSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGS   86 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~--------------~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~   86 (173)
                      +|+++|.+|+|||||+|+|++.........              ..+.+.......... .+..+.++||||..+     
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~liDtpG~~~-----   74 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEW-PDRRVNFIDTPGHED-----   74 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEee-CCEEEEEEeCCCcHH-----
Confidence            489999999999999999988664322110              012233333334444 567899999999753     


Q ss_pred             HHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           87 EFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                            +......++..+|++++|+|+...........+..+..     ...|+++++||+|+...
T Consensus        75 ------~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~-----~~~~i~iv~nK~D~~~~  129 (189)
T cd00881          75 ------FSSEVIRGLSVSDGAILVVDANEGVQPQTREHLRIARE-----GGLPIIVAINKIDRVGE  129 (189)
T ss_pred             ------HHHHHHHHHHhcCEEEEEEECCCCCcHHHHHHHHHHHH-----CCCCeEEEEECCCCcch
Confidence                  22223344557899999999986666555555555443     23789999999999863

This family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.67  E-value=1.4e-15  Score=106.34  Aligned_cols=118  Identities=16%  Similarity=0.051  Sum_probs=78.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      +...+|+++|.+|+|||||++.++.... .....+.......  ...... ....+.+|||+|...           +..
T Consensus         3 ~~~~KivvvGd~~vGKTsli~~~~~~~f-~~~~~pT~~~~~~--~~~~~~~~~~~l~iwDtaG~e~-----------~~~   68 (182)
T cd04172           3 NVKCKIVVVGDSQCGKTALLHVFAKDCF-PENYVPTVFENYT--ASFEIDTQRIELSLWDTSGSPY-----------YDN   68 (182)
T ss_pred             cceEEEEEECCCCCCHHHHHHHHHhCCC-CCccCCceeeeeE--EEEEECCEEEEEEEEECCCchh-----------hHh
Confidence            3457899999999999999999987653 2222221111111  122220 234789999999542           233


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      ....+++++|++++|+|.+++-+-+.  ..|++.+.+..+   ..|+++|.||+|+.+
T Consensus        69 ~~~~~~~~ad~~ilvyDit~~~Sf~~~~~~w~~~i~~~~~---~~piilVgNK~DL~~  123 (182)
T cd04172          69 VRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP---NTKMLLVGCKSDLRT  123 (182)
T ss_pred             hhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCC---CCCEEEEeEChhhhc
Confidence            33457889999999999986544443  356666766532   279999999999753

Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=99.67  E-value=2.1e-15  Score=103.23  Aligned_cols=118  Identities=22%  Similarity=0.168  Sum_probs=72.9

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ..+++++|.+|+|||||++++++.... ....+.......  ..... .+  ..+.+|||||..+.           ...
T Consensus         2 ~~ki~i~G~~~~GKtsl~~~~~~~~~~-~~~~~t~~~~~~--~~~~~-~~~~~~~~i~Dt~G~~~~-----------~~~   66 (164)
T cd04145           2 TYKLVVVGGGGVGKSALTIQFIQSYFV-TDYDPTIEDSYT--KQCEI-DGQWAILDILDTAGQEEF-----------SAM   66 (164)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCC-cccCCCccceEE--EEEEE-CCEEEEEEEEECCCCcch-----------hHH
Confidence            468999999999999999999876532 222111111111  11222 33  36789999997642           122


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...++..+|++++|+++++.-+... ..+++.+...... ...|+++++||+|+...
T Consensus        67 ~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~-~~~piiiv~NK~Dl~~~  122 (164)
T cd04145          67 REQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDR-DEFPMILVGNKADLEHQ  122 (164)
T ss_pred             HHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-CCCCEEEEeeCcccccc
Confidence            2345567899999999984332222 3344444443221 23699999999998754

This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.67  E-value=3.8e-15  Score=103.36  Aligned_cols=116  Identities=13%  Similarity=0.068  Sum_probs=76.1

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ...+|+++|++|+|||||++.+++.....  .   ..|.......... ....+.++||||...           +....
T Consensus        14 ~~~kv~~~G~~~~GKTsl~~~l~~~~~~~--~---~~t~~~~~~~~~~-~~~~~~l~D~~G~~~-----------~~~~~   76 (174)
T cd04153          14 KEYKVIIVGLDNAGKTTILYQFLLGEVVH--T---SPTIGSNVEEIVY-KNIRFLMWDIGGQES-----------LRSSW   76 (174)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCCCC--c---CCccccceEEEEE-CCeEEEEEECCCCHH-----------HHHHH
Confidence            35789999999999999999998765321  1   1233333334444 678899999999653           23333


Q ss_pred             HhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc--ccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK--VFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~  152 (173)
                      ..++.++|++++|+|+++.-+.  ....+++.+.+...  ...|+++++||+|+...
T Consensus        77 ~~~~~~~d~vi~V~D~s~~~~~--~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~~  131 (174)
T cd04153          77 NTYYTNTDAVILVIDSTDRERL--PLTKEELYKMLAHEDLRKAVLLVLANKQDLKGA  131 (174)
T ss_pred             HHHhhcCCEEEEEEECCCHHHH--HHHHHHHHHHHhchhhcCCCEEEEEECCCCCCC
Confidence            4566789999999999843221  12223333333221  23799999999998653

Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.67  E-value=3.9e-15  Score=123.11  Aligned_cols=126  Identities=22%  Similarity=0.205  Sum_probs=93.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+|+++|.+++|||||+|+|++....... ..++.|.........+ .+..+.+|||||+....   +.+...+...
T Consensus       273 ~~~~~V~IvG~~nvGKSSL~n~l~~~~~~iv~-~~pGvT~d~~~~~~~~-~~~~~~liDT~G~~~~~---~~~~~~~~~~  347 (712)
T PRK09518        273 KAVGVVAIVGRPNVGKSTLVNRILGRREAVVE-DTPGVTRDRVSYDAEW-AGTDFKLVDTGGWEADV---EGIDSAIASQ  347 (712)
T ss_pred             ccCcEEEEECCCCCCHHHHHHHHhCCCceeec-CCCCeeEEEEEEEEEE-CCEEEEEEeCCCcCCCC---ccHHHHHHHH
Confidence            44578999999999999999999986532222 2344555555555555 67889999999987422   2244556666


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +..++..+|++++|+|+++.+...+..+.+.++..     ..|+++|+||+|....
T Consensus       348 ~~~~~~~aD~iL~VvDa~~~~~~~d~~i~~~Lr~~-----~~pvIlV~NK~D~~~~  398 (712)
T PRK09518        348 AQIAVSLADAVVFVVDGQVGLTSTDERIVRMLRRA-----GKPVVLAVNKIDDQAS  398 (712)
T ss_pred             HHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHhc-----CCCEEEEEECcccccc
Confidence            66678889999999999877887777777776542     3799999999998653

>cd04117 Rab15 Rab15 subfamily

Probab=99.67  E-value=2.6e-15  Score=102.85  Aligned_cols=117  Identities=14%  Similarity=0.126  Sum_probs=73.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      +|+++|++|+|||||++.+++.... ....+. ............ .+  ..+.+|||||...           ......
T Consensus         2 ki~vvG~~~~GKTsli~~~~~~~~~-~~~~~t-~~~~~~~~~~~~-~~~~~~l~i~D~~g~~~-----------~~~~~~   67 (161)
T cd04117           2 RLLLIGDSGVGKTCLLCRFTDNEFH-SSHIST-IGVDFKMKTIEV-DGIKVRIQIWDTAGQER-----------YQTITK   67 (161)
T ss_pred             EEEEECcCCCCHHHHHHHHhcCCCC-CCCCCc-eeeEEEEEEEEE-CCEEEEEEEEeCCCcHh-----------HHhhHH
Confidence            6899999999999999999876642 221111 111111122333 33  4678999999542           222334


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .++..+|++++|+|.+++-+.+. ..+++.+.....  ...|+++|.||.|+....
T Consensus        68 ~~~~~~~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~--~~~~iilvgnK~Dl~~~~  121 (161)
T cd04117          68 QYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAP--EGVQKILIGNKADEEQKR  121 (161)
T ss_pred             HHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCC--CCCeEEEEEECccccccc
Confidence            56778899999999985433222 344444444322  236899999999987553

Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to

>cd04121 Rab40 Rab40 subfamily

Probab=99.67  E-value=2.7e-15  Score=105.43  Aligned_cols=118  Identities=14%  Similarity=0.098  Sum_probs=78.7

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      ...+|+++|..|+|||||+..+.... +.....+ ..........+.. ++  ..+.+|||+|...           +..
T Consensus         5 ~~~KivviG~~~vGKTsll~~~~~~~-~~~~~~~-t~~~~~~~~~i~~-~~~~~~l~iwDt~G~~~-----------~~~   70 (189)
T cd04121           5 YLLKFLLVGDSDVGKGEILASLQDGS-TESPYGY-NMGIDYKTTTILL-DGRRVKLQLWDTSGQGR-----------FCT   70 (189)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCC-CCCCCCC-cceeEEEEEEEEE-CCEEEEEEEEeCCCcHH-----------HHH
Confidence            45899999999999999999998754 3222211 1122222222333 33  5788999999642           333


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ....+++++|++++|+|.+++.+.+. ..|++.+.+..+   ..|++||.||.|+...
T Consensus        71 l~~~~~~~ad~illVfD~t~~~Sf~~~~~w~~~i~~~~~---~~piilVGNK~DL~~~  125 (189)
T cd04121          71 IFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHAP---GVPKILVGNRLHLAFK  125 (189)
T ss_pred             HHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCC---CCCEEEEEECccchhc
Confidence            44456789999999999985544443 456666655432   3799999999998653

This subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide d

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.67  E-value=3.7e-15  Score=102.11  Aligned_cols=118  Identities=12%  Similarity=0.044  Sum_probs=72.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC-CCccccCCC-CccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           21 TVVFVGRTGNGKSATGNSILGR-RAFKSRASS-SGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~-~~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      +|+++|++|+|||||++++.+. ..+.....+ .+.................+.+|||||..           .......
T Consensus         2 ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~-----------~~~~~~~   70 (164)
T cd04101           2 RCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQE-----------LYSDMVS   70 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHH-----------HHHHHHH
Confidence            7899999999999999999864 223222211 11111111122211134689999999943           2223334


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .++..+|++++|+|.++..+... ..+++.+....   ...|+++|.||+|+...
T Consensus        71 ~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~---~~~p~ilv~nK~Dl~~~  122 (164)
T cd04101          71 NYWESPSVFILVYDVSNKASFENCSRWVNKVRTAS---KHMPGVLVGNKMDLADK  122 (164)
T ss_pred             HHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC---CCCCEEEEEECcccccc
Confidence            56778999999999984322221 34444444331   23799999999998654

RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=99.67  E-value=2.1e-15  Score=106.38  Aligned_cols=117  Identities=17%  Similarity=0.211  Sum_probs=77.1

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCC-CCccccC-------------CCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGR-RAFKSRA-------------SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~-~~~~~~~-------------~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~   84 (173)
                      .++|+++|.+++|||||+++|++. ..+....             ...+.+.......... ++..+.+|||||..+   
T Consensus         2 ~r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~-~~~~~~l~DtpG~~~---   77 (194)
T cd01891           2 IRNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTY-KDTKINIVDTPGHAD---   77 (194)
T ss_pred             ccEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEE-CCEEEEEEECCCcHH---
Confidence            468999999999999999999862 1222111             0122333333344455 677899999999753   


Q ss_pred             CcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           85 GSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                              +......+++.+|++++|+|+++........++..+..   .  ..|+++|+||+|+...
T Consensus        78 --------~~~~~~~~~~~~d~~ilV~d~~~~~~~~~~~~~~~~~~---~--~~p~iiv~NK~Dl~~~  132 (194)
T cd01891          78 --------FGGEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALE---L--GLKPIVVINKIDRPDA  132 (194)
T ss_pred             --------HHHHHHHHHHhcCEEEEEEECCCCccHHHHHHHHHHHH---c--CCCEEEEEECCCCCCC
Confidence                    33334456778899999999985544433343333322   2  2689999999998754

BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella typhimurium after exposure to bactericidal/permeability-inducing protein (a cationic antimicrobial protein produced by neutrophils), and has since been identified in E. coli as well. The properties thus far described for BipA are related to its role in the process of pathogenesis by enteropathogenic E. coli. It appears to be involved in the regulation of several processes important for infection, including rearrangements of the cytoskeleton of the host, bacterial resistance to host defense peptides, flagellum-mediated cell motility, and expression of K5 capsular genes. It has been proposed that BipA may utilize a novel mechanism to regulate the expression of target genes. In addition, BipA from enteropathogenic E. co

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=99.67  E-value=3.2e-15  Score=104.67  Aligned_cols=117  Identities=9%  Similarity=0.040  Sum_probs=75.8

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+++++|.+|+||||+++.+.+......     ..|.......... .+..+.++||||...           ....
T Consensus        15 ~~~~~i~ivG~~~~GKTsli~~l~~~~~~~~-----~~t~~~~~~~~~~-~~~~~~~~D~~G~~~-----------~~~~   77 (184)
T smart00178       15 NKHAKILFLGLDNAGKTTLLHMLKNDRLAQH-----QPTQHPTSEELAI-GNIKFTTFDLGGHQQ-----------ARRL   77 (184)
T ss_pred             cccCEEEEECCCCCCHHHHHHHHhcCCCccc-----CCccccceEEEEE-CCEEEEEEECCCCHH-----------HHHH
Confidence            4568999999999999999999998653111     1122222233344 667899999999653           2333


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~  152 (173)
                      ...++..+|++++|+|+++. ... ....+++.+.+..  ....|+++|+||.|+...
T Consensus        78 ~~~~~~~ad~ii~vvD~~~~-~~~-~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~  133 (184)
T smart00178       78 WKDYFPEVNGIVYLVDAYDK-ERF-AESKRELDALLSDEELATVPFLILGNKIDAPYA  133 (184)
T ss_pred             HHHHhCCCCEEEEEEECCcH-HHH-HHHHHHHHHHHcChhhcCCCEEEEEeCccccCC
Confidence            34567889999999999843 211 1222233333321  123699999999998643

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>cd04158 ARD1 ARD1 subfamily

Probab=99.67  E-value=2e-15  Score=104.21  Aligned_cols=113  Identities=15%  Similarity=0.073  Sum_probs=74.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      +|+++|.+|+|||||++++.+.. +..    ...|.......... .+..+.+|||||....           ...+..+
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~-~~~----~~~T~~~~~~~~~~-~~~~i~l~Dt~G~~~~-----------~~~~~~~   63 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDE-FMQ----PIPTIGFNVETVEY-KNLKFTIWDVGGKHKL-----------RPLWKHY   63 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCC-CCC----cCCcCceeEEEEEE-CCEEEEEEECCCChhc-----------chHHHHH
Confidence            58999999999999999998864 211    22333333344455 6778999999997532           2223345


Q ss_pred             cCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc--ccceEEEEEeCCCCCCC
Q 043441          101 KDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK--VFDYMIVVFTGGDELED  152 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~  152 (173)
                      +..+|++++|+|.++.-+..  ...+++.+.+...  ...|+++|.||.|+...
T Consensus        64 ~~~ad~ii~V~D~s~~~s~~--~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  115 (169)
T cd04158          64 YLNTQAVVFVVDSSHRDRVS--EAHSELAKLLTEKELRDALLLIFANKQDVAGA  115 (169)
T ss_pred             hccCCEEEEEEeCCcHHHHH--HHHHHHHHHhcChhhCCCCEEEEEeCcCcccC
Confidence            67889999999998432221  2233344443221  22689999999998643

ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family. In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif. This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family. Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity. However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain. The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs. The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain. ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membra

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.67  E-value=3.2e-15  Score=118.46  Aligned_cols=127  Identities=20%  Similarity=0.233  Sum_probs=85.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+++++|.+|+|||||+|+|++....... ...+.|.......... .+..+.+|||||+.......  ...+....
T Consensus       209 ~~~~kI~iiG~~nvGKSSLin~l~~~~~~~~s-~~~gtT~d~~~~~~~~-~~~~~~l~DTaG~~~~~~~~--~~~e~~~~  284 (472)
T PRK03003        209 GGPRRVALVGKPNVGKSSLLNKLAGEERSVVD-DVAGTTVDPVDSLIEL-GGKTWRFVDTAGLRRRVKQA--SGHEYYAS  284 (472)
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhCCCccccc-CCCCccCCcceEEEEE-CCEEEEEEECCCcccccccc--chHHHHHH
Confidence            34689999999999999999999987642211 2233444333334445 67788999999985421111  11122222


Q ss_pred             H--HhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 I--GLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~--~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +  ..+++++|++++|+|+++..+..+...+..+.+   .  ..|+++|+||+|+...
T Consensus       285 ~~~~~~i~~ad~vilV~Da~~~~s~~~~~~~~~~~~---~--~~piIiV~NK~Dl~~~  337 (472)
T PRK03003        285 LRTHAAIEAAEVAVVLIDASEPISEQDQRVLSMVIE---A--GRALVLAFNKWDLVDE  337 (472)
T ss_pred             HHHHHHHhcCCEEEEEEeCCCCCCHHHHHHHHHHHH---c--CCCEEEEEECcccCCh
Confidence            2  124678999999999997888777666555543   2  2789999999999754

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.67  E-value=1.9e-15  Score=108.54  Aligned_cols=117  Identities=14%  Similarity=0.011  Sum_probs=76.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEE--EEEee-CCceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ--RTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~--~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      ....+|+++|.+|+|||||++.++.... .....   .|......  ..... ....+.+|||||...           +
T Consensus        11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f-~~~~~---~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~-----------~   75 (219)
T PLN03071         11 YPSFKLVIVGDGGTGKTTFVKRHLTGEF-EKKYE---PTIGVEVHPLDFFTNCGKIRFYCWDTAGQEK-----------F   75 (219)
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhhCCC-CCccC---CccceeEEEEEEEECCeEEEEEEEECCCchh-----------h
Confidence            6678999999999999999999876542 22221   12212211  22221 235889999999653           2


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      ......+++.++++|+|+|.+++.+... ..|++.+.+..   ...|+++|.||+|+..
T Consensus        76 ~~~~~~~~~~~~~~ilvfD~~~~~s~~~i~~w~~~i~~~~---~~~piilvgNK~Dl~~  131 (219)
T PLN03071         76 GGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVC---ENIPIVLCGNKVDVKN  131 (219)
T ss_pred             hhhhHHHcccccEEEEEEeCCCHHHHHHHHHHHHHHHHhC---CCCcEEEEEEchhhhh
Confidence            2333456788999999999985543332 35555565542   2379999999999853

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.67  E-value=5.2e-15  Score=101.75  Aligned_cols=114  Identities=12%  Similarity=0.119  Sum_probs=74.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhcc
Q 043441           22 VVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAK  101 (173)
Q Consensus        22 i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~  101 (173)
                      |+++|.+|+|||||++.+.+.... ....   +|.......... .+..+.+|||||...           +......++
T Consensus         2 i~ivG~~~vGKTsli~~~~~~~~~-~~~~---pt~g~~~~~i~~-~~~~l~i~Dt~G~~~-----------~~~~~~~~~   65 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSERSL-ESVV---PTTGFNSVAIPT-QDAIMELLEIGGSQN-----------LRKYWKRYL   65 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCc-cccc---ccCCcceEEEee-CCeEEEEEECCCCcc-----------hhHHHHHHH
Confidence            789999999999999999986532 2211   122222233444 667899999999654           222233567


Q ss_pred             CCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441          102 DGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus       102 ~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      +.+|++++|+|.++..+..  ....++.+........|+++|.||.|+....
T Consensus        66 ~~ad~ii~V~D~t~~~s~~--~~~~~l~~~~~~~~~~piilv~NK~Dl~~~~  115 (164)
T cd04162          66 SGSQGLIFVVDSADSERLP--LARQELHQLLQHPPDLPLVVLANKQDLPAAR  115 (164)
T ss_pred             hhCCEEEEEEECCCHHHHH--HHHHHHHHHHhCCCCCcEEEEEeCcCCcCCC
Confidence            7889999999998443222  2223334433222347999999999987653

Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.

>KOG0078 consensus GTP-binding protein SEC4, small G protein superfamily, and related Ras family GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.66  E-value=2e-15  Score=104.57  Aligned_cols=129  Identities=13%  Similarity=0.050  Sum_probs=93.9

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      +.....+++++|.+|+|||+++-.+.......+-....+..-..+...... ....+++|||.|..           ++.
T Consensus         8 ~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g-~~i~lQiWDtaGQe-----------rf~   75 (207)
T KOG0078|consen    8 DYDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDG-KKIKLQIWDTAGQE-----------RFR   75 (207)
T ss_pred             CcceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCC-eEEEEEEEEcccch-----------hHH
Confidence            455678999999999999999999887663222222223322222222222 33578999999944           678


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccH
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETL  157 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~  157 (173)
                      .+..+++++++++++|+|.++.-+-+ ...|++.+.+.-...  .+.++|.||+|+-+.+..+.
T Consensus        76 ti~~sYyrgA~gi~LvyDitne~Sfeni~~W~~~I~e~a~~~--v~~~LvGNK~D~~~~R~V~~  137 (207)
T KOG0078|consen   76 TITTAYYRGAMGILLVYDITNEKSFENIRNWIKNIDEHASDD--VVKILVGNKCDLEEKRQVSK  137 (207)
T ss_pred             HHHHHHHhhcCeeEEEEEccchHHHHHHHHHHHHHHhhCCCC--CcEEEeeccccccccccccH
Confidence            88889999999999999998666554 367999999986654  89999999999887544333

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.66  E-value=4.5e-15  Score=102.84  Aligned_cols=117  Identities=15%  Similarity=0.117  Sum_probs=75.4

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      .+|+++|..|+|||||++.+.+... .....+.......  ..... .+  ..+.+|||||...           +....
T Consensus         3 ~ki~vvG~~~vGKTsL~~~~~~~~f-~~~~~~t~~~~~~--~~~~~-~~~~~~l~i~Dt~G~~~-----------~~~l~   67 (172)
T cd04141           3 YKIVMLGAGGVGKSAVTMQFISHSF-PDYHDPTIEDAYK--QQARI-DNEPALLDILDTAGQAE-----------FTAMR   67 (172)
T ss_pred             eEEEEECCCCCcHHHHHHHHHhCCC-CCCcCCcccceEE--EEEEE-CCEEEEEEEEeCCCchh-----------hHHHh
Confidence            6899999999999999999987653 2221111111111  12222 33  4688999999653           33334


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..++..++++++|++.+++.+... ..+.+.+.+... ....|+++|.||+|+...
T Consensus        68 ~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~-~~~~piilvgNK~Dl~~~  122 (172)
T cd04141          68 DQYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVRL-TEDIPLVLVGNKVDLESQ  122 (172)
T ss_pred             HHHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhcC-CCCCCEEEEEEChhhhhc
Confidence            456778899999999986655544 234455554321 223799999999998654

Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.66  E-value=2.9e-15  Score=117.86  Aligned_cols=124  Identities=24%  Similarity=0.260  Sum_probs=82.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ..+.+++++|.+|+|||||+|+|++....... ...+.|.......... .+..+.++||||+.++....+..  .+. .
T Consensus       213 ~~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~-~~~gtT~d~~~~~i~~-~g~~i~l~DT~G~~~~~~~ie~~--gi~-~  287 (449)
T PRK05291        213 REGLKVVIAGRPNVGKSSLLNALLGEERAIVT-DIAGTTRDVIEEHINL-DGIPLRLIDTAGIRETDDEVEKI--GIE-R  287 (449)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHhCCCCcccC-CCCCcccccEEEEEEE-CCeEEEEEeCCCCCCCccHHHHH--HHH-H
Confidence            45689999999999999999999987632111 2233454444455555 77889999999987532111111  111 1


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ....+..+|++++|+|+++..+.++...+   ..    ....|+++|+||+|+...
T Consensus       288 ~~~~~~~aD~il~VvD~s~~~s~~~~~~l---~~----~~~~piiiV~NK~DL~~~  336 (449)
T PRK05291        288 SREAIEEADLVLLVLDASEPLTEEDDEIL---EE----LKDKPVIVVLNKADLTGE  336 (449)
T ss_pred             HHHHHHhCCEEEEEecCCCCCChhHHHHH---Hh----cCCCCcEEEEEhhhcccc
Confidence            22356778999999999866555543332   22    122789999999998754

>PTZ00369 Ras-like protein; Provisional

Probab=99.66  E-value=3.1e-15  Score=105.16  Aligned_cols=122  Identities=18%  Similarity=0.070  Sum_probs=75.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      .+..+|+++|.+|+|||||++.+.+.... ....+.............. ....+.+|||||..+.           ...
T Consensus         3 ~~~~Ki~iiG~~~~GKTsLi~~~~~~~~~-~~~~~t~~~~~~~~~~~~~-~~~~l~i~Dt~G~~~~-----------~~l   69 (189)
T PTZ00369          3 STEYKLVVVGGGGVGKSALTIQFIQNHFI-DEYDPTIEDSYRKQCVIDE-ETCLLDILDTAGQEEY-----------SAM   69 (189)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCCCC-cCcCCchhhEEEEEEEECC-EEEEEEEEeCCCCccc-----------hhh
Confidence            45689999999999999999999876532 2222211111111112211 2235779999997653           112


Q ss_pred             HHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...++..++++++|+|+++.-+.+ ...+++.+.+.... ...|+++|.||+|+...
T Consensus        70 ~~~~~~~~d~iilv~D~s~~~s~~~~~~~~~~i~~~~~~-~~~piiiv~nK~Dl~~~  125 (189)
T PTZ00369         70 RDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDK-DRVPMILVGNKCDLDSE  125 (189)
T ss_pred             HHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCCEEEEEECcccccc
Confidence            234567889999999998543322 23444445443222 23689999999997544

>cd01863 Rab18 Rab18 subfamily

Probab=99.66  E-value=3.2e-15  Score=102.12  Aligned_cols=119  Identities=17%  Similarity=0.082  Sum_probs=73.3

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .+++++|++|+|||||++++++...........+.+.......... ....+.+|||||...           +......
T Consensus         1 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~D~~g~~~-----------~~~~~~~   68 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDG-KKVKLAIWDTAGQER-----------FRTLTSS   68 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECC-EEEEEEEEECCCchh-----------hhhhhHH
Confidence            3799999999999999999998664222211111222222122211 235789999999542           2222334


Q ss_pred             ccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      +++.+|++++|++.++..+.+. ..+++.+..... ....|+++|.||+|+..
T Consensus        69 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~~~~~iv~nK~D~~~  120 (161)
T cd01863          69 YYRGAQGVILVYDVTRRDTFTNLETWLNELETYST-NNDIVKMLVGNKIDKEN  120 (161)
T ss_pred             HhCCCCEEEEEEECCCHHHHHhHHHHHHHHHHhCC-CCCCcEEEEEECCcccc
Confidence            5678899999999974333222 234444444422 22368999999999873

Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of mos

>COG2262 HflX GTPases [General function prediction only]

Probab=99.66  E-value=3.2e-15  Score=112.97  Aligned_cols=135  Identities=21%  Similarity=0.173  Sum_probs=96.4

Q ss_pred             CCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHH
Q 043441           13 TSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGME   92 (173)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~   92 (173)
                      ....+..+.|.++|+++|||||++|+|++...+....-  ..|.+.......+..+..+.+-||.||.+  .-++++...
T Consensus       186 ~R~~~~~p~vaLvGYTNAGKSTL~N~LT~~~~~~~d~L--FATLdpttR~~~l~~g~~vlLtDTVGFI~--~LP~~LV~A  261 (411)
T COG2262         186 KRSRSGIPLVALVGYTNAGKSTLFNALTGADVYVADQL--FATLDPTTRRIELGDGRKVLLTDTVGFIR--DLPHPLVEA  261 (411)
T ss_pred             hhcccCCCeEEEEeeccccHHHHHHHHhccCeeccccc--cccccCceeEEEeCCCceEEEecCccCcc--cCChHHHHH
Confidence            34457789999999999999999999999887544433  34544455556664578999999999996  455666766


Q ss_pred             HHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           93 IVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        93 ~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      +++.+... ..+|.++.|+|++++.-.........+...++.. ..|+++|+||.|++.+.
T Consensus       262 FksTLEE~-~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~-~~p~i~v~NKiD~~~~~  320 (411)
T COG2262         262 FKSTLEEV-KEADLLLHVVDASDPEILEKLEAVEDVLAEIGAD-EIPIILVLNKIDLLEDE  320 (411)
T ss_pred             HHHHHHHh-hcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCC-CCCEEEEEecccccCch
Confidence            77666543 3789999999999663333333333333333332 27999999999999763

>KOG0094 consensus GTPase Rab6/YPT6/Ryh1, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.66  E-value=3.2e-15  Score=102.23  Aligned_cols=131  Identities=13%  Similarity=0.099  Sum_probs=93.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCC-CCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRAS-SSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      ....+++++|..++||||||+..+-.. |..... ..+..-...-..+.. ...++++|||+|           +++++.
T Consensus        20 ~k~~KlVflGdqsVGKTslItRf~yd~-fd~~YqATIGiDFlskt~~l~d-~~vrLQlWDTAG-----------QERFrs   86 (221)
T KOG0094|consen   20 LKKYKLVFLGDQSVGKTSLITRFMYDK-FDNTYQATIGIDFLSKTMYLED-RTVRLQLWDTAG-----------QERFRS   86 (221)
T ss_pred             ceEEEEEEEccCccchHHHHHHHHHhh-hcccccceeeeEEEEEEEEEcC-cEEEEEEEeccc-----------HHHHhh
Confidence            345889999999999999999987544 222221 122222222222222 335899999999           457888


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHHHh
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYL  161 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~  161 (173)
                      ++..+++++.++|+|+|+++.-+-++ ..|++.+....+.+ ...+++|.||.|+.+.++.+.++--
T Consensus        87 lipsY~Rds~vaviVyDit~~~Sfe~t~kWi~dv~~e~gs~-~viI~LVGnKtDL~dkrqvs~eEg~  152 (221)
T KOG0094|consen   87 LIPSYIRDSSVAVIVYDITDRNSFENTSKWIEDVRRERGSD-DVIIFLVGNKTDLSDKRQVSIEEGE  152 (221)
T ss_pred             hhhhhccCCeEEEEEEeccccchHHHHHHHHHHHHhccCCC-ceEEEEEcccccccchhhhhHHHHH
Confidence            88999999999999999997766654 57777777665542 2578899999999988766665543

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.66  E-value=1e-14  Score=102.01  Aligned_cols=117  Identities=9%  Similarity=0.020  Sum_probs=77.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+|+++|++|+|||||++.+..... .. .   .+|.......... .+..+.+|||||..           .+...
T Consensus        15 ~~~~kv~lvG~~~vGKTsli~~~~~~~~-~~-~---~~T~~~~~~~~~~-~~~~~~l~D~~G~~-----------~~~~~   77 (182)
T PTZ00133         15 KKEVRILMVGLDAAGKTTILYKLKLGEV-VT-T---IPTIGFNVETVEY-KNLKFTMWDVGGQD-----------KLRPL   77 (182)
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHhcCCc-cc-c---CCccccceEEEEE-CCEEEEEEECCCCH-----------hHHHH
Confidence            3458899999999999999999965442 11 1   1233333334444 67789999999964           23334


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc--ccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK--VFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~  152 (173)
                      ...+++++|++|+|+|+++.-+..  ...+++.+.+...  ...|++||.||.|+...
T Consensus        78 ~~~~~~~ad~iI~v~D~t~~~s~~--~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~  133 (182)
T PTZ00133         78 WRHYYQNTNGLIFVVDSNDRERIG--DAREELERMLSEDELRDAVLLVFANKQDLPNA  133 (182)
T ss_pred             HHHHhcCCCEEEEEEeCCCHHHHH--HHHHHHHHHHhCHhhcCCCEEEEEeCCCCCCC
Confidence            456788999999999998432211  2233444443321  23689999999997643

>cd04144 Ras2 Ras2 subfamily

Probab=99.66  E-value=2.2e-15  Score=106.00  Aligned_cols=117  Identities=21%  Similarity=0.187  Sum_probs=73.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCc--eEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ--VVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      +|+++|.+|+|||||++.++... |.....+.......  ..... .+.  .+.+|||||...           +.....
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~-f~~~~~~t~~~~~~--~~~~~-~~~~~~l~i~Dt~G~~~-----------~~~~~~   65 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNH-FVETYDPTIEDSYR--KQVVV-DGQPCMLEVLDTAGQEE-----------YTALRD   65 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCC-CCccCCCchHhhEE--EEEEE-CCEEEEEEEEECCCchh-----------hHHHHH
Confidence            48999999999999999998655 32222221111111  11222 333  588999999543           222333


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcc-cccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGK-KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~-~~~~~~~iv~tk~D~~~~  152 (173)
                      .+++.+|++++|++.++.-+... ..+++.+.+.... ....|+++|.||+|+...
T Consensus        66 ~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~  121 (190)
T cd04144          66 QWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYE  121 (190)
T ss_pred             HHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhcccc
Confidence            46778899999999984433222 4555555554321 123689999999998654

The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.

>cd04155 Arl3 Arl3 subfamily

Probab=99.66  E-value=7e-15  Score=101.65  Aligned_cols=117  Identities=14%  Similarity=0.055  Sum_probs=75.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      .+..+++++|++|+|||||++.+.+.....     ...|.......... .+..+.++||||...           +...
T Consensus        12 ~~~~~v~i~G~~g~GKStLl~~l~~~~~~~-----~~~t~g~~~~~i~~-~~~~~~~~D~~G~~~-----------~~~~   74 (173)
T cd04155          12 SEEPRILILGLDNAGKTTILKQLASEDISH-----ITPTQGFNIKTVQS-DGFKLNVWDIGGQRA-----------IRPY   74 (173)
T ss_pred             CCccEEEEEccCCCCHHHHHHHHhcCCCcc-----cCCCCCcceEEEEE-CCEEEEEEECCCCHH-----------HHHH
Confidence            447899999999999999999999865311     11222222334444 678899999999542           2333


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~  152 (173)
                      +..++..++++++|+|+.+.-+.  .....++......  ....|+++++||+|+...
T Consensus        75 ~~~~~~~~~~ii~v~D~~~~~~~--~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~  130 (173)
T cd04155          75 WRNYFENTDCLIYVIDSADKKRL--EEAGAELVELLEEEKLAGVPVLVFANKQDLATA  130 (173)
T ss_pred             HHHHhcCCCEEEEEEeCCCHHHH--HHHHHHHHHHHhChhhcCCCEEEEEECCCCccC
Confidence            34556788999999999832111  1122222222211  123789999999998764

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.66  E-value=3.2e-15  Score=102.46  Aligned_cols=116  Identities=19%  Similarity=0.154  Sum_probs=71.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      +|+++|++|+|||||++++++... .....+.......  ..... .+  ..+.+|||||.....           ....
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~~~-~~~~~~t~~~~~~--~~~~~-~~~~~~l~i~Dt~g~~~~~-----------~~~~   66 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQGHF-VDDYDPTIEDSYR--KQIEI-DGEVCLLDILDTAGQEEFS-----------AMRD   66 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCcC-CcccCCchhhhEE--EEEEE-CCEEEEEEEEECCCcccch-----------HHHH
Confidence            799999999999999999997653 2222221111111  12222 23  467899999976421           1222


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .++..++++++|+++.+.-+.+. ..+.+.+.+.... ...|+++|.||+|+...
T Consensus        67 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~~~pii~v~nK~Dl~~~  120 (164)
T smart00173       67 QYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDR-DDVPIVLVGNKCDLESE  120 (164)
T ss_pred             HHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCCEEEEEECcccccc
Confidence            35667899999999984322221 2344444443222 23689999999998764

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>cd01893 Miro1 Miro1 subfamily

Probab=99.66  E-value=3e-15  Score=103.03  Aligned_cols=116  Identities=15%  Similarity=0.041  Sum_probs=73.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      +++++|.+|+|||||++++.+.... .......... ........ ....+.+|||||....           ...+...
T Consensus         2 kv~ivG~~~vGKTsl~~~l~~~~~~-~~~~~~~~~~-~~~~~~~~-~~~~~~i~Dt~G~~~~-----------~~~~~~~   67 (166)
T cd01893           2 RIVLIGDEGVGKSSLIMSLVSEEFP-ENVPRVLPEI-TIPADVTP-ERVPTTIVDTSSRPQD-----------RANLAAE   67 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCcCC-ccCCCcccce-EeeeeecC-CeEEEEEEeCCCchhh-----------hHHHhhh
Confidence            7899999999999999999886632 2211111111 11111111 3457889999997642           1112234


Q ss_pred             cCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441          101 KDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      +..++++++|+++++..+...  ..+++.+++.. .  ..|+++|.||+|+....
T Consensus        68 ~~~ad~~ilv~d~~~~~s~~~~~~~~~~~i~~~~-~--~~pviiv~nK~Dl~~~~  119 (166)
T cd01893          68 IRKANVICLVYSVDRPSTLERIRTKWLPLIRRLG-V--KVPIILVGNKSDLRDGS  119 (166)
T ss_pred             cccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-C--CCCEEEEEEchhccccc
Confidence            577899999999985443333  24556565542 2  37999999999997653

Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the N-terminal GTPase domain of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.

>cd00157 Rho Rho (Ras homology) family

Probab=99.66  E-value=2.4e-15  Score=103.68  Aligned_cols=118  Identities=18%  Similarity=0.067  Sum_probs=73.6

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .+|+++|++|+|||||+++|++.... ....+.............. ....+.+|||||......           ....
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~-~~~~l~~~D~~g~~~~~~-----------~~~~   67 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFP-TEYVPTVFDNYSATVTVDG-KQVNLGLWDTAGQEEYDR-----------LRPL   67 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCC-CCCCCceeeeeEEEEEECC-EEEEEEEEeCCCcccccc-----------cchh
Confidence            37999999999999999999987642 2211211111111112211 234789999999775311           1113


Q ss_pred             ccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .++.+|++++|+|.++..+...  ..++..+.....   ..|+++|+||+|+....
T Consensus        68 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~p~ivv~nK~Dl~~~~  120 (171)
T cd00157          68 SYPNTDVFLICFSVDSPSSFENVKTKWIPEIRHYCP---NVPIILVGTKIDLRDDE  120 (171)
T ss_pred             hcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCC---CCCEEEEEccHHhhhch
Confidence            4578899999999984322221  234444444322   38999999999988664

Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho protein

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.66  E-value=3.7e-15  Score=103.07  Aligned_cols=116  Identities=16%  Similarity=0.070  Sum_probs=72.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEE--EEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM--QRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~--~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      +|+++|.+|+|||||++++++... .....   .|.....  ...... ....+.+|||||...           +....
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f-~~~~~---~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~-----------~~~~~   66 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVF-DKNYK---ATIGVDFEMERFEILGVPFSLQLWDTAGQER-----------FKCIA   66 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC-CCCCC---CceeeEEEEEEEEECCEEEEEEEEeCCChHH-----------HHhhH
Confidence            689999999999999999998763 32222   2221121  122221 234789999999542           33333


Q ss_pred             HhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..+++++|++++|+|+++.-+.. ...+++.+.+.... ...|+++|.||.|+...
T Consensus        67 ~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~-~~~~iilVgnK~Dl~~~  121 (170)
T cd04108          67 STYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDP-SSVLLFLVGTKKDLSSP  121 (170)
T ss_pred             HHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCC-CCCeEEEEEEChhcCcc
Confidence            45688999999999997432222 23444444332111 12578999999997654

Rab34, found primarily in the Golgi, interacts with its effector, Rab-interacting lysosomal protein (RILP). This enables its participation in microtubular dynenin-dynactin-mediated repositioning of lysosomes from the cell periphery to the Golgi. A Rab34 (Rah) isoform that lacks the consensus GTP-binding region has been identified in mice. This isoform is associated with membrane ruffles and promotes macropinosome formation. Rab36 has been mapped to human chromosome 22q11.2, a region that is homozygously deleted in malignant rhabdoid tumors (MRTs). However, experimental assessments do not implicate Rab36 as a tumor suppressor that would enable tumor formation through a loss-of-function mechanism. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further re

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=99.66  E-value=3.6e-15  Score=101.68  Aligned_cols=116  Identities=20%  Similarity=0.161  Sum_probs=71.6

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      .+|+++|.+|+|||||++++++.... ....+......  ...... .+  ..+.+|||||...           +....
T Consensus         2 ~ki~iiG~~~vGKTsl~~~~~~~~~~-~~~~~t~~~~~--~~~~~~-~~~~~~~~i~Dt~G~~~-----------~~~l~   66 (162)
T cd04138           2 YKLVVVGAGGVGKSALTIQLIQNHFV-DEYDPTIEDSY--RKQVVI-DGETCLLDILDTAGQEE-----------YSAMR   66 (162)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCc-CCcCCcchheE--EEEEEE-CCEEEEEEEEECCCCcc-----------hHHHH
Confidence            57999999999999999999976532 22222111111  112222 33  3477899999653           22223


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      ..++..++++++|++..+.-+... ..++..+.+... ....|+++|.||+|+..
T Consensus        67 ~~~~~~~~~~i~v~~~~~~~s~~~~~~~~~~i~~~~~-~~~~piivv~nK~Dl~~  120 (162)
T cd04138          67 DQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKD-SDDVPMVLVGNKCDLAA  120 (162)
T ss_pred             HHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEECccccc
Confidence            346667899999999974332222 234444444321 12369999999999875

H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.

>cd04151 Arl1 Arl1 subfamily

Probab=99.66  E-value=2.9e-15  Score=102.24  Aligned_cols=113  Identities=12%  Similarity=0.034  Sum_probs=72.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      +++++|.+|+|||||++.+....... .    ..|.......... .+..+.+|||||...           +......+
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~~-~----~~t~~~~~~~~~~-~~~~~~i~Dt~G~~~-----------~~~~~~~~   63 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVVT-T----IPTIGFNVETVTY-KNLKFQVWDLGGQTS-----------IRPYWRCY   63 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCcC-c----CCccCcCeEEEEE-CCEEEEEEECCCCHH-----------HHHHHHHH
Confidence            58999999999999999997655321 1    1232223334444 667899999999753           23333456


Q ss_pred             cCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCCC
Q 043441          101 KDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELED  152 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~  152 (173)
                      +.+++++++|+|+++..+..  ...+.+...+..  ....|+++|+||+|+...
T Consensus        64 ~~~~~~ii~v~d~~~~~~~~--~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~  115 (158)
T cd04151          64 YSNTDAIIYVVDSTDRDRLG--TAKEELHAMLEEEELKGAVLLVFANKQDMPGA  115 (158)
T ss_pred             hcCCCEEEEEEECCCHHHHH--HHHHHHHHHHhchhhcCCcEEEEEeCCCCCCC
Confidence            77899999999998432111  112223322221  123799999999998754

Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.66  E-value=4.3e-15  Score=101.42  Aligned_cols=114  Identities=10%  Similarity=0.043  Sum_probs=72.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      +|+++|++|+|||||++.+.+......  .   .|............+..+.+|||||...           +......+
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~~--~---~t~~~~~~~~~~~~~~~l~i~D~~G~~~-----------~~~~~~~~   64 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVTT--I---PTVGFNVEMLQLEKHLSLTVWDVGGQEK-----------MRTVWKCY   64 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCcccc--c---CccCcceEEEEeCCceEEEEEECCCCHh-----------HHHHHHHH
Confidence            489999999999999999998764321  1   1222222233332456899999999642           22333445


Q ss_pred             cCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc--ccceEEEEEeCCCCCCC
Q 043441          101 KDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK--VFDYMIVVFTGGDELED  152 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~  152 (173)
                      +..+|++++|+|+++..+.  .....++.+.+...  ...|+++|+||+|+...
T Consensus        65 ~~~~~~iv~v~D~~~~~~~--~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  116 (160)
T cd04156          65 LENTDGLVYVVDSSDEARL--DESQKELKHILKNEHIKGVPVVLLANKQDLPGA  116 (160)
T ss_pred             hccCCEEEEEEECCcHHHH--HHHHHHHHHHHhchhhcCCCEEEEEECcccccC
Confidence            7788999999999843321  22223333333221  23799999999998643

ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in h

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=99.65  E-value=2.6e-15  Score=103.44  Aligned_cols=114  Identities=19%  Similarity=0.133  Sum_probs=72.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEE--e-eCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTV--L-KDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~--~-~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      +|+++|++|+|||||++.++.... ....   ..|.........  . .....+.+|||||......           ..
T Consensus         2 ki~vvG~~~vGKTsli~~~~~~~~-~~~~---~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~-----------~~   66 (166)
T cd00877           2 KLVLVGDGGTGKTTFVKRHLTGEF-EKKY---VATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGG-----------LR   66 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCC-CCCC---CCceeeEEEEEEEEECCEEEEEEEEECCCChhhcc-----------cc
Confidence            799999999999999999986552 2221   122222222221  1 0235789999999754211           11


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..++..+|++++|+|.++..+... ..+++.+.....   ..|+++|.||+|+...
T Consensus        67 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~---~~piiiv~nK~Dl~~~  119 (166)
T cd00877          67 DGYYIGGQCAIIMFDVTSRVTYKNVPNWHRDLVRVCG---NIPIVLCGNKVDIKDR  119 (166)
T ss_pred             HHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCC---CCcEEEEEEchhcccc
Confidence            235668899999999984433222 345555555432   3899999999998743

Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.65  E-value=1.5e-14  Score=101.06  Aligned_cols=117  Identities=11%  Similarity=0.023  Sum_probs=78.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+|+++|..|+|||||++.+..... ..    ..+|.......... .+..+.+|||||..           ++...
T Consensus        15 ~~~~ki~ivG~~~~GKTsl~~~l~~~~~-~~----~~pt~g~~~~~~~~-~~~~~~i~D~~Gq~-----------~~~~~   77 (181)
T PLN00223         15 KKEMRILMVGLDAAGKTTILYKLKLGEI-VT----TIPTIGFNVETVEY-KNISFTVWDVGGQD-----------KIRPL   77 (181)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCC-cc----ccCCcceeEEEEEE-CCEEEEEEECCCCH-----------HHHHH
Confidence            4457999999999999999999975442 11    12232233334444 67789999999953           33444


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc--ccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK--VFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~  152 (173)
                      +..+++++|++|+|+|+++.-+..  ...+++.+.+...  ...|++|+.||.|+...
T Consensus        78 ~~~~~~~a~~iI~V~D~s~~~s~~--~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~  133 (181)
T PLN00223         78 WRHYFQNTQGLIFVVDSNDRDRVV--EARDELHRMLNEDELRDAVLLVFANKQDLPNA  133 (181)
T ss_pred             HHHHhccCCEEEEEEeCCcHHHHH--HHHHHHHHHhcCHhhCCCCEEEEEECCCCCCC
Confidence            456788999999999998432221  2333444443321  23689999999998654

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=99.65  E-value=4.1e-15  Score=101.37  Aligned_cols=114  Identities=12%  Similarity=0.033  Sum_probs=74.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      +++++|.+|+|||||++++++... ..    ...|.......... .+..+.+|||||....           ......+
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~-~~----~~~t~~~~~~~~~~-~~~~~~i~D~~G~~~~-----------~~~~~~~   63 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEV-VT----TIPTIGFNVETVEY-KNVSFTVWDVGGQDKI-----------RPLWKHY   63 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCC-CC----CCCCcCcceEEEEE-CCEEEEEEECCCChhh-----------HHHHHHH
Confidence            589999999999999999998762 21    12233333344444 6778999999996532           2223345


Q ss_pred             cCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          101 KDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +..+|++++|+|+++.-+... ..++..+..... ....|+++++||+|+...
T Consensus        64 ~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~-~~~~piiiv~nK~D~~~~  115 (158)
T cd00878          64 YENTNGIIFVVDSSDRERIEEAKEELHKLLNEEE-LKGVPLLIFANKQDLPGA  115 (158)
T ss_pred             hccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcc-cCCCcEEEEeeccCCccc
Confidence            667899999999984322111 222222222111 123799999999998865

Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=99.65  E-value=3.6e-15  Score=101.40  Aligned_cols=116  Identities=21%  Similarity=0.220  Sum_probs=73.8

Q ss_pred             EEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCC
Q 043441           24 FVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDG  103 (173)
Q Consensus        24 lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~  103 (173)
                      |+|.+|+|||||+|++++......  ...+.|.......+.+ ++..+.+|||||+.+......  ...+....... ..
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~--~~~~~t~~~~~~~~~~-~~~~~~liDtpG~~~~~~~~~--~~~~~~~~~~~-~~   74 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVG--NWPGVTVEKKEGRFKL-GGKEIEIVDLPGTYSLSPYSE--DEKVARDFLLG-EK   74 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCccccc--CCCCcccccceEEEee-CCeEEEEEECCCccccCCCCh--hHHHHHHHhcC-CC
Confidence            589999999999999998763222  2234455444455556 567899999999876433211  11222111111 58


Q ss_pred             ceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          104 IHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       104 ~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +|++++|+|+. .... ...++..+.+   .  ..|+++|+||+|+...
T Consensus        75 ~d~vi~v~d~~-~~~~-~~~~~~~~~~---~--~~~~iiv~NK~Dl~~~  116 (158)
T cd01879          75 PDLIVNVVDAT-NLER-NLYLTLQLLE---L--GLPVVVALNMIDEAEK  116 (158)
T ss_pred             CcEEEEEeeCC-cchh-HHHHHHHHHH---c--CCCEEEEEehhhhccc
Confidence            89999999998 3322 2233333332   1  2789999999999765

E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.65  E-value=4e-15  Score=107.40  Aligned_cols=117  Identities=13%  Similarity=0.030  Sum_probs=77.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ...+|+++|..|+|||+|++.+++.. |.....+........  .+... ....+.+|||+|...           +...
T Consensus        12 ~~~KIvvvGd~~VGKTsLi~r~~~~~-F~~~y~pTi~~~~~~--~i~~~~~~v~l~iwDTaG~e~-----------~~~~   77 (232)
T cd04174          12 MRCKLVLVGDVQCGKTAMLQVLAKDC-YPETYVPTVFENYTA--GLETEEQRVELSLWDTSGSPY-----------YDNV   77 (232)
T ss_pred             eeEEEEEECCCCCcHHHHHHHHhcCC-CCCCcCCceeeeeEE--EEEECCEEEEEEEEeCCCchh-----------hHHH
Confidence            34789999999999999999998765 333222211111111  12220 235789999999542           3333


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      ...+++++|++++|+|.++.-+-..  ..|++.+.+..+   ..|+++|.||+|+..
T Consensus        78 ~~~~~~~ad~vIlVyDit~~~Sf~~~~~~w~~~i~~~~~---~~piilVgNK~DL~~  131 (232)
T cd04174          78 RPLCYSDSDAVLLCFDISRPETVDSALKKWKAEIMDYCP---STRILLIGCKTDLRT  131 (232)
T ss_pred             HHHHcCCCcEEEEEEECCChHHHHHHHHHHHHHHHHhCC---CCCEEEEEECccccc
Confidence            3457889999999999985544443  356666665432   268999999999753

Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2/Rho7 and Rnd3/RhoE/Rho8. Rnd1/Rho6 binds GTP but does not hydrolyze it to GDP, indicating that it is constitutively active. In rat, Rnd1/Rho6 is highly expressed in the cerebral cortex and hippocampus during synapse formation, and plays a role in spine formation. Rnd1/Rho6 is also expressed in the liver and in endothelial cells, and is upregulated in uterine myometrial cells during pregnancy. Like Rnd3/RhoE/Rho8, Rnd1/Rho6 is believed to function as an antagonist to RhoA. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd04116 Rab9 Rab9 subfamily

Probab=99.65  E-value=6.5e-15  Score=101.59  Aligned_cols=122  Identities=15%  Similarity=0.066  Sum_probs=74.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      +...+++++|.+|+|||||++.+++...........+  ........... ....+.+|||||..           ++..
T Consensus         3 ~~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~i~D~~G~~-----------~~~~   69 (170)
T cd04116           3 SSLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIG--VEFLNKDLEVDGHFVTLQIWDTAGQE-----------RFRS   69 (170)
T ss_pred             ceEEEEEEECCCCCCHHHHHHHHHcCCCCcCcCCcee--eEEEEEEEEECCeEEEEEEEeCCChH-----------HHHH
Confidence            3558999999999999999999987653221111111  11111122220 22467899999943           2333


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcc--cccceEEEEEeCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGK--KVFDYMIVVFTGGDELE  151 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~  151 (173)
                      ....+++.+|++++|++.++.-+... ..++..+......  ....|+++|.||+|+..
T Consensus        70 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  128 (170)
T cd04116          70 LRTPFYRGSDCCLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIPE  128 (170)
T ss_pred             hHHHHhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECccccc
Confidence            44456778899999999974432222 2344444443221  12368999999999863

Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CX

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.65  E-value=1.6e-15  Score=104.16  Aligned_cols=118  Identities=18%  Similarity=0.189  Sum_probs=71.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      +|+++|++|+|||||+++++.... .....+.......  ..... .+  ..+.+|||||......  .    ..    .
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~-~~~~~~t~~~~~~--~~~~~-~~~~~~~~i~D~~g~~~~~~--~----~~----~   66 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRF-IGEYDPNLESLYS--RQVTI-DGEQVSLEILDTAGQQQADT--E----QL----E   66 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCcc-ccccCCChHHhce--EEEEE-CCEEEEEEEEECCCCccccc--c----hH----H
Confidence            489999999999999999886542 2221121111221  12222 33  3578999999774100  0    11    1


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .+++.+|++++|+|+++.-+-+. ..+++.+.+........|+++|.||+|+...
T Consensus        67 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  121 (165)
T cd04146          67 RSIRWADGFVLVYSITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHY  121 (165)
T ss_pred             HHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHh
Confidence            23556799999999984433222 3455555554321223789999999997544

RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tu

>cd04175 Rap1 Rap1 subgroup

Probab=99.65  E-value=4.8e-15  Score=101.67  Aligned_cols=117  Identities=17%  Similarity=0.154  Sum_probs=72.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeC--CceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      .+|+++|.+|+|||||+++++... +.....+......  ...... .  ...+.+|||||....           ....
T Consensus         2 ~ki~~~G~~~~GKTsli~~~~~~~-~~~~~~~t~~~~~--~~~~~~-~~~~~~l~i~Dt~G~~~~-----------~~~~   66 (164)
T cd04175           2 YKLVVLGSGGVGKSALTVQFVQGI-FVEKYDPTIEDSY--RKQVEV-DGQQCMLEILDTAGTEQF-----------TAMR   66 (164)
T ss_pred             cEEEEECCCCCCHHHHHHHHHhCC-CCcccCCcchheE--EEEEEE-CCEEEEEEEEECCCcccc-----------hhHH
Confidence            579999999999999999998654 2222211111111  112233 3  335679999996532           2222


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..++..+|++++|++.++.-+.++ ..+++.+..... ....|+++|.||+|+...
T Consensus        67 ~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~-~~~~piilv~nK~Dl~~~  121 (164)
T cd04175          67 DLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKD-TEDVPMILVGNKCDLEDE  121 (164)
T ss_pred             HHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEECCcchhc
Confidence            346677899999999874333222 344444544321 123799999999998754

The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the n

>cd00879 Sar1 Sar1 subfamily

Probab=99.65  E-value=1.8e-14  Score=101.21  Aligned_cols=118  Identities=9%  Similarity=-0.002  Sum_probs=77.2

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      .....+++++|++|||||||++.+.+.... .    ...|.......... .+..+.++||||...           ...
T Consensus        16 ~~~~~ki~ilG~~~~GKStLi~~l~~~~~~-~----~~~T~~~~~~~i~~-~~~~~~l~D~~G~~~-----------~~~   78 (190)
T cd00879          16 YNKEAKILFLGLDNAGKTTLLHMLKDDRLA-Q----HVPTLHPTSEELTI-GNIKFKTFDLGGHEQ-----------ARR   78 (190)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHhcCCCc-c----cCCccCcceEEEEE-CCEEEEEEECCCCHH-----------HHH
Confidence            355788999999999999999999986531 1    11222223334445 677899999999542           223


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~  152 (173)
                      .+..+++.++++++|+|.++.-+.  .....++.+.+..  ....|+++++||+|+...
T Consensus        79 ~~~~~~~~ad~iilV~D~~~~~s~--~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~~  135 (190)
T cd00879          79 LWKDYFPEVDGIVFLVDAADPERF--QESKEELDSLLSDEELANVPFLILGNKIDLPGA  135 (190)
T ss_pred             HHHHHhccCCEEEEEEECCcHHHH--HHHHHHHHHHHcCccccCCCEEEEEeCCCCCCC
Confidence            334566788999999999743111  1223344444332  133799999999998643

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.

>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site

Probab=99.65  E-value=1.1e-15  Score=107.28  Aligned_cols=118  Identities=19%  Similarity=0.292  Sum_probs=83.0

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCcccc----------------CCCCccceeeEEEEEE--eeCCceEEEEeCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSR----------------ASSSGVTSTCEMQRTV--LKDGQVVNVIDTPGL   79 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~----------------~~~~~~t~~~~~~~~~--~~~~~~~~v~DtpG~   79 (173)
                      +..+|+++|..++|||||+++|++.......                ....+.|.........  . .+..+.++||||.
T Consensus         2 ~~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~~~~-~~~~i~~iDtPG~   80 (188)
T PF00009_consen    2 NIRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFEKNE-NNRKITLIDTPGH   80 (188)
T ss_dssp             TEEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEEBTE-SSEEEEEEEESSS
T ss_pred             CEEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccccccccccc-cccceeecccccc
Confidence            4578999999999999999999864421110                0112344444445554  4 7889999999996


Q ss_pred             CCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           80 FDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .+           +..........+|++++|+|+.+.+.......++.+...   .  .|+++++||+|+...
T Consensus        81 ~~-----------f~~~~~~~~~~~D~ailvVda~~g~~~~~~~~l~~~~~~---~--~p~ivvlNK~D~~~~  137 (188)
T PF00009_consen   81 ED-----------FIKEMIRGLRQADIAILVVDANDGIQPQTEEHLKILREL---G--IPIIVVLNKMDLIEK  137 (188)
T ss_dssp             HH-----------HHHHHHHHHTTSSEEEEEEETTTBSTHHHHHHHHHHHHT---T---SEEEEEETCTSSHH
T ss_pred             cc-----------eeecccceecccccceeeeeccccccccccccccccccc---c--cceEEeeeeccchhh
Confidence            52           222333446677999999999878887777777766554   2  679999999999943

The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....

>PLN03108 Rab family protein; Provisional

Probab=99.64  E-value=1e-14  Score=104.21  Aligned_cols=119  Identities=15%  Similarity=0.101  Sum_probs=73.6

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      ...+|+++|++|+|||||++.+++...........+.+....  .... .+  ..+.+|||||...           +..
T Consensus         5 ~~~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~--~i~~-~~~~i~l~l~Dt~G~~~-----------~~~   70 (210)
T PLN03108          5 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGAR--MITI-DNKPIKLQIWDTAGQES-----------FRS   70 (210)
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEE--EEEE-CCEEEEEEEEeCCCcHH-----------HHH
Confidence            357999999999999999999998653222111111111111  2222 23  3678999999542           222


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ....++..+|++++|+|+++.-+... ..++..+......  ..|++++.||+|+...
T Consensus        71 ~~~~~~~~ad~~vlv~D~~~~~s~~~l~~~~~~~~~~~~~--~~piiiv~nK~Dl~~~  126 (210)
T PLN03108         71 ITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANA--NMTIMLIGNKCDLAHR  126 (210)
T ss_pred             HHHHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHHhcCC--CCcEEEEEECccCccc
Confidence            33345678899999999984332222 2344444433222  3789999999998754

>cd04114 Rab30 Rab30 subfamily

Probab=99.64  E-value=8.8e-15  Score=100.74  Aligned_cols=120  Identities=13%  Similarity=0.088  Sum_probs=74.0

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      ...+++++|++|+|||||++.+.+..... ...+ ............. .+  ..+.+|||||...           +..
T Consensus         6 ~~~~v~v~G~~~~GKSsli~~l~~~~~~~-~~~~-t~~~~~~~~~~~~-~~~~~~~~~~D~~g~~~-----------~~~   71 (169)
T cd04114           6 FLFKIVLIGNAGVGKTCLVRRFTQGLFPP-GQGA-TIGVDFMIKTVEI-KGEKIKLQIWDTAGQER-----------FRS   71 (169)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHhCCCCC-CCCC-ceeeEEEEEEEEE-CCEEEEEEEEECCCcHH-----------HHH
Confidence            44899999999999999999998654321 1111 1111122222223 33  4678999999542           222


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ....++..+|++++|+|.++..+... ..+++.+.......  .|+++|.||.|+...+
T Consensus        72 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~--~~~i~v~NK~D~~~~~  128 (169)
T cd04114          72 ITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNK--VITILVGNKIDLAERR  128 (169)
T ss_pred             HHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCC--CeEEEEEECccccccc
Confidence            22345678899999999974322221 24444455443322  7889999999987543

Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.64  E-value=8.5e-15  Score=103.75  Aligned_cols=121  Identities=13%  Similarity=0.099  Sum_probs=77.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEe----eCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL----KDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~----~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      +|+++|.+|+|||||++.+++...........+.+.......+..    .....+.+|||+|...           +...
T Consensus         2 KIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~-----------~~~l   70 (202)
T cd04102           2 RVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSES-----------VKST   70 (202)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchh-----------HHHH
Confidence            799999999999999999998764222211112222222222110    0223689999999653           3344


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHc-----------------ccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFG-----------------KKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~-----------------~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...+++++|++|+|+|.+++-+.+. ..|++.+...-.                 .....|+++|.||.|+.+.
T Consensus        71 ~~~~yr~ad~iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~  144 (202)
T cd04102          71 RAVFYNQVNGIILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPE  144 (202)
T ss_pred             HHHHhCcCCEEEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhh
Confidence            4567889999999999985544433 356555554211                 0123699999999998765

RabL3s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL3 lacks a prenylation site at the C-terminus. The specific function of RabL3 remains unknown.

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.64  E-value=2e-15  Score=106.42  Aligned_cols=117  Identities=16%  Similarity=0.199  Sum_probs=79.9

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccc--------------cCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKS--------------RASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~--------------~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~   84 (173)
                      ..+++++|..++|||||+++|++......              .-...+.|.......... ++..+.++||||+.    
T Consensus         2 ~~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~-~~~~i~~iDtPG~~----   76 (195)
T cd01884           2 HVNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEYET-ANRHYAHVDCPGHA----   76 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEecC-CCeEEEEEECcCHH----
Confidence            36799999999999999999986411000              001234455554444544 67789999999965    


Q ss_pred             CcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           85 GSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                             .+...+......+|++++|+++...........+..+.+. +   ..++++++||+|+..
T Consensus        77 -------~~~~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~-~---~~~iIvviNK~D~~~  132 (195)
T cd01884          77 -------DYIKNMITGAAQMDGAILVVSATDGPMPQTREHLLLARQV-G---VPYIVVFLNKADMVD  132 (195)
T ss_pred             -------HHHHHHHHHhhhCCEEEEEEECCCCCcHHHHHHHHHHHHc-C---CCcEEEEEeCCCCCC
Confidence                   2333334556678999999999867776666666665553 1   134789999999974

This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

>cd00880 Era_like Era (E

Probab=99.64  E-value=1.3e-14  Score=98.09  Aligned_cols=120  Identities=23%  Similarity=0.170  Sum_probs=77.5

Q ss_pred             EEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCC
Q 043441           24 FVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDG  103 (173)
Q Consensus        24 lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~  103 (173)
                      ++|++|+|||||+|+|++....... .....+...............+.++||||+.+..........    .+......
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~Dt~g~~~~~~~~~~~~~----~~~~~~~~   75 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVS-PVPGTTTDPVEYVWELGPLGPVVLIDTPGIDEAGGLGREREE----LARRVLER   75 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccC-CCCCcEECCeEEEEEecCCCcEEEEECCCCCccccchhhHHH----HHHHHHHh
Confidence            5899999999999999987643222 222333333334444323678999999999986544432222    22234567


Q ss_pred             ceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441          104 IHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus       104 ~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      +|++++++++.+........+.   .....  ...|+++|+||+|+....
T Consensus        76 ~d~il~v~~~~~~~~~~~~~~~---~~~~~--~~~~~ivv~nK~D~~~~~  120 (163)
T cd00880          76 ADLILFVVDADLRADEEEEKLL---ELLRE--RGKPVLLVLNKIDLLPEE  120 (163)
T ss_pred             CCEEEEEEeCCCCCCHHHHHHH---HHHHh--cCCeEEEEEEccccCChh
Confidence            7999999999855544444322   22211  237899999999998764

coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.64  E-value=6.2e-15  Score=103.29  Aligned_cols=115  Identities=14%  Similarity=0.031  Sum_probs=72.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEE-EEEee--CCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ-RTVLK--DGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~-~~~~~--~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      .+|+++|.+|+|||||++.+++.... ...   ..|...... .....  ....+.+|||||...           +...
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~-~~~---~~t~~~~~~~~i~~~~~~~~~l~i~Dt~G~~~-----------~~~~   65 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFP-EEY---VPTVFENYVTNIQGPNGKIIELALWDTAGQEE-----------YDRL   65 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCC-CCC---CCeeeeeeEEEEEecCCcEEEEEEEECCCchh-----------HHHH
Confidence            37999999999999999999986632 221   122222211 12221  223689999999542           2222


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHH--HHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEE--AALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...++..+|++++|+|.++..+.+..  .++..+... .  ...|+++|.||.|+...
T Consensus        66 ~~~~~~~ad~ii~v~d~~~~~s~~~~~~~~~~~~~~~-~--~~~piilv~nK~Dl~~~  120 (187)
T cd04132          66 RPLSYPDVDVLLICYAVDNPTSLDNVEDKWFPEVNHF-C--PGTPIMLVGLKTDLRKD  120 (187)
T ss_pred             HHHhCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh-C--CCCCEEEEEeChhhhhC
Confidence            33467889999999999854333321  244333332 1  23799999999998653

Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.

>cd04111 Rab39 Rab39 subfamily

Probab=99.64  E-value=9.4e-15  Score=104.44  Aligned_cols=120  Identities=15%  Similarity=0.044  Sum_probs=73.8

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeC--CceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ..+|+++|.+|+|||||++.+++.......  .+..........+....  ...+.+|||||...           +...
T Consensus         2 ~~KIvvvG~~~vGKTsLi~~l~~~~~~~~~--~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~-----------~~~~   68 (211)
T cd04111           2 QFRLIVIGDSTVGKSSLLKRFTEGRFAEVS--DPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQER-----------FRSI   68 (211)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCC--CceeceEEEEEEEEECCCCEEEEEEEeCCcchh-----------HHHH
Confidence            368999999999999999999986632111  11111111111222212  24788999999542           2233


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...+++.+|++++|+|.++.-+-.. ..+++.+.+.... ...++++|.||.|+...
T Consensus        69 ~~~~~~~~d~iilv~D~~~~~Sf~~l~~~~~~i~~~~~~-~~~~iilvgNK~Dl~~~  124 (211)
T cd04111          69 TRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQP-HRPVFILVGHKCDLESQ  124 (211)
T ss_pred             HHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCeEEEEEEccccccc
Confidence            3456788999999999984432222 3444444443322 22578899999998764

Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines. It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=99.64  E-value=2.2e-15  Score=107.07  Aligned_cols=116  Identities=13%  Similarity=0.167  Sum_probs=72.7

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEe---eCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL---KDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ++|+++|++|+|||||++.|.+........+   .  .........   ..+..+.+|||||...           ++..
T Consensus         1 ~~vll~G~~~sGKTsL~~~l~~~~~~~t~~s---~--~~~~~~~~~~~~~~~~~~~l~D~pG~~~-----------~~~~   64 (203)
T cd04105           1 PTVLLLGPSDSGKTALFTKLTTGKYRSTVTS---I--EPNVATFILNSEGKGKKFRLVDVPGHPK-----------LRDK   64 (203)
T ss_pred             CeEEEEcCCCCCHHHHHHHHhcCCCCCccCc---E--eecceEEEeecCCCCceEEEEECCCCHH-----------HHHH
Confidence            4689999999999999999998653222111   1  111111111   1356899999999663           2223


Q ss_pred             HHhccCCc-eEEEEEeecCCCCCHHHHHHHHHHHHHHcc----cccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGI-HAVLVGFSVRSRFPQEEEAALHSWQTLFGK----KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~-~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~~iv~tk~D~~~~  152 (173)
                      +..++..+ +++|+|+|+.+ .........+++.+++..    ....|++++.||.|+...
T Consensus        65 ~~~~~~~~~~~vV~VvD~~~-~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a  124 (203)
T cd04105          65 LLETLKNSAKGIVFVVDSAT-FQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTA  124 (203)
T ss_pred             HHHHHhccCCEEEEEEECcc-chhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhccc
Confidence            33445565 99999999984 323333444444443321    124799999999998765

SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this typ

>KOG0092 consensus GTPase Rab5/YPT51 and related small G protein superfamily GTPases [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.64  E-value=2e-15  Score=103.00  Aligned_cols=129  Identities=17%  Similarity=0.134  Sum_probs=86.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+++|+|.+++|||||+-.+..........+..+..-..+.....- ....+.+|||.|...           +...
T Consensus         3 ~~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~-~~ikfeIWDTAGQER-----------y~sl   70 (200)
T KOG0092|consen    3 TREFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDD-NTIKFEIWDTAGQER-----------YHSL   70 (200)
T ss_pred             cceEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCC-cEEEEEEEEcCCccc-----------cccc
Confidence            3567999999999999999988776653222222222222222222221 335788999999663           4444


Q ss_pred             HHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHH
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLED  159 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~  159 (173)
                      +..+|+++++.|+|+|+++.-+-. -+.|++.|++..+.+  ..+.+|.||+|+...+....++
T Consensus        71 apMYyRgA~AAivvYDit~~~SF~~aK~WvkeL~~~~~~~--~vialvGNK~DL~~~R~V~~~e  132 (200)
T KOG0092|consen   71 APMYYRGANAAIVVYDITDEESFEKAKNWVKELQRQASPN--IVIALVGNKADLLERREVEFEE  132 (200)
T ss_pred             ccceecCCcEEEEEEecccHHHHHHHHHHHHHHHhhCCCC--eEEEEecchhhhhhcccccHHH
Confidence            556899999999999998433322 267888888776543  5666899999999855444444

>cd01875 RhoG RhoG subfamily

Probab=99.64  E-value=5.7e-15  Score=103.99  Aligned_cols=118  Identities=16%  Similarity=0.027  Sum_probs=74.6

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ..+++++|..|+|||||+..++... |.....+.............. ....+.+|||+|...           +.....
T Consensus         3 ~~ki~~vG~~~vGKTsli~~~~~~~-f~~~~~~t~~~~~~~~~~~~~-~~~~l~i~Dt~G~e~-----------~~~l~~   69 (191)
T cd01875           3 SIKCVVVGDGAVGKTCLLICYTTNA-FPKEYIPTVFDNYSAQTAVDG-RTVSLNLWDTAGQEE-----------YDRLRT   69 (191)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCC-CCcCCCCceEeeeEEEEEECC-EEEEEEEEECCCchh-----------hhhhhh
Confidence            4689999999999999999998765 322222211111111111211 234689999999653           333344


Q ss_pred             hccCCceEEEEEeecCCCCCHHHH--HHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEEE--AALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .+++++|++++|++.+++-+-+..  .+++.+....   ...|++||.||.|+...
T Consensus        70 ~~~~~a~~~ilvydit~~~Sf~~~~~~w~~~i~~~~---~~~piilvgNK~DL~~~  122 (191)
T cd01875          70 LSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHHC---PNVPILLVGTKKDLRND  122 (191)
T ss_pred             hhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC---CCCCEEEEEeChhhhcC
Confidence            578899999999999854443332  2444444332   23799999999998543

RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. Most Rho proteins contain a lipid modification site at the C-termin

>smart00053 DYNc Dynamin, GTPase

Probab=99.64  E-value=3.5e-14  Score=102.63  Aligned_cols=140  Identities=16%  Similarity=0.154  Sum_probs=87.2

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccC--CCC-------------------------------------------
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRA--SSS-------------------------------------------   52 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~--~~~-------------------------------------------   52 (173)
                      ..+.++++|++|+||||++++|+|...+..+.  ...                                           
T Consensus        25 ~~p~i~vvG~~~~GKSt~l~~i~g~~~~~~~~g~~t~~p~~i~l~~~~~~~~~~~~~~~~~~~~~~~v~~~i~~~~~~~~  104 (240)
T smart00053       25 DLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLILQLINSSTEYAEFLHCKGKKFTDFDEVRNEIEAETDRVT  104 (240)
T ss_pred             CCCeEEEEcCCCccHHHHHHHHhCCCccccCCCcccccceEEEccCCCCcceEEEecCCcccCCHHHHHHHHHHHHHHhc
Confidence            44689999999999999999999975322211  000                                           


Q ss_pred             ----ccceeeEEEEEEeeCCceEEEEeCCCCCCCC--CCcHHHHHHHHHHHHhccCC-ceEEEEEeecCCCCCHHH-HHH
Q 043441           53 ----GVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS--AGSEFVGMEIVKCIGLAKDG-IHAVLVGFSVRSRFPQEE-EAA  124 (173)
Q Consensus        53 ----~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~--~~~~~~~~~~~~~~~~~~~~-~~~ii~v~~~~~~~~~~~-~~~  124 (173)
                          +.+...-...+..+....+.++||||+....  .........+.+.+..+... .+.+++|++++..+...+ ...
T Consensus       105 ~~~~~~s~~~i~l~i~~p~~~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~i  184 (240)
T smart00053      105 GTNKGISPVPINLRVYSPHVLNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKL  184 (240)
T ss_pred             CCCCcccCcceEEEEeCCCCCceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHH
Confidence                0011111122223334679999999997532  11233455566666666664 458888999876766655 344


Q ss_pred             HHHHHHHHcccccceEEEEEeCCCCCCCCcccHHHHhcc
Q 043441          125 LHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGR  163 (173)
Q Consensus       125 ~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~  163 (173)
                      .+++...     ..++++|+||+|.++.. ....+.+++
T Consensus       185 a~~ld~~-----~~rti~ViTK~D~~~~~-~~~~~~~~~  217 (240)
T smart00053      185 AKEVDPQ-----GERTIGVITKLDLMDEG-TDARDILEN  217 (240)
T ss_pred             HHHHHHc-----CCcEEEEEECCCCCCcc-HHHHHHHhC
Confidence            4444332     27899999999999763 225555555

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>cd04134 Rho3 Rho3 subfamily

Probab=99.64  E-value=3.9e-15  Score=104.63  Aligned_cols=116  Identities=18%  Similarity=0.098  Sum_probs=74.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      .+|+++|.+|+|||||++.+++.... ....+.......  ...... ....+.+|||||....           .....
T Consensus         1 ~kivivG~~~vGKTsli~~~~~~~~~-~~~~~t~~~~~~--~~i~~~~~~~~l~i~Dt~G~~~~-----------~~l~~   66 (189)
T cd04134           1 RKVVVLGDGACGKTSLLNVFTRGYFP-QVYEPTVFENYV--HDIFVDGLHIELSLWDTAGQEEF-----------DRLRS   66 (189)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCC-CccCCcceeeeE--EEEEECCEEEEEEEEECCCChhc-----------ccccc
Confidence            47999999999999999999886632 221111111111  112221 2247899999996542           11223


Q ss_pred             hccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .++..++++++|++.++.-+...  ..+++.+....   ...|+++|.||+|+...
T Consensus        67 ~~~~~a~~~ilv~dv~~~~sf~~~~~~~~~~i~~~~---~~~piilvgNK~Dl~~~  119 (189)
T cd04134          67 LSYADTDVIMLCFSVDSPDSLENVESKWLGEIREHC---PGVKLVLVALKCDLREA  119 (189)
T ss_pred             ccccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC---CCCCEEEEEEChhhccC
Confidence            46778999999999985433332  24566665532   23799999999998764

Rho3 is a member of the Rho family found only in fungi. Rho3 is believed to regulate cell polarity by interacting with the diaphanous/formin family protein For3 to control both the actin cytoskeleton and microtubules. Rho3 is also believed to have a direct role in exocytosis that is independent of its role in regulating actin polarity. The function in exocytosis may be two-pronged: first, in the transport of post-Golgi vesicles from the mother cell to the bud, mediated by myosin (Myo2); second, in the docking and fusion of vesicles to the plasma membrane, mediated by an exocyst (Exo70) protein. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.

>cd04118 Rab24 Rab24 subfamily

Probab=99.63  E-value=5.7e-15  Score=103.99  Aligned_cols=114  Identities=18%  Similarity=0.197  Sum_probs=71.7

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEE--EEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM--QRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~--~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      .+|+++|.+|+|||||++++++.......   ...|.....  ..... .+  ..+.+|||||....           ..
T Consensus         1 ~ki~vvG~~~vGKSsLi~~~~~~~~~~~~---~~~t~~~~~~~~~~~~-~~~~~~l~i~D~~G~~~~-----------~~   65 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERYVHHRFLVGP---YQNTIGAAFVAKRMVV-GERVVTLGIWDTAGSERY-----------EA   65 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCcCCcC---cccceeeEEEEEEEEE-CCEEEEEEEEECCCchhh-----------hh
Confidence            37999999999999999999986632111   112222111  12223 33  35679999996532           22


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      ....++.++|++++|++.++.-+.+. ..+++.+...   ....|+++|.||+|+..
T Consensus        66 ~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~---~~~~piilv~nK~Dl~~  119 (193)
T cd04118          66 MSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQNL---EEHCKIYLCGTKSDLIE  119 (193)
T ss_pred             hhHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHhc---CCCCCEEEEEEcccccc
Confidence            22346778999999999984322221 3455555443   12378999999999864

Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilita

>PRK04213 GTP-binding protein; Provisional

Probab=99.63  E-value=1.5e-14  Score=102.57  Aligned_cols=124  Identities=21%  Similarity=0.182  Sum_probs=74.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+|+++|.+|+|||||+|+|++... ..+. .++.|...  ..... .  .+.+|||||+.......+...+.+...
T Consensus         7 ~~~~~i~i~G~~~~GKSsLin~l~~~~~-~~~~-~~~~t~~~--~~~~~-~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~   79 (201)
T PRK04213          7 DRKPEIVFVGRSNVGKSTLVRELTGKKV-RVGK-RPGVTRKP--NHYDW-G--DFILTDLPGFGFMSGVPKEVQEKIKDE   79 (201)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCC-ccCC-CCceeeCc--eEEee-c--ceEEEeCCccccccccCHHHHHHHHHH
Confidence            4568999999999999999999998763 2222 22333322  22322 2  689999999754333222223333332


Q ss_pred             H----HhccCCceEEEEEeecCCCCC-----------HHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 I----GLAKDGIHAVLVGFSVRSRFP-----------QEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~----~~~~~~~~~ii~v~~~~~~~~-----------~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +    ......++++++|+|..+...           ..+....+.+..     ...|+++|+||+|+...
T Consensus        80 ~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~p~iiv~NK~Dl~~~  145 (201)
T PRK04213         80 IVRYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLRE-----LGIPPIVAVNKMDKIKN  145 (201)
T ss_pred             HHHHHHhhhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHHH-----cCCCeEEEEECccccCc
Confidence            2    223445688999999863211           112222333322     12789999999998654

>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases

Probab=99.63  E-value=4.3e-15  Score=102.83  Aligned_cols=113  Identities=23%  Similarity=0.168  Sum_probs=72.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCc--eEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           22 VVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ--VVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        22 i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      |+++|.+|+|||||++++++... .....+......  ...... ++.  .+.+|||||.....           .....
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~-~~~~~~~~~~~~--~~~~~~-~~~~~~~~i~Dt~G~~~~~-----------~~~~~   65 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAF-PEDYVPTVFENY--SADVEV-DGKPVELGLWDTAGQEDYD-----------RLRPL   65 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCC-CCCCCCcEEeee--eEEEEE-CCEEEEEEEEECCCCcccc-----------hhchh
Confidence            58999999999999999998663 222222111111  112222 333  58999999965421           12224


Q ss_pred             ccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ++..+|++++|+|.++.-+-+.  ..+++.+.+..+   ..|+++|.||+|+...
T Consensus        66 ~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~---~~piilv~nK~Dl~~~  117 (174)
T smart00174       66 SYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFCP---NTPIILVGTKLDLRED  117 (174)
T ss_pred             hcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCC---CCCEEEEecChhhhhC
Confidence            6778999999999984433222  235555555432   3799999999998753

Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.63  E-value=1.5e-14  Score=119.74  Aligned_cols=126  Identities=21%  Similarity=0.233  Sum_probs=85.6

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ...+|+++|.+|+|||||+|+|++....... ...+.|.........+ ++..+.+|||||+......  ....+....+
T Consensus       449 ~~~kI~ivG~~nvGKSSLin~l~~~~~~~v~-~~~gtT~d~~~~~~~~-~~~~~~liDTaG~~~~~~~--~~~~e~~~~~  524 (712)
T PRK09518        449 GLRRVALVGRPNVGKSSLLNQLTHEERAVVN-DLAGTTRDPVDEIVEI-DGEDWLFIDTAGIKRRQHK--LTGAEYYSSL  524 (712)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCccccccC-CCCCCCcCcceeEEEE-CCCEEEEEECCCcccCccc--chhHHHHHHH
Confidence            4589999999999999999999987631111 1233344333334445 7778899999998643221  1122222222


Q ss_pred             --HhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 --GLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 --~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                        ..+++.+|++++|+|+++..+..+...++.+.+.     ..|+++|+||+|+...
T Consensus       525 r~~~~i~~advvilViDat~~~s~~~~~i~~~~~~~-----~~piIiV~NK~DL~~~  576 (712)
T PRK09518        525 RTQAAIERSELALFLFDASQPISEQDLKVMSMAVDA-----GRALVLVFNKWDLMDE  576 (712)
T ss_pred             HHHHHhhcCCEEEEEEECCCCCCHHHHHHHHHHHHc-----CCCEEEEEEchhcCCh
Confidence              2356789999999999978887776665555432     2789999999999764

>cd00876 Ras Ras family

Probab=99.63  E-value=1.3e-14  Score=98.72  Aligned_cols=116  Identities=18%  Similarity=0.140  Sum_probs=72.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeC--CceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      +|+++|++|+|||||++++++.. +.....+....  ........ .  ...+.+||+||...           +.....
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~-~~~~~~~~~~~--~~~~~~~~-~~~~~~~~l~D~~g~~~-----------~~~~~~   65 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGT-FVEEYDPTIED--SYRKTIVV-DGETYTLDILDTAGQEE-----------FSAMRD   65 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCC-CCcCcCCChhH--eEEEEEEE-CCEEEEEEEEECCChHH-----------HHHHHH
Confidence            58999999999999999999876 32332222111  11222223 3  24678999999553           222223


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..+..++++++|++..+.-+..+ ..+...+...... ...|+++++||+|+...
T Consensus        66 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~~~  119 (160)
T cd00876          66 LYIRQGDGFILVYSITDRESFEEIKGYREQILRVKDD-EDIPIVLVGNKCDLENE  119 (160)
T ss_pred             HHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCcEEEEEECCccccc
Confidence            45667899999999974322222 3444444444331 23899999999999864

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m

>cd04176 Rap2 Rap2 subgroup

Probab=99.63  E-value=7.7e-15  Score=100.50  Aligned_cols=117  Identities=18%  Similarity=0.136  Sum_probs=73.0

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      .+++++|.+|+|||||++.++....... ..+...  ......... .+  ..+.+|||||.....           ...
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~-~~~t~~--~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~-----------~~~   66 (163)
T cd04176           2 YKVVVLGSGGVGKSALTVQFVSGTFIEK-YDPTIE--DFYRKEIEV-DSSPSVLEILDTAGTEQFA-----------SMR   66 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCC-CCCchh--heEEEEEEE-CCEEEEEEEEECCCccccc-----------chH
Confidence            5899999999999999999887653222 111111  111122322 33  357899999965432           122


Q ss_pred             HhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..+++.+|++++|++.++.-+-. ...+++.+.+... ....|+++|.||+|+...
T Consensus        67 ~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~piviv~nK~Dl~~~  121 (163)
T cd04176          67 DLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKG-YEKVPIILVGNKVDLESE  121 (163)
T ss_pred             HHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEECccchhc
Confidence            23566789999999998443322 2345555555422 123789999999998653

The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, incl

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.63  E-value=2.5e-14  Score=96.90  Aligned_cols=113  Identities=19%  Similarity=0.142  Sum_probs=72.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhcc
Q 043441           22 VVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAK  101 (173)
Q Consensus        22 i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~  101 (173)
                      |+++|++|+|||||+|.|.+.... ....   .|.......... .+..+.+|||||...           +......++
T Consensus         2 i~i~G~~~~GKssl~~~l~~~~~~-~~~~---~t~~~~~~~~~~-~~~~~~~~D~~g~~~-----------~~~~~~~~~   65 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGGQFS-EDTI---PTVGFNMRKVTK-GNVTLKVWDLGGQPR-----------FRSMWERYC   65 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccCCCC-cCcc---CCCCcceEEEEE-CCEEEEEEECCCCHh-----------HHHHHHHHH
Confidence            789999999999999999987642 2211   222233333444 567899999999642           233344567


Q ss_pred             CCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCCC
Q 043441          102 DGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELED  152 (173)
Q Consensus       102 ~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~  152 (173)
                      ..+|++++|+|+++. ... .....++.+....  ....|+++|+||+|+...
T Consensus        66 ~~~d~ii~v~d~~~~-~~~-~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~  116 (159)
T cd04159          66 RGVNAIVYVVDAADR-TAL-EAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGA  116 (159)
T ss_pred             hcCCEEEEEEECCCH-HHH-HHHHHHHHHHHcChhhcCCCEEEEEeCccccCC
Confidence            788999999999732 211 1222233333221  123689999999998765

Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.

>cd04126 Rab20 Rab20 subfamily

Probab=99.63  E-value=1.4e-14  Score=103.95  Aligned_cols=113  Identities=20%  Similarity=0.119  Sum_probs=74.1

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .+|+++|.+|+|||||++.++..... ..    ..|.......... ....+.+|||||....           ......
T Consensus         1 ~KIvivG~~~vGKTSLi~r~~~~~f~-~~----~~Tig~~~~~~~~-~~~~l~iwDt~G~e~~-----------~~l~~~   63 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRYMERRFK-DT----VSTVGGAFYLKQW-GPYNISIWDTAGREQF-----------HGLGSM   63 (220)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCC-CC----CCccceEEEEEEe-eEEEEEEEeCCCcccc-----------hhhHHH
Confidence            37899999999999999999987642 21    1233222233333 4567899999997542           122234


Q ss_pred             ccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      +++.++++|+|+|++++-+... ..++..+.+....  ..|+++|.||+|+..
T Consensus        64 ~~~~ad~~IlV~Dvt~~~Sf~~l~~~~~~l~~~~~~--~~piIlVgNK~DL~~  114 (220)
T cd04126          64 YCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANE--DCLFAVVGNKLDLTE  114 (220)
T ss_pred             HhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC--CCcEEEEEECccccc
Confidence            5778999999999985443333 2333334433222  268999999999875

Rab20 is one of several Rab proteins that appear to be restricted in expression to the apical domain of murine polarized epithelial cells. It is expressed on the apical side of polarized kidney tubule and intestinal epithelial cells, and in non-polarized cells. It also localizes to vesico-tubular structures below the apical brush border of renal proximal tubule cells and in the apical region of duodenal epithelial cells. Rab20 has also been shown to colocalize with vacuolar H+-ATPases (V-ATPases) in mouse kidney cells, suggesting a role in the regulation of V-ATPase traffic in specific portions of the nephron. It was also shown to be one of several proteins whose expression is upregulated in human myelodysplastic syndrome (MDS) patients. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bo

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.62  E-value=1.4e-14  Score=101.36  Aligned_cols=121  Identities=12%  Similarity=0.023  Sum_probs=72.8

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ..+|+++|.+|+|||||+++++..... ......+.+............+..+.+|||||..           ++...+.
T Consensus         3 ~~kv~~vG~~~~GKTsli~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~-----------~~~~~~~   70 (183)
T cd04152           3 SLHIVMLGLDSAGKTTVLYRLKFNEFV-NTVPTKGFNTEKIKVSLGNSKGITFHFWDVGGQE-----------KLRPLWK   70 (183)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCcC-CcCCccccceeEEEeeccCCCceEEEEEECCCcH-----------hHHHHHH
Confidence            468999999999999999999876532 2211111111111111101134679999999953           2233334


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .+++.++++++|+|+++.-+... ..++..+...... ...|+++|+||+|+...
T Consensus        71 ~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~i~~~~~~-~~~p~iiv~NK~D~~~~  124 (183)
T cd04152          71 SYTRCTDGIVFVVDSVDVERMEEAKTELHKITRFSEN-QGVPVLVLANKQDLPNA  124 (183)
T ss_pred             HHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhhhhc-CCCcEEEEEECcCcccc
Confidence            56778999999999984322111 2233333332221 23799999999998643

Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily.

>KOG0095 consensus GTPase Rab30, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.62  E-value=1.1e-14  Score=95.59  Aligned_cols=120  Identities=15%  Similarity=0.106  Sum_probs=88.0

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .+|++||..|+|||.|+..++..-.++......+.....+-..+.. ....+++|||+|           .++++++..+
T Consensus         8 fkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~g-ekiklqiwdtag-----------qerfrsitqs   75 (213)
T KOG0095|consen    8 FKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNG-EKIKLQIWDTAG-----------QERFRSITQS   75 (213)
T ss_pred             EEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECC-eEEEEEEeeccc-----------hHHHHHHHHH
Confidence            6899999999999999999987663333222333444444444433 446899999999           4478888889


Q ss_pred             ccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      +++.+|+++++.|++-..+-. ..+|+.+|.+-..++  .-.++|.||.|+.+.+
T Consensus        76 yyrsahalilvydiscqpsfdclpewlreie~yan~k--vlkilvgnk~d~~drr  128 (213)
T KOG0095|consen   76 YYRSAHALILVYDISCQPSFDCLPEWLREIEQYANNK--VLKILVGNKIDLADRR  128 (213)
T ss_pred             HhhhcceEEEEEecccCcchhhhHHHHHHHHHHhhcc--eEEEeeccccchhhhh
Confidence            999999999999997222222 368888888875554  6678999999988753

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.62  E-value=8.7e-15  Score=101.68  Aligned_cols=114  Identities=23%  Similarity=0.147  Sum_probs=74.4

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEE-EEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ-RTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      .+++++|.+|+|||||++.+.... |.....   +|...... .... ++  ..+.+|||+|....           ...
T Consensus         2 ~ki~vvG~~~vGKTsl~~~~~~~~-f~~~~~---pt~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~-----------~~~   65 (175)
T cd01874           2 IKCVVVGDGAVGKTCLLISYTTNK-FPSEYV---PTVFDNYAVTVMI-GGEPYTLGLFDTAGQEDY-----------DRL   65 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCC-CCCCCC---CceeeeeEEEEEE-CCEEEEEEEEECCCccch-----------hhh
Confidence            579999999999999999998765 322221   22221111 2233 34  46789999997642           122


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHH--HHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEE--AALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...+++.+|++++|++.+++-+....  .+++.+....   ...|+++|.||+|+...
T Consensus        66 ~~~~~~~a~~~ilv~d~~~~~s~~~~~~~w~~~i~~~~---~~~piilvgnK~Dl~~~  120 (175)
T cd01874          66 RPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC---PKTPFLLVGTQIDLRDD  120 (175)
T ss_pred             hhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC---CCCCEEEEEECHhhhhC
Confidence            23467789999999999855443332  3555555432   23799999999997643

Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases. These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway. Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth. In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus. Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand. In addi

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=99.62  E-value=1.2e-15  Score=99.32  Aligned_cols=116  Identities=17%  Similarity=0.153  Sum_probs=68.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCcc--ccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFK--SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~--~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      +|+|+|+.|+|||||+++|++.....  ........+.......... ....+.++|++|.........           
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~d~~g~~~~~~~~~-----------   68 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDG-DRQSLQFWDFGGQEEFYSQHQ-----------   68 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETT-EEEEEEEEEESSSHCHHCTSH-----------
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecC-CceEEEEEecCccceeccccc-----------
Confidence            68999999999999999999877431  1111122223222222222 233588999999754221111           


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGD  148 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D  148 (173)
                      .....+|++++|+|.++.-+.+. ..+++++...-......|+++|.||.|
T Consensus        69 ~~~~~~d~~ilv~D~s~~~s~~~~~~~~~~l~~~~~~~~~~piilv~nK~D  119 (119)
T PF08477_consen   69 FFLKKADAVILVYDLSDPESLEYLSQLLKWLKNIRKRDKNIPIILVGNKSD  119 (119)
T ss_dssp             HHHHHSCEEEEEEECCGHHHHHHHHHHHHHHHHHHHHSSCSEEEEEEE-TC
T ss_pred             chhhcCcEEEEEEcCCChHHHHHHHHHHHHHHHHHccCCCCCEEEEEeccC
Confidence            11335699999999984332222 234555555543233489999999998

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.62  E-value=2.3e-14  Score=98.00  Aligned_cols=118  Identities=16%  Similarity=0.055  Sum_probs=71.0

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .+|+++|++|+|||||+++++..... ....+.............. ....+.+|||||....           ......
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l~~~~~~-~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~g~~~~-----------~~~~~~   67 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYDEFV-EDYEPTKADSYRKKVVLDG-EDVQLNILDTAGQEDY-----------AAIRDN   67 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCc-cccCCcchhhEEEEEEECC-EEEEEEEEECCChhhh-----------hHHHHH
Confidence            37999999999999999999976532 2211111111111111111 2346899999996532           223334


Q ss_pred             ccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      ++..+++++++++..+.-+-. ...++..+..... ....|+++|+||+|+..
T Consensus        68 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~piiiv~NK~D~~~  119 (164)
T cd04139          68 YHRSGEGFLLVFSITDMESFTATAEFREQILRVKD-DDNVPLLLVGNKCDLED  119 (164)
T ss_pred             HhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEEcccccc
Confidence            667789999999987322111 1234344443311 23379999999999876

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.62  E-value=1.9e-14  Score=103.39  Aligned_cols=116  Identities=16%  Similarity=0.021  Sum_probs=72.6

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .+|+++|.+|+|||||++.+++... .....+...........+.. ....+.+|||+|...           +......
T Consensus         2 ~KIvvvGd~~vGKTsLi~~~~~~~f-~~~y~pTi~~~~~~~~~~~~-~~v~L~iwDt~G~e~-----------~~~l~~~   68 (222)
T cd04173           2 CKIVVVGDAECGKTALLQVFAKDAY-PGSYVPTVFENYTASFEIDK-RRIELNMWDTSGSSY-----------YDNVRPL   68 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCC-CCccCCccccceEEEEEECC-EEEEEEEEeCCCcHH-----------HHHHhHH
Confidence            5799999999999999999987663 33322221111111111211 234788999999543           2233335


Q ss_pred             ccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      +++.+|++++|+|.++.-+-+.  ..|...+....   ...|++||.||+|+..
T Consensus        69 ~~~~~d~illvfdis~~~Sf~~i~~~w~~~~~~~~---~~~piiLVgnK~DL~~  119 (222)
T cd04173          69 AYPDSDAVLICFDISRPETLDSVLKKWQGETQEFC---PNAKVVLVGCKLDMRT  119 (222)
T ss_pred             hccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC---CCCCEEEEEECccccc
Confidence            7889999999999985433222  23333333322   2379999999999865

Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd3/RhoE/Rho8. Rnd2/Rho7 is transiently expressed in radially migrating cells in the brain while they are within the subventricular zone of the hippocampus and cerebral cortex. These migrating cells typically develop into pyramidal neurons. Cells that exogenously expressed Rnd2/Rho7 failed to migrate to upper layers of the brain, suggesting that Rnd2/Rho7 plays a role in the radial migration and morphological changes of developing pyramidal neurons, and that Rnd2/Rho7 degradation is necessary for proper cellular migration. The Rnd2/Rho7 GEF Rapostlin is found primarily in the brain and together with Rnd2/Rho7 induces dendrite branching. Unlike Rnd1/Rho6 and Rnd3/RhoE/Rho8, which are RhoA antagonists, Rnd2/Rho7 binds the GEF Pragmin and significantly stimulates RhoA activity and Rho-A mediated cell contraction. Rnd2/Rho7 is also found to be expressed in sperma

>cd04128 Spg1 Spg1p

Probab=99.62  E-value=1.3e-14  Score=101.45  Aligned_cols=113  Identities=13%  Similarity=0.089  Sum_probs=72.5

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEE--EEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM--QRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~--~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      .+++++|.+|+|||||++.+++... .....   .|.....  ..+.. ++  ..+.+|||+|...           +..
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~~~~~f-~~~~~---~T~g~~~~~~~i~~-~~~~~~l~iwDt~G~~~-----------~~~   64 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVEGEF-DEDYI---QTLGVNFMEKTISI-RGTEITFSIWDLGGQRE-----------FIN   64 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCC-CCCCC---CccceEEEEEEEEE-CCEEEEEEEEeCCCchh-----------HHH
Confidence            3789999999999999999987653 22221   2222111  22333 33  4689999999653           233


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      ....+++.++++++|+|.+++.+..+ ..+++.+....+.  ..| ++|.||+|+..
T Consensus        65 ~~~~~~~~a~~iilv~D~t~~~s~~~i~~~~~~~~~~~~~--~~p-ilVgnK~Dl~~  118 (182)
T cd04128          65 MLPLVCNDAVAILFMFDLTRKSTLNSIKEWYRQARGFNKT--AIP-ILVGTKYDLFA  118 (182)
T ss_pred             hhHHHCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCC--CCE-EEEEEchhccc
Confidence            33457889999999999985433332 3455555544222  245 68899999863

Spg1p (septum-promoting GTPase) was first identified in the fission yeast S. pombe, where it regulates septum formation in the septation initiation network (SIN) through the cdc7 protein kinase. Spg1p is an essential gene that localizes to the spindle pole bodies. When GTP-bound, it binds cdc7 and causes it to translocate to spindle poles. Sid4p (septation initiation defective) is required for localization of Spg1p to the spindle pole body, and the ability of Spg1p to promote septum formation from any point in the cell cycle depends on Sid4p. Spg1p is negatively regulated by Byr4 and cdc16, which form a two-component GTPase activating protein (GAP) for Spg1p. The existence of a SIN-related pathway in plants has been proposed. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are

>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins

Probab=99.62  E-value=3.8e-14  Score=102.70  Aligned_cols=87  Identities=20%  Similarity=0.223  Sum_probs=58.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      +++++|++|+|||||+|+|++.....  ......|.........+ .+..+.++||||+.+..........++    ...
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~v--~~~~~tT~~~~~g~~~~-~~~~i~l~DtpG~~~~~~~~~~~~~~~----l~~   74 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSEV--AAYEFTTLTCVPGVLEY-KGAKIQLLDLPGIIEGAADGKGRGRQV----IAV   74 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccc--cCCCCccccceEEEEEE-CCeEEEEEECCCcccccccchhHHHHH----HHh
Confidence            68999999999999999999876321  12233343343344445 778899999999876432222222222    245


Q ss_pred             cCCceEEEEEeecC
Q 043441          101 KDGIHAVLVGFSVR  114 (173)
Q Consensus       101 ~~~~~~ii~v~~~~  114 (173)
                      ++.+|++++|+|++
T Consensus        75 ~~~ad~il~V~D~t   88 (233)
T cd01896          75 ARTADLILMVLDAT   88 (233)
T ss_pred             hccCCEEEEEecCC
Confidence            67889999999986

GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.62  E-value=3.8e-14  Score=96.99  Aligned_cols=121  Identities=21%  Similarity=0.261  Sum_probs=74.9

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCc---HHHHHHHHHHHH
Q 043441           22 VVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGS---EFVGMEIVKCIG   98 (173)
Q Consensus        22 i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~---~~~~~~~~~~~~   98 (173)
                      |+++|.+|+|||||+|.|++...........+.+.....  ..  ....+.++||||+.......   +.....+..++ 
T Consensus         2 i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~--~~--~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~-   76 (170)
T cd01876           2 IAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINF--FN--VNDKFRLVDLPGYGYAKVSKEVKEKWGKLIEEYL-   76 (170)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEE--EE--ccCeEEEecCCCccccccCHHHHHHHHHHHHHHH-
Confidence            789999999999999999954322222222233333322  22  23489999999987653321   11222122222 


Q ss_pred             hccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .....++.++++++............++++...     ..|+++++||+|++..
T Consensus        77 ~~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~~~-----~~~vi~v~nK~D~~~~  125 (170)
T cd01876          77 ENRENLKGVVLLIDSRHGPTEIDLEMLDWLEEL-----GIPFLVVLTKADKLKK  125 (170)
T ss_pred             HhChhhhEEEEEEEcCcCCCHhHHHHHHHHHHc-----CCCEEEEEEchhcCCh
Confidence            223456788889988755555555666666543     2689999999999754

This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.

>cd04133 Rop_like Rop subfamily

Probab=99.62  E-value=1.6e-14  Score=100.34  Aligned_cols=117  Identities=18%  Similarity=0.116  Sum_probs=77.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .+++++|.+|+|||+|+..++... |.....+.............. ....+.+|||+|....           ......
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~-f~~~~~~Ti~~~~~~~~~~~~-~~v~l~i~Dt~G~~~~-----------~~~~~~   68 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNK-FPTDYIPTVFDNFSANVSVDG-NTVNLGLWDTAGQEDY-----------NRLRPL   68 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCC-CCCCCCCcceeeeEEEEEECC-EEEEEEEEECCCCccc-----------cccchh
Confidence            479999999999999999999766 333222221111111112211 2357899999997643           222234


Q ss_pred             ccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +++.++++|+|+|.+++-+-+.  ..|++.+.... .  ..|+++|.||+|+.+.
T Consensus        69 ~~~~a~~~ilvyd~~~~~Sf~~~~~~w~~~i~~~~-~--~~piilvgnK~Dl~~~  120 (176)
T cd04133          69 SYRGADVFVLAFSLISRASYENVLKKWVPELRHYA-P--NVPIVLVGTKLDLRDD  120 (176)
T ss_pred             hcCCCcEEEEEEEcCCHHHHHHHHHHHHHHHHHhC-C--CCCEEEEEeChhhccC
Confidence            6789999999999986655544  35666665542 2  3799999999998653

The Rop (Rho-related protein from plants) subfamily plays a role in diverse cellular processes, including cytoskeletal organization, pollen and vegetative cell growth, hormone responses, stress responses, and pathogen resistance. Rops are able to regulate several downstream pathways to amplify a specific signal by acting as master switches early in the signaling cascade. They transmit a variety of extracellular and intracellular signals. Rops are involved in establishing cell polarity in root-hair development, root-hair elongation, pollen-tube growth, cell-shape formation, responses to hormones such as abscisic acid (ABA) and auxin, responses to abiotic stresses such as oxygen deprivation, and disease resistance and disease susceptibility. An individual Rop can have a unique function or an overlapping function shared with other Rop proteins; in addition, a given Rop-regulated function can be controlled by one or multiple Rop proteins. For example,

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.61  E-value=1.7e-14  Score=102.84  Aligned_cols=116  Identities=13%  Similarity=0.110  Sum_probs=75.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCcccc-----------------------------CCCCccceeeEEEEEEeeCCceE
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSR-----------------------------ASSSGVTSTCEMQRTVLKDGQVV   71 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~-----------------------------~~~~~~t~~~~~~~~~~~~~~~~   71 (173)
                      +|+++|.+|+|||||+++|+........                             -...+.|.........+ .+..+
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~-~~~~~   79 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFST-PKRKF   79 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEec-CCceE
Confidence            5899999999999999999764321110                             00134455555555555 77789


Q ss_pred             EEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           72 NVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        72 ~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      .++||||+.+           +...+......+|++++|+|+++............+.. .+   ..++++|+||+|+..
T Consensus        80 ~liDTpG~~~-----------~~~~~~~~~~~ad~~llVvD~~~~~~~~~~~~~~~~~~-~~---~~~iIvviNK~D~~~  144 (208)
T cd04166          80 IIADTPGHEQ-----------YTRNMVTGASTADLAILLVDARKGVLEQTRRHSYILSL-LG---IRHVVVAVNKMDLVD  144 (208)
T ss_pred             EEEECCcHHH-----------HHHHHHHhhhhCCEEEEEEECCCCccHhHHHHHHHHHH-cC---CCcEEEEEEchhccc
Confidence            9999999642           22222234567899999999986655444443333322 22   145788999999875


Q ss_pred             C
Q 043441          152 D  152 (173)
Q Consensus       152 ~  152 (173)
                      .
T Consensus       145 ~  145 (208)
T cd04166         145 Y  145 (208)
T ss_pred             C
Confidence            3

CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which catalyzes ATP hydrolysis, is a member of the ATP pyrophosphatase (ATP PPase) family. CysN hydrolysis of GTP is required for CysD hydrolysis of ATP; however, CysN hydrolysis of GTP is not dependent on CysD hydrolysis of ATP. CysN is an example of lateral gene transfer followed by acquisition of new function. In many organisms, an ATPS exists which is not GTP-dependent and shares no sequence or structural similarity to CysN.

>cd04177 RSR1 RSR1 subgroup

Probab=99.61  E-value=1.7e-14  Score=99.44  Aligned_cols=119  Identities=18%  Similarity=0.098  Sum_probs=73.5

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      .+++++|.+|+||||+++++.+... .....+.......  ...... ....+.+|||||....           .....
T Consensus         2 ~ki~liG~~~~GKTsli~~~~~~~~-~~~~~~t~~~~~~--~~~~~~~~~~~~~i~Dt~G~~~~-----------~~~~~   67 (168)
T cd04177           2 YKIVVLGAGGVGKSALTVQFVQNVF-IESYDPTIEDSYR--KQVEIDGRQCDLEILDTAGTEQF-----------TAMRE   67 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCC-CcccCCcchheEE--EEEEECCEEEEEEEEeCCCcccc-----------hhhhH
Confidence            5799999999999999999987663 2222221111111  122221 2247789999997643           12222


Q ss_pred             hccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .++..++++++|++.++.-+-+ ...+.+.+...... ...|++++.||.|+....
T Consensus        68 ~~~~~~~~~vlv~~~~~~~s~~~~~~~~~~i~~~~~~-~~~piiiv~nK~D~~~~~  122 (168)
T cd04177          68 LYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDS-DNVPMVLVGNKADLEDDR  122 (168)
T ss_pred             HHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCC-CCCCEEEEEEChhccccC
Confidence            4456789999999998432222 23444555544322 237899999999987653

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu

>cd01892 Miro2 Miro2 subfamily

Probab=99.61  E-value=3e-14  Score=98.42  Aligned_cols=119  Identities=13%  Similarity=-0.002  Sum_probs=72.2

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      +..+|+++|.+|+|||||++++++.........+.. ........+.. .+  ..+.++|++|.....           .
T Consensus         3 ~~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~-~~~~~~~~~~~-~~~~~~l~~~d~~g~~~~~-----------~   69 (169)
T cd01892           3 NVFLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTI-KPRYAVNTVEV-YGQEKYLILREVGEDEVAI-----------L   69 (169)
T ss_pred             eEEEEEEECCCCCcHHHHHHHHhCCCCCcccCCCcc-CcceEEEEEEE-CCeEEEEEEEecCCccccc-----------c
Confidence            457899999999999999999998763202221211 11111122333 33  467899999966431           1


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ....++.++|++++|+|+++. .. .....+++.. +......|+++|+||+|+...
T Consensus        70 ~~~~~~~~~d~~llv~d~~~~-~s-~~~~~~~~~~-~~~~~~~p~iiv~NK~Dl~~~  123 (169)
T cd01892          70 LNDAELAACDVACLVYDSSDP-KS-FSYCAEVYKK-YFMLGEIPCLFVAAKADLDEQ  123 (169)
T ss_pred             cchhhhhcCCEEEEEEeCCCH-HH-HHHHHHHHHH-hccCCCCeEEEEEEccccccc
Confidence            122356789999999999743 11 1122232332 222224799999999998654

Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.61  E-value=1.7e-14  Score=100.12  Aligned_cols=114  Identities=19%  Similarity=0.084  Sum_probs=72.7

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      .+++++|.+|+|||||+.+++.... .....+........  .... .+  ..+.+|||||...           +....
T Consensus         2 ~ki~iiG~~~vGKSsli~~~~~~~f-~~~~~~t~~~~~~~--~~~~-~~~~~~l~i~Dt~G~~~-----------~~~~~   66 (174)
T cd01871           2 IKCVVVGDGAVGKTCLLISYTTNAF-PGEYIPTVFDNYSA--NVMV-DGKPVNLGLWDTAGQED-----------YDRLR   66 (174)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCC-CCcCCCcceeeeEE--EEEE-CCEEEEEEEEECCCchh-----------hhhhh
Confidence            4799999999999999999987553 22222211111111  1222 33  4688999999653           22223


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      ..++..+|++|+|++.+++-+...  ..+++.+....   ...|+++|.||.|+..
T Consensus        67 ~~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~---~~~piilvgnK~Dl~~  119 (174)
T cd01871          67 PLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC---PNTPIILVGTKLDLRD  119 (174)
T ss_pred             hhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC---CCCCEEEEeeChhhcc
Confidence            346778999999999985433332  23555555432   2379999999999854

The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleoti

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=99.61  E-value=1.8e-14  Score=106.39  Aligned_cols=115  Identities=16%  Similarity=0.169  Sum_probs=80.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccc----------------cCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCC
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKS----------------RASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~----------------~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~   84 (173)
                      +|+++|.+|+|||||+++|+.......                .-...+.|.........+ ++..+.++||||..+   
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~-~~~~i~liDTPG~~d---   76 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFW-KDHRINIIDTPGHVD---   76 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEE-CCEEEEEEECCCcHH---
Confidence            478999999999999999963211000                011235566666667777 788999999999764   


Q ss_pred             CcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           85 GSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                              +...+..+++.+|++++|+++.+.........++.+...     ..|+++++||+|+...
T Consensus        77 --------f~~~~~~~l~~aD~ailVVDa~~g~~~~t~~~~~~~~~~-----~~p~ivviNK~D~~~a  131 (270)
T cd01886          77 --------FTIEVERSLRVLDGAVAVFDAVAGVEPQTETVWRQADRY-----NVPRIAFVNKMDRTGA  131 (270)
T ss_pred             --------HHHHHHHHHHHcCEEEEEEECCCCCCHHHHHHHHHHHHc-----CCCEEEEEECCCCCCC
Confidence                    222233456677999999999877776666666555442     2689999999998764

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.61  E-value=1.2e-14  Score=106.05  Aligned_cols=131  Identities=18%  Similarity=0.167  Sum_probs=94.1

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCc-HHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGS-EFVGMEIV   94 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~-~~~~~~~~   94 (173)
                      ......++++|.+++|||||.|.++|...+...  ....|+..+...+-..+...++++||||+....... ......+.
T Consensus        69 ~~k~L~vavIG~PNvGKStLtN~mig~kv~~vS--~K~~TTr~~ilgi~ts~eTQlvf~DTPGlvs~~~~r~~~l~~s~l  146 (379)
T KOG1423|consen   69 AQKSLYVAVIGAPNVGKSTLTNQMIGQKVSAVS--RKVHTTRHRILGIITSGETQLVFYDTPGLVSKKMHRRHHLMMSVL  146 (379)
T ss_pred             cceEEEEEEEcCCCcchhhhhhHhhCCcccccc--ccccceeeeeeEEEecCceEEEEecCCcccccchhhhHHHHHHhh
Confidence            356788999999999999999999998874433  334455555555544477899999999999765432 22333333


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +........+|.+++++|+++.-.......++.+.+..    ..|-++|.||.|.+..
T Consensus       147 q~~~~a~q~AD~vvVv~Das~tr~~l~p~vl~~l~~ys----~ips~lvmnkid~~k~  200 (379)
T KOG1423|consen  147 QNPRDAAQNADCVVVVVDASATRTPLHPRVLHMLEEYS----KIPSILVMNKIDKLKQ  200 (379)
T ss_pred             hCHHHHHhhCCEEEEEEeccCCcCccChHHHHHHHHHh----cCCceeeccchhcchh
Confidence            44445677889999999998644445566777776652    2788999999998864

>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.61  E-value=1.9e-14  Score=99.95  Aligned_cols=117  Identities=10%  Similarity=0.051  Sum_probs=85.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+|+++|..||||||+++.|......     ...+|.......+.+ .+..+.++|.+|-.           .++..
T Consensus        12 ~~~~~ililGl~~sGKTtll~~l~~~~~~-----~~~pT~g~~~~~i~~-~~~~~~~~d~gG~~-----------~~~~~   74 (175)
T PF00025_consen   12 KKEIKILILGLDGSGKTTLLNRLKNGEIS-----ETIPTIGFNIEEIKY-KGYSLTIWDLGGQE-----------SFRPL   74 (175)
T ss_dssp             TSEEEEEEEESTTSSHHHHHHHHHSSSEE-----EEEEESSEEEEEEEE-TTEEEEEEEESSSG-----------GGGGG
T ss_pred             CcEEEEEEECCCccchHHHHHHhhhcccc-----ccCcccccccceeee-CcEEEEEEeccccc-----------ccccc
Confidence            66789999999999999999999865421     134566666667777 88899999999954           34445


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc--ccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK--VFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~  152 (173)
                      +..++.+++++|||+|.++.-.  -.+..+.+.+.+...  ...|++|++||.|....
T Consensus        75 w~~y~~~~~~iIfVvDssd~~~--l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~  130 (175)
T PF00025_consen   75 WKSYFQNADGIIFVVDSSDPER--LQEAKEELKELLNDPELKDIPILILANKQDLPDA  130 (175)
T ss_dssp             GGGGHTTESEEEEEEETTGGGG--HHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTS
T ss_pred             ceeeccccceeEEEEeccccee--ecccccchhhhcchhhcccceEEEEeccccccCc
Confidence            5578889999999999984321  223344445544432  34799999999998765

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.60  E-value=3e-14  Score=117.97  Aligned_cols=123  Identities=17%  Similarity=0.139  Sum_probs=82.8

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcH--HHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSE--FVGMEIVKC   96 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~--~~~~~~~~~   96 (173)
                      ..+|+++|.+|+||||++|+|+|.... . ....+.|.+........ .+..+.++||||..+......  ...+.+...
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~~-v-gn~pGvTve~k~g~~~~-~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~   79 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTGARQR-V-GNWAGVTVERKEGQFST-TDHQVTLVDLPGTYSLTTISSQTSLDEQIACH   79 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCc-c-CCCCCceEeeEEEEEEc-CceEEEEEECCCccccccccccccHHHHHHHH
Confidence            368999999999999999999997752 2 23456666666666665 677899999999987543211  112222211


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                       ......+|++++|+|++ ...... .+...+.+.     ..|+++++||+|+.+.
T Consensus        80 -~l~~~~aD~vI~VvDat-~ler~l-~l~~ql~e~-----giPvIvVlNK~Dl~~~  127 (772)
T PRK09554         80 -YILSGDADLLINVVDAS-NLERNL-YLTLQLLEL-----GIPCIVALNMLDIAEK  127 (772)
T ss_pred             -HHhccCCCEEEEEecCC-cchhhH-HHHHHHHHc-----CCCEEEEEEchhhhhc
Confidence             11245789999999998 443332 333333332     2799999999998754

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.60  E-value=3.1e-14  Score=103.91  Aligned_cols=118  Identities=19%  Similarity=0.124  Sum_probs=72.4

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      .+|+++|..|+|||||++.+++... .....+........  .+.. .+  ..+.+|||+|....           ....
T Consensus         1 ~KVvvlG~~gvGKTSLi~r~~~~~f-~~~y~pTi~d~~~k--~~~i-~~~~~~l~I~Dt~G~~~~-----------~~~~   65 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRFLGGRF-EEQYTPTIEDFHRK--LYSI-RGEVYQLDILDTSGNHPF-----------PAMR   65 (247)
T ss_pred             CEEEEECcCCCCHHHHHHHHHcCCC-CCCCCCChhHhEEE--EEEE-CCEEEEEEEEECCCChhh-----------hHHH
Confidence            3799999999999999999987653 22222211111122  2222 33  46789999996542           1111


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHc-------ccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFG-------KKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~-------~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..++..+|++|+|+++++.-+-+. ..+++.+.+...       .....|+++|.||+|+...
T Consensus        66 ~~~~~~ad~iIlVfdv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~  128 (247)
T cd04143          66 RLSILTGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFP  128 (247)
T ss_pred             HHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhc
Confidence            234567899999999984432222 344455544311       1123799999999998753

This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1). These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization. Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum. Rhes expression is controlled by thyroid hormones. In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane. Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling. Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity. Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression l

>cd04135 Tc10 TC10 subfamily

Probab=99.60  E-value=2.9e-14  Score=98.64  Aligned_cols=114  Identities=18%  Similarity=0.114  Sum_probs=72.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCc--eEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ--VVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      +|+++|++|+|||||++.+++.... ....+......  ...... .+.  .+.+|||||......           ...
T Consensus         2 ki~i~G~~~~GKTsl~~~~~~~~~~-~~~~~t~~~~~--~~~~~~-~~~~~~~~i~Dt~G~~~~~~-----------~~~   66 (174)
T cd04135           2 KCVVVGDGAVGKTCLLMSYANDAFP-EEYVPTVFDHY--AVSVTV-GGKQYLLGLYDTAGQEDYDR-----------LRP   66 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCC-CCCCCceeeee--EEEEEE-CCEEEEEEEEeCCCcccccc-----------ccc
Confidence            7999999999999999999876632 22122111111  112222 333  467999999765321           112


Q ss_pred             hccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .++++++++++|++..+.-+.+.  ..+++.+... .  ...|+++|.||+|+.+.
T Consensus        67 ~~~~~~~~~ilv~~~~~~~s~~~~~~~~~~~l~~~-~--~~~piivv~nK~Dl~~~  119 (174)
T cd04135          67 LSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY-A--PNVPYLLVGTQIDLRDD  119 (174)
T ss_pred             ccCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhh-C--CCCCEEEEeEchhhhcC
Confidence            45778899999999984433322  2455555543 2  23799999999998643

TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interacti

>cd01890 LepA LepA subfamily

Probab=99.60  E-value=1.8e-14  Score=100.16  Aligned_cols=117  Identities=19%  Similarity=0.185  Sum_probs=71.1

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCc------cccCC-------CCccceeeEEEEEEe----eCCceEEEEeCCCCCCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAF------KSRAS-------SSGVTSTCEMQRTVL----KDGQVVNVIDTPGLFDF   82 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~------~~~~~-------~~~~t~~~~~~~~~~----~~~~~~~v~DtpG~~~~   82 (173)
                      ++|+++|.+|+|||||++++++....      .....       ..+.+.........+    ..+..+.+|||||+.+.
T Consensus         1 rni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~   80 (179)
T cd01890           1 RNFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDF   80 (179)
T ss_pred             CcEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChhh
Confidence            36899999999999999999874211      00000       011222222111211    13456889999998642


Q ss_pred             CCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           83 SAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                                 ......++..+|++++|+|+++..+..+...+..+.   ..  ..|+++|+||+|+...
T Consensus        81 -----------~~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~---~~--~~~iiiv~NK~Dl~~~  134 (179)
T cd01890          81 -----------SYEVSRSLAACEGALLLVDATQGVEAQTLANFYLAL---EN--NLEIIPVINKIDLPSA  134 (179)
T ss_pred             -----------HHHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHH---Hc--CCCEEEEEECCCCCcC
Confidence                       222334566789999999998655544433332222   12  2689999999998643

LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and eukaryota (e.g. yeast GUF1p), but is missing from archaea. This pattern of phyletic distribution suggests that LepA evolved through a duplication of the EF-G gene in bacteria, followed by early transfer into the eukaryotic lineage, most likely from the promitochondrial endosymbiont. Yeast GUF1p is not essential and mutant cells did not reveal any marked phenotype.

>KOG0087 consensus GTPase Rab11/YPT3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.60  E-value=1.4e-14  Score=100.27  Aligned_cols=123  Identities=15%  Similarity=0.068  Sum_probs=90.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+++++|.+|+|||-|+..++.........+..+.....+...+.. +-.+.++|||+|..           +++.+
T Consensus        12 dylFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~-k~vkaqIWDTAGQE-----------RyrAi   79 (222)
T KOG0087|consen   12 DYLFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDG-KTVKAQIWDTAGQE-----------RYRAI   79 (222)
T ss_pred             ceEEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecC-cEEEEeeecccchh-----------hhccc
Confidence            4457899999999999999999988775444444445544444444433 44578999999944           55555


Q ss_pred             HHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ...+|+++.+.++|.|++.+.+-+ ...|+++|++.....  ..+++|.||+|+..-+
T Consensus        80 tSaYYrgAvGAllVYDITr~~Tfenv~rWL~ELRdhad~n--ivimLvGNK~DL~~lr  135 (222)
T KOG0087|consen   80 TSAYYRGAVGALLVYDITRRQTFENVERWLKELRDHADSN--IVIMLVGNKSDLNHLR  135 (222)
T ss_pred             cchhhcccceeEEEEechhHHHHHHHHHHHHHHHhcCCCC--eEEEEeecchhhhhcc
Confidence            667999999999999998555544 367777787775443  7999999999998743

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=99.59  E-value=2.2e-14  Score=106.26  Aligned_cols=127  Identities=20%  Similarity=0.228  Sum_probs=75.5

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCC------CCccceeeEEEEEEee-CC--ceEEEEeCCCCCCCCCCcHHH-
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRAS------SSGVTSTCEMQRTVLK-DG--QVVNVIDTPGLFDFSAGSEFV-   89 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~------~~~~t~~~~~~~~~~~-~~--~~~~v~DtpG~~~~~~~~~~~-   89 (173)
                      .+++|+|.+|+|||||||+|++.........      ....+........... .+  .++.|+||||+.+.-.+...+ 
T Consensus         5 fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpGfGd~i~n~~~~~   84 (281)
T PF00735_consen    5 FNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPGFGDNIDNSDCWE   84 (281)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-CSSSSTHCHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCCccccccchhhhH
Confidence            6899999999999999999999775444311      1112222222222221 22  378999999999764433222 


Q ss_pred             ------HHHHHHHHHh---------ccCCceEEEEEeecC-CCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           90 ------GMEIVKCIGL---------AKDGIHAVLVGFSVR-SRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        90 ------~~~~~~~~~~---------~~~~~~~ii~v~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                            ..++...+..         .-.++|++||+++.+ ..+.+.+...|+.|.+.      .+++-|+.|+|.+..
T Consensus        85 ~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~~L~~~Di~~mk~Ls~~------vNvIPvIaKaD~lt~  157 (281)
T PF00735_consen   85 PIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGHGLKPLDIEFMKRLSKR------VNVIPVIAKADTLTP  157 (281)
T ss_dssp             HHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSSSS-HHHHHHHHHHTTT------SEEEEEESTGGGS-H
T ss_pred             HHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCccchHHHHHHHHHhccc------ccEEeEEecccccCH
Confidence                  2222222221         223569999999985 36778888887777665      789999999999976

Members of the family were first identified by genetic screening for Saccharomyces cerevisiae (Baker's yeast) mutants defective in cytokinesis []. Temperature-sensitive mutations in four genes, CDC3, CDC10, CDC11 and CDC12, were found to cause cell-cycle arrest and defects in bud growth and cytokinesis. The protein products of these genes localise at the division plane between mother and daughter cells, indicating a role in mother-daughter separation during cytokinesis []. Members of the family were therefore termed septins to reflect their role in septation and cell division. The identification of septin homologues in higher eukaryotes, which localise to the cleavage furrow in dividing cells, supports an orthologous function in cytokinesis. Septins have since been identified in most eukaryotes, except plants []. Septins are approximately 40-50 kDa in molecular mass, and typically comprise a conserved central core domain (more than 35% sequence identity between mammalian and yeast homologues) flanked by more divergent N- and C-termini. Most septins possess a P-loop motif in their N-terminal domain (which is characteristic of GTP-binding proteins), and a predicted C-terminal coiled-coil domain []. A number of septin interaction partners have been identified in yeast, many of which are components of the budding site selection machinery, kinase cascades or of the ubiquitination pathway. It has been proposed that septins may act as a scaffold that provides an interaction matrix for other proteins [, ]. In mammals, septins have been shown to regulate vesicle dynamics []. Mammalian septins have also been implicated in a variety of other cellular processes, including apoptosis, carcinogenesis and neurodegeneration []. This entry represents a variety of septins and homologous sequences involved in the cell division process.; GO: 0005525 GTP binding, 0007049 cell cycle; PDB: 2QAG_B 3FTQ_D 2QA5_A 2QNR_B 3TW4_A 3T5D_C.

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.59  E-value=2.6e-14  Score=99.01  Aligned_cols=114  Identities=20%  Similarity=0.147  Sum_probs=73.0

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      .+++++|++|+|||||++.+++.. |.....+......  ...... ++  ..+.+|||||....           ....
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~~~~~-~~~~~~~t~~~~~--~~~~~~-~~~~~~~~i~Dt~G~~~~-----------~~~~   65 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTNG-YPTEYVPTAFDNF--SVVVLV-DGKPVRLQLCDTAGQDEF-----------DKLR   65 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCC-CCCCCCCceeeee--eEEEEE-CCEEEEEEEEECCCChhh-----------cccc
Confidence            368999999999999999998755 3233222211111  112223 33  46789999997532           2222


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      ..++..+|++++|+|.+++-+...  ..++..+.....   ..|++++.||.|+..
T Consensus        66 ~~~~~~a~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~---~~piilv~nK~Dl~~  118 (173)
T cd04130          66 PLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHNP---KAPIILVGTQADLRT  118 (173)
T ss_pred             ccccCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCC---CCCEEEEeeChhhcc
Confidence            346788999999999985433332  245555554321   278999999999864

Wrch-1 (Wnt-1 responsive Cdc42 homolog) is a Rho family GTPase that shares significant sequence and functional similarity with Cdc42. Wrch-1 was first identified in mouse mammary epithelial cells, where its transcription is upregulated in Wnt-1 transformation. Wrch-1 contains N- and C-terminal extensions relative to cdc42, suggesting potential differences in cellular localization and function. The Wrch-1 N-terminal extension contains putative SH3 domain-binding motifs and has been shown to bind the SH3 domain-containing protein Grb2, which increases the level of active Wrch-1 in cells. Unlike Cdc42, which localizes to the cytosol and perinuclear membranes, Wrch-1 localizes extensively with the plasma membrane and endosomes. The membrane association, localization, and biological activity of Wrch-1 indicate an atypical model of regulation distinct from other Rho family GTPases. Most Rho proteins contain a lipid modification site at the C-terminus,

>PLN00023 GTP-binding protein; Provisional

Probab=99.59  E-value=4.9e-14  Score=105.19  Aligned_cols=129  Identities=18%  Similarity=0.128  Sum_probs=81.8

Q ss_pred             CCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEe------------eCCceEEEEeCCCCC
Q 043441           13 TSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL------------KDGQVVNVIDTPGLF   80 (173)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~------------~~~~~~~v~DtpG~~   80 (173)
                      ...+....+|+++|..|+|||||++.+++...........+.+.......+..            .....+.||||+|..
T Consensus        15 ~~~~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqE   94 (334)
T PLN00023         15 GGPPCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHE   94 (334)
T ss_pred             cCCCccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCCh
Confidence            44566778999999999999999999997653222111222222212111110            012458999999955


Q ss_pred             CCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcc----------cccceEEEEEeCCCC
Q 043441           81 DFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGK----------KVFDYMIVVFTGGDE  149 (173)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~----------~~~~~~~iv~tk~D~  149 (173)
                                 ++..+...+++.++++|+|+|++++-+.+. ..|++.+......          ....+++||.||+|+
T Consensus        95 -----------rfrsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL  163 (334)
T PLN00023         95 -----------RYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADI  163 (334)
T ss_pred             -----------hhhhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECccc
Confidence                       344444567889999999999985443332 4566666654210          012689999999998


Q ss_pred             CCC
Q 043441          150 LED  152 (173)
Q Consensus       150 ~~~  152 (173)
                      ...
T Consensus       164 ~~~  166 (334)
T PLN00023        164 APK  166 (334)
T ss_pred             ccc
Confidence            653

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.59  E-value=3.9e-14  Score=102.81  Aligned_cols=115  Identities=17%  Similarity=0.184  Sum_probs=78.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccc--c--------------CCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCC
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKS--R--------------ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~--~--------------~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~   84 (173)
                      +|+++|..|+|||||+++|+.......  +              -...+.+.........+ ++..+.++||||..+.  
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~-~~~~i~liDTPG~~~f--   77 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQW-EDTKVNLIDTPGHMDF--   77 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEE-CCEEEEEEeCCCccch--
Confidence            478999999999999999975321100  0              01122334444555566 7789999999998753  


Q ss_pred             CcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           85 GSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                           ..+    ...+++.+|++++|+++.+........+.+.+.+.     ..|+++++||+|+...
T Consensus        78 -----~~~----~~~~l~~aD~~IlVvd~~~g~~~~~~~~~~~~~~~-----~~P~iivvNK~D~~~a  131 (237)
T cd04168          78 -----IAE----VERSLSVLDGAILVISAVEGVQAQTRILWRLLRKL-----NIPTIIFVNKIDRAGA  131 (237)
T ss_pred             -----HHH----HHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHc-----CCCEEEEEECccccCC
Confidence                 112    22345567999999999877666555555555432     2689999999998865

Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=99.59  E-value=1.5e-14  Score=99.62  Aligned_cols=115  Identities=17%  Similarity=0.159  Sum_probs=70.6

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCCCccccCCCCccc-e--------------------------------------------
Q 043441           22 VVFVGRTGNGKSATGNSILGRRAFKSRASSSGVT-S--------------------------------------------   56 (173)
Q Consensus        22 i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t-~--------------------------------------------   56 (173)
                      |+++|..++|||||||+|+|......+..+.... +                                            
T Consensus         1 V~v~G~~ssGKSTliNaLlG~~ilp~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (168)
T PF00350_consen    1 VAVVGQFSSGKSTLINALLGRPILPSGVGPCTAVPTEISYGDEPEIEHEEAIIEFKDGSEEFEELNELREQIDEEFDSIE   80 (168)
T ss_dssp             EEEEEBTTSSHHHHHHHHHTSS-SSSSSSSTTSSEEEEEEEESSSCCTSEEEECEEEETEEBCCHHHHHHHHHHHHHHHH
T ss_pred             CEEEcCCCCCHHHHHHHHHhcccCcccccccccceeEEEecccCccccccccccccccccchhhHHHHHHhhhccccccc
Confidence            6899999999999999999987655443221000 0                                            


Q ss_pred             --------eeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHH
Q 043441           57 --------TCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSW  128 (173)
Q Consensus        57 --------~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l  128 (173)
                              ..............+.++||||+.+......       ..+..+.+.+|++|+|+++...++..+...+...
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~lvDtPG~~~~~~~~~-------~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~  153 (168)
T PF00350_consen   81 GKLEQISSKVIVISISSPLLRNLTLVDTPGLNSTNSEHT-------EITEEYLPKADVVIFVVDANQDLTESDMEFLKQM  153 (168)
T ss_dssp             TSSS-S-SSEEEEEEEETTSCSEEEEEEEEBHSSHTTTS-------HHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHH
T ss_pred             ccccccccceeEEeeccccccceEEEeCCccccchhhhH-------HHHHHhhccCCEEEEEeccCcccchHHHHHHHHH
Confidence                    0001111111234689999999987433322       3333455788999999999866666655544433


Q ss_pred             HHHHcccccceEEEEEeCC
Q 043441          129 QTLFGKKVFDYMIVVFTGG  147 (173)
Q Consensus       129 ~~~~~~~~~~~~~iv~tk~  147 (173)
                      .+..    ...+++|+||.
T Consensus       154 ~~~~----~~~~i~V~nk~  168 (168)
T PF00350_consen  154 LDPD----KSRTIFVLNKA  168 (168)
T ss_dssp             HTTT----CSSEEEEEE-G
T ss_pred             hcCC----CCeEEEEEcCC
Confidence            3321    24599999984

Dynamins are large GTPases that belong to a protein superfamily [] that, in eukaryotic cells, includes classical dynamins, dynamin-like proteins, OPA1, Mx proteins, mitofusins and guanylate-binding proteins/atlastins [, , , ], and are involved in the scission of a wide range of vesicles and organelles. They play a role in many processes including budding of transport vesicles, division of organelles, cytokinesis and pathogen resistance. The minimal distinguishing architectural features that are common to all dynamins and are distinct from other GTPases are the structure of the large GTPase domain (300 amino acids) and the presence of two additional domains; the middle domain and the GTPase effector domain (GED), which are involved in oligomerization and regulation of the GTPase activity. This entry represents the GTPase domain, containing the GTP-binding motifs that are needed for guanine-nucleotide binding and hydrolysis. The conservation of these motifs is absolute except for the the final motif in guanylate-binding proteins. The GTPase catalytic activity can be stimulated by oligomerisation of the protein, which is mediated by interactions between the GTPase domain, the middle domain and the GED.; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1JWY_B 1JX2_B 3ZVR_A 2AKA_B 3L43_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D ....

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=99.58  E-value=2.8e-14  Score=113.88  Aligned_cols=121  Identities=19%  Similarity=0.233  Sum_probs=92.8

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCC--CcHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA--GSEFVGMEIVKC   96 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~--~~~~~~~~~~~~   96 (173)
                      ..+++++|++++||||++|+|+|.++  .-...++.|.+.+...... ++..+.++|.||..+-..  ..++..+++.  
T Consensus         3 ~~~valvGNPNvGKTtlFN~LTG~~q--~VgNwpGvTVEkkeg~~~~-~~~~i~ivDLPG~YSL~~~S~DE~Var~~l--   77 (653)
T COG0370           3 KLTVALVGNPNVGKTTLFNALTGANQ--KVGNWPGVTVEKKEGKLKY-KGHEIEIVDLPGTYSLTAYSEDEKVARDFL--   77 (653)
T ss_pred             cceEEEecCCCccHHHHHHHHhccCc--eecCCCCeeEEEEEEEEEe-cCceEEEEeCCCcCCCCCCCchHHHHHHHH--
Confidence            35699999999999999999999886  3445778899998888888 888899999999996543  3343333333  


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCc
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNE  154 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~  154 (173)
                         ...++|+++-|+|++ ++..+...+++.+.--      .|+++++|.+|+.+..+
T Consensus        78 ---l~~~~D~ivnVvDAt-nLeRnLyltlQLlE~g------~p~ilaLNm~D~A~~~G  125 (653)
T COG0370          78 ---LEGKPDLIVNVVDAT-NLERNLYLTLQLLELG------IPMILALNMIDEAKKRG  125 (653)
T ss_pred             ---hcCCCCEEEEEcccc-hHHHHHHHHHHHHHcC------CCeEEEeccHhhHHhcC
Confidence               256789999999998 6666655554443332      78999999999987644

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.58  E-value=3.3e-14  Score=100.63  Aligned_cols=115  Identities=22%  Similarity=0.249  Sum_probs=72.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      +|+++|.+|+|||||++.+++... .....+......  ...... .+  ..+.+|||||....           .....
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~-~~~~~~t~~~~~--~~~~~~-~~~~~~l~i~D~~G~~~~-----------~~~~~   65 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTF-EPKYRRTVEEMH--RKEYEV-GGVSLTLDILDTSGSYSF-----------PAMRK   65 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCC-CccCCCchhhhe--eEEEEE-CCEEEEEEEEECCCchhh-----------hHHHH
Confidence            589999999999999999988663 222211111111  122222 33  47889999996642           11222


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      .++..+|++++|+|+++..+... ..++..+.+.... ...|+++|+||+|+..
T Consensus        66 ~~~~~ad~vilv~d~~~~~s~~~~~~~~~~i~~~~~~-~~~piilv~NK~Dl~~  118 (198)
T cd04147          66 LSIQNSDAFALVYAVDDPESFEEVERLREEILEVKED-KFVPIVVVGNKADSLE  118 (198)
T ss_pred             HHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCcEEEEEEcccccc
Confidence            35678899999999984333222 3444444444322 2379999999999875

Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.58  E-value=4.4e-14  Score=97.82  Aligned_cols=116  Identities=17%  Similarity=0.106  Sum_probs=71.0

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ++++++|++|+|||||++.+.+... .....+......  ....... ....+.+|||||....           .....
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~-~~~~~~t~~~~~--~~~~~~~~~~~~l~i~Dt~G~~~~-----------~~~~~   67 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQF-PEVYVPTVFENY--VADIEVDGKQVELALWDTAGQEDY-----------DRLRP   67 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCC-CCCCCCccccce--EEEEEECCEEEEEEEEeCCCchhh-----------hhccc
Confidence            6899999999999999999998653 222222111111  1122221 2236789999996532           11122


Q ss_pred             hccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..+..+|++++|+++.+.-+.+.  ..++..+....   ...|+++|.||+|+...
T Consensus        68 ~~~~~~d~~i~v~~~~~~~s~~~~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~  120 (175)
T cd01870          68 LSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC---PNVPIILVGNKKDLRND  120 (175)
T ss_pred             cccCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC---CCCCEEEEeeChhcccC
Confidence            35678899999999974422222  23444444332   23799999999997643

The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. RhoA and RhoC are observed only in geranyl

>cd04148 RGK RGK subfamily

Probab=99.58  E-value=5.9e-14  Score=101.00  Aligned_cols=119  Identities=18%  Similarity=0.039  Sum_probs=72.4

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCcc-ceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGV-TSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~-t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      .+|+++|.+|+|||||++.+++.........+... ........... ....+.+|||||...      ....       
T Consensus         1 ~KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~-~~~~l~i~Dt~G~~~------~~~~-------   66 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDG-EESTLVVIDHWEQEM------WTED-------   66 (221)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECC-EEEEEEEEeCCCcch------HHHh-------
Confidence            37999999999999999999765532122222211 22222222222 335789999999751      1111       


Q ss_pred             hccC-CceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           99 LAKD-GIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        99 ~~~~-~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .++. .+|++++|+++++.-+... ..+++.+.+... ....|+++|.||+|+....
T Consensus        67 ~~~~~~ad~iilV~d~td~~S~~~~~~~~~~l~~~~~-~~~~piilV~NK~Dl~~~~  122 (221)
T cd04148          67 SCMQYQGDAFVVVYSVTDRSSFERASELRIQLRRNRQ-LEDRPIILVGNKSDLARSR  122 (221)
T ss_pred             HHhhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEEChhccccc
Confidence            2333 7899999999985433221 344454544321 1237999999999987553

The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues. RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function. Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells. RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton. Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ra

>cd04169 RF3 RF3 subfamily

Probab=99.58  E-value=8.6e-14  Score=102.65  Aligned_cols=118  Identities=15%  Similarity=0.177  Sum_probs=77.4

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccC--------------------CCCccceeeEEEEEEeeCCceEEEEeCCC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRA--------------------SSSGVTSTCEMQRTVLKDGQVVNVIDTPG   78 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~--------------------~~~~~t~~~~~~~~~~~~~~~~~v~DtpG   78 (173)
                      .++|+++|..|+|||||+++|+.........                    ...+.+.........+ ++..+.+|||||
T Consensus         2 ~Rni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~~-~~~~i~liDTPG   80 (267)
T cd04169           2 RRTFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEY-RDCVINLLDTPG   80 (267)
T ss_pred             ccEEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEee-CCEEEEEEECCC
Confidence            4789999999999999999997532110100                    0112333444455666 788999999999


Q ss_pred             CCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           79 LFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ..+.       ..+..    ..++.+|++++|+++++........+++....     ...|+++++||+|+...+
T Consensus        81 ~~df-------~~~~~----~~l~~aD~~IlVvda~~g~~~~~~~i~~~~~~-----~~~P~iivvNK~D~~~a~  139 (267)
T cd04169          81 HEDF-------SEDTY----RTLTAVDSAVMVIDAAKGVEPQTRKLFEVCRL-----RGIPIITFINKLDREGRD  139 (267)
T ss_pred             chHH-------HHHHH----HHHHHCCEEEEEEECCCCccHHHHHHHHHHHh-----cCCCEEEEEECCccCCCC
Confidence            7642       11222    33456799999999986665554444433322     126899999999987653

Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.

>KOG0080 consensus GTPase Rab18, small G protein superfamily [General function prediction only]

Probab=99.58  E-value=3.9e-14  Score=94.12  Aligned_cols=130  Identities=15%  Similarity=0.122  Sum_probs=89.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCC-CccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASS-SGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      .....+|+++|.+|+|||+|+-.++... |+..... .+..-..+...+.. +.-.+.+|||+|..           +++
T Consensus         8 ~~~t~KiLlIGeSGVGKSSLllrFv~~~-fd~~~~~tIGvDFkvk~m~vdg-~~~KlaiWDTAGqE-----------rFR   74 (209)
T KOG0080|consen    8 YDTTFKILLIGESGVGKSSLLLRFVSNT-FDDLHPTTIGVDFKVKVMQVDG-KRLKLAIWDTAGQE-----------RFR   74 (209)
T ss_pred             cceeEEEEEEccCCccHHHHHHHHHhcc-cCccCCceeeeeEEEEEEEEcC-ceEEEEEEeccchH-----------hhh
Confidence            3455899999999999999999988766 4333322 34455555555544 45588999999944           677


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHH
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLED  159 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~  159 (173)
                      ....++|+++.++|+|.|.+.+-+-.. ..|++++..- ......-.++|.||.|+-.++..+.++
T Consensus        75 tLTpSyyRgaqGiIlVYDVT~Rdtf~kLd~W~~Eld~Y-stn~diikmlVgNKiDkes~R~V~reE  139 (209)
T KOG0080|consen   75 TLTPSYYRGAQGIILVYDVTSRDTFVKLDIWLKELDLY-STNPDIIKMLVGNKIDKESERVVDREE  139 (209)
T ss_pred             ccCHhHhccCceeEEEEEccchhhHHhHHHHHHHHHhh-cCCccHhHhhhcccccchhcccccHHH
Confidence            777789999999999999984333221 3555555443 222224567899999987554445554

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.57  E-value=2e-14  Score=96.36  Aligned_cols=101  Identities=18%  Similarity=0.222  Sum_probs=65.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      +|+++|.+|+|||||+|++++...   .   ...|.     ...+ ..   .+|||||...   .    ..+..+.+...
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~---~---~~~t~-----~~~~-~~---~~iDt~G~~~---~----~~~~~~~~~~~   59 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEI---L---YKKTQ-----AVEY-ND---GAIDTPGEYV---E----NRRLYSALIVT   59 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCcc---c---cccce-----eEEE-cC---eeecCchhhh---h----hHHHHHHHHHH
Confidence            799999999999999999998653   1   11122     1222 22   5899999742   1    11222222235


Q ss_pred             cCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441          101 KDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      ++++|++++|+|+++..+.....++    +.+.    .|+++|+||+|+..
T Consensus        60 ~~~ad~vilv~d~~~~~s~~~~~~~----~~~~----~p~ilv~NK~Dl~~  102 (142)
T TIGR02528        60 AADADVIALVQSATDPESRFPPGFA----SIFV----KPVIGLVTKIDLAE  102 (142)
T ss_pred             hhcCCEEEEEecCCCCCcCCChhHH----Hhcc----CCeEEEEEeeccCC
Confidence            7899999999999866554433322    2221    48999999999864

This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.57  E-value=1.3e-13  Score=111.32  Aligned_cols=119  Identities=18%  Similarity=0.212  Sum_probs=81.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      ..+.++|+++|..++|||||+++|.+.......  ..+.|.........+..+..+.+|||||...+.           .
T Consensus        84 ~~r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e--~~GIT~~ig~~~v~~~~~~~i~~iDTPGhe~F~-----------~  150 (587)
T TIGR00487        84 VERPPVVTIMGHVDHGKTSLLDSIRKTKVAQGE--AGGITQHIGAYHVENEDGKMITFLDTPGHEAFT-----------S  150 (587)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHhCCccccc--CCceeecceEEEEEECCCcEEEEEECCCCcchh-----------h
Confidence            357789999999999999999999886643222  233454444455555233489999999976531           1


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .....+..+|++++|+++.+.........++....     ...|+++++||+|+...
T Consensus       151 ~r~rga~~aDiaILVVda~dgv~~qT~e~i~~~~~-----~~vPiIVviNKiDl~~~  202 (587)
T TIGR00487       151 MRARGAKVTDIVVLVVAADDGVMPQTIEAISHAKA-----ANVPIIVAINKIDKPEA  202 (587)
T ss_pred             HHHhhhccCCEEEEEEECCCCCCHhHHHHHHHHHH-----cCCCEEEEEECcccccC
Confidence            22245667899999999986655554444433322     12789999999998754

This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU.

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=99.57  E-value=9.3e-14  Score=96.71  Aligned_cols=117  Identities=18%  Similarity=0.153  Sum_probs=70.4

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      .+|+++|.+|+|||||++.+++... .....+.......  ..... .+  ..+.++||||..+           +....
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~-~~~~~~t~~~~~~--~~~~~-~~~~~~~~l~D~~g~~~-----------~~~~~   66 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHF-VESYYPTIENTFS--KIIRY-KGQDYHLEIVDTAGQDE-----------YSILP   66 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCC-ccccCcchhhhEE--EEEEE-CCEEEEEEEEECCChHh-----------hHHHH
Confidence            5899999999999999999997653 2211111111111  22222 33  3568999999653           22222


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..++..+++++++++.++.-+.+. ..+.+.+.+.... ...|++++.||+|+...
T Consensus        67 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~-~~~p~ilv~NK~Dl~~~  121 (180)
T cd04137          67 QKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGK-ESVPIVLVGNKSDLHTQ  121 (180)
T ss_pred             HHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCCEEEEEEchhhhhc
Confidence            345667899999999984322221 2333333333221 23689999999998743

Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.57  E-value=2.5e-14  Score=97.81  Aligned_cols=122  Identities=20%  Similarity=0.196  Sum_probs=76.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCC-ccceeeEEEEEEe-eCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSS-GVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~-~~t~~~~~~~~~~-~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      +|+++|..|+|||||++.+.+... .....+. +..  ........ .....+.+||++|....           .....
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~-~~~~~~t~~~~--~~~~~~~~~~~~~~l~i~D~~g~~~~-----------~~~~~   66 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEF-PENYIPTIGID--SYSKEVSIDGKPVNLEIWDTSGQERF-----------DSLRD   66 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSST-TSSSETTSSEE--EEEEEEEETTEEEEEEEEEETTSGGG-----------HHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHhhcc-ccccccccccc--cccccccccccccccccccccccccc-----------ccccc
Confidence            589999999999999999987663 2222221 122  22222222 02236899999995431           11222


Q ss_pred             hccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHH
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLE  158 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~  158 (173)
                      ..+..++++++|++.+++-+-+ -..+++.+....+.  ..|++++.||.|+......+.+
T Consensus        67 ~~~~~~~~~ii~fd~~~~~S~~~~~~~~~~i~~~~~~--~~~iivvg~K~D~~~~~~v~~~  125 (162)
T PF00071_consen   67 IFYRNSDAIIIVFDVTDEESFENLKKWLEEIQKYKPE--DIPIIVVGNKSDLSDEREVSVE  125 (162)
T ss_dssp             HHHTTESEEEEEEETTBHHHHHTHHHHHHHHHHHSTT--TSEEEEEEETTTGGGGSSSCHH
T ss_pred             ccccccccccccccccccccccccccccccccccccc--cccceeeeccccccccccchhh
Confidence            4577889999999998432222 14555555555442  2799999999998864434433

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=99.56  E-value=9.1e-14  Score=102.80  Aligned_cols=115  Identities=21%  Similarity=0.201  Sum_probs=74.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCcc--ccCC--------------CCccceeeEEEEEEeeCCceEEEEeCCCCCCCCC
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFK--SRAS--------------SSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~--~~~~--------------~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~   84 (173)
                      +|+++|.+|+|||||+++|++.....  .+..              ....+.........+ ++..+.+|||||..+   
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~-~~~~i~liDtPG~~~---   76 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEW-KGHKINLIDTPGYAD---   76 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEE-CCEEEEEEECcCHHH---
Confidence            47999999999999999997532110  0100              012223333344555 677899999999753   


Q ss_pred             CcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           85 GSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                              +......++..+|++++|+++++.........++.+...     ..|.++++||+|+...
T Consensus        77 --------f~~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~~~~~~~-----~~p~iivvNK~D~~~~  131 (268)
T cd04170          77 --------FVGETRAALRAADAALVVVSAQSGVEVGTEKLWEFADEA-----GIPRIIFINKMDRERA  131 (268)
T ss_pred             --------HHHHHHHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHHc-----CCCEEEEEECCccCCC
Confidence                    122222344567999999999866555544554444332     2689999999998865

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group

>cd01889 SelB_euk SelB subfamily

Probab=99.56  E-value=7.1e-14  Score=98.46  Aligned_cols=116  Identities=16%  Similarity=0.259  Sum_probs=71.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCC---Ccccc--CCCCccceeeEEEEEEee-------------CCceEEEEeCCCCCCC
Q 043441           21 TVVFVGRTGNGKSATGNSILGRR---AFKSR--ASSSGVTSTCEMQRTVLK-------------DGQVVNVIDTPGLFDF   82 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~---~~~~~--~~~~~~t~~~~~~~~~~~-------------~~~~~~v~DtpG~~~~   82 (173)
                      +|+++|.+++|||||+++|++..   .+...  ....+.|.........+.             .+..+.+|||||... 
T Consensus         2 ~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~-   80 (192)
T cd01889           2 NVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHAS-   80 (192)
T ss_pred             eEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcHH-
Confidence            68999999999999999998731   11111  011123333333333331             256899999999641 


Q ss_pred             CCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           83 SAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                                +.+.+......+|++++|+|+.+.........+... ...    ..|+++++||+|+...
T Consensus        81 ----------~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~~~-~~~----~~~~iiv~NK~Dl~~~  135 (192)
T cd01889          81 ----------LIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLVIG-EIL----CKKLIVVLNKIDLIPE  135 (192)
T ss_pred             ----------HHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHHHH-HHc----CCCEEEEEECcccCCH
Confidence                      222222334567899999999865555443333322 221    2689999999999754

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and euk

>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=99.56  E-value=6e-14  Score=102.84  Aligned_cols=126  Identities=17%  Similarity=0.141  Sum_probs=87.6

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      ..+.+||-++||||||+|+|.....  .-......|.......+.+.+...+.|.|.||+.+..+..+-++.++.+-+..
T Consensus       197 advGLVG~PNAGKSTLL~als~AKp--kVa~YaFTTL~P~iG~v~yddf~q~tVADiPGiI~GAh~nkGlG~~FLrHiER  274 (366)
T KOG1489|consen  197 ADVGLVGFPNAGKSTLLNALSRAKP--KVAHYAFTTLRPHIGTVNYDDFSQITVADIPGIIEGAHMNKGLGYKFLRHIER  274 (366)
T ss_pred             cccceecCCCCcHHHHHHHhhccCC--cccccceeeeccccceeeccccceeEeccCccccccccccCcccHHHHHHHHh
Confidence            3488999999999999999998774  22233334444445555554555699999999999999999899888866554


Q ss_pred             ccCCceEEEEEeecCCCC--CHHH-H-HHHHHHHHHHcc-cccceEEEEEeCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRF--PQEE-E-AALHSWQTLFGK-KVFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~--~~~~-~-~~~~~l~~~~~~-~~~~~~~iv~tk~D~~~~  152 (173)
                          ++.++||+|.+...  ++.+ . .+..++. .+.. -...|.+||.||+|..+.
T Consensus       275 ----~~~l~fVvD~s~~~~~~p~~~~~lL~~ELe-~yek~L~~rp~liVaNKiD~~ea  327 (366)
T KOG1489|consen  275 ----CKGLLFVVDLSGKQLRNPWQQLQLLIEELE-LYEKGLADRPALIVANKIDLPEA  327 (366)
T ss_pred             ----hceEEEEEECCCcccCCHHHHHHHHHHHHH-HHhhhhccCceEEEEeccCchhH
Confidence                48999999998441  3332 1 2222222 2222 244789999999999754

>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=99.56  E-value=5.1e-14  Score=99.73  Aligned_cols=109  Identities=17%  Similarity=0.061  Sum_probs=71.5

Q ss_pred             EcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEE--EEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhcc
Q 043441           25 VGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ--RTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAK  101 (173)
Q Consensus        25 vG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~--~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~  101 (173)
                      +|..|+|||||+++++... |.....   .|......  .+... ....+.+|||||...           +......++
T Consensus         1 vG~~~vGKTsLi~r~~~~~-f~~~~~---~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~-----------~~~l~~~~~   65 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGE-FEKKYV---ATLGVEVHPLVFHTNRGPIRFNVWDTAGQEK-----------FGGLRDGYY   65 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCC-CCCCCC---CceeEEEEEEEEEECCEEEEEEEEECCCchh-----------hhhhhHHHh
Confidence            6999999999999998654 322221   23222221  12220 345889999999653           333444578


Q ss_pred             CCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441          102 DGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus       102 ~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      ++++++++|+|++++.+... ..|++.+.+...   ..|+++|.||+|+..
T Consensus        66 ~~ad~~ilV~D~t~~~S~~~i~~w~~~i~~~~~---~~piilvgNK~Dl~~  113 (200)
T smart00176       66 IQGQCAIIMFDVTARVTYKNVPNWHRDLVRVCE---NIPIVLCGNKVDVKD  113 (200)
T ss_pred             cCCCEEEEEEECCChHHHHHHHHHHHHHHHhCC---CCCEEEEEECccccc
Confidence            89999999999985544332 356666665422   379999999999753

Ran is involved in the active transport of proteins through nuclear pores.

>KOG0098 consensus GTPase Rab2, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.56  E-value=1.5e-13  Score=93.52  Aligned_cols=123  Identities=15%  Similarity=0.076  Sum_probs=89.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+++++|.+|+|||.|+...+.+.....-....+.....+..++.- +..++++|||.|..           .+++.
T Consensus         4 ~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~-k~IKlqiwDtaGqe-----------~frsv   71 (216)
T KOG0098|consen    4 AYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDG-KQIKLQIWDTAGQE-----------SFRSV   71 (216)
T ss_pred             cceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcC-ceEEEEEEecCCcH-----------HHHHH
Confidence            4557899999999999999999998774222222333333334444444 55689999999955           57777


Q ss_pred             HHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ...+|+++-+.|+|+|.+.+-+-+ ...|+..++.....+  -.++++.||+|+-..+
T Consensus        72 ~~syYr~a~GalLVydit~r~sF~hL~~wL~D~rq~~~~N--mvImLiGNKsDL~~rR  127 (216)
T KOG0098|consen   72 TRSYYRGAAGALLVYDITRRESFNHLTSWLEDARQHSNEN--MVIMLIGNKSDLEARR  127 (216)
T ss_pred             HHHHhccCcceEEEEEccchhhHHHHHHHHHHHHHhcCCC--cEEEEEcchhhhhccc
Confidence            788999999999999998554443 357877777774333  5688999999987544

>CHL00071 tufA elongation factor Tu

Probab=99.56  E-value=4.8e-14  Score=109.95  Aligned_cols=121  Identities=15%  Similarity=0.179  Sum_probs=82.1

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccc--------------cCCCCccceeeEEEEEEeeCCceEEEEeCCCCC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKS--------------RASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF   80 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~--------------~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~   80 (173)
                      +..+..+++++|.+++|||||+++|++......              .-...+.|.......... ++..+.++||||+.
T Consensus         8 ~~~~~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~-~~~~~~~iDtPGh~   86 (409)
T CHL00071          8 RKKPHVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYET-ENRHYAHVDCPGHA   86 (409)
T ss_pred             CCCCeEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEcc-CCeEEEEEECCChH
Confidence            356668999999999999999999987421100              001134455444444444 66788999999954


Q ss_pred             CCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccce-EEEEEeCCCCCCC
Q 043441           81 DFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDY-MIVVFTGGDELED  152 (173)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~~iv~tk~D~~~~  152 (173)
                                 ++...+......+|++++|+|+...+.......+..+... +    .| +++++||+|+...
T Consensus        87 -----------~~~~~~~~~~~~~D~~ilVvda~~g~~~qt~~~~~~~~~~-g----~~~iIvvvNK~D~~~~  143 (409)
T CHL00071         87 -----------DYVKNMITGAAQMDGAILVVSAADGPMPQTKEHILLAKQV-G----VPNIVVFLNKEDQVDD  143 (409)
T ss_pred             -----------HHHHHHHHHHHhCCEEEEEEECCCCCcHHHHHHHHHHHHc-C----CCEEEEEEEccCCCCH
Confidence                       2333333445678999999999877776666666655543 1    44 7789999999854

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.56  E-value=3.6e-14  Score=97.02  Aligned_cols=116  Identities=17%  Similarity=0.215  Sum_probs=69.4

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      ++|+++|.+|+|||||+|.|.|.....      ..+..     ..+ ...  .+|||||.....   ..+...+.    .
T Consensus         2 ~~i~~iG~~~~GKstl~~~l~~~~~~~------~~~~~-----v~~-~~~--~~iDtpG~~~~~---~~~~~~~~----~   60 (158)
T PRK15467          2 KRIAFVGAVGAGKTTLFNALQGNYTLA------RKTQA-----VEF-NDK--GDIDTPGEYFSH---PRWYHALI----T   60 (158)
T ss_pred             cEEEEECCCCCCHHHHHHHHcCCCccC------ccceE-----EEE-CCC--CcccCCccccCC---HHHHHHHH----H
Confidence            379999999999999999998854211      11111     122 222  269999986432   12223332    3


Q ss_pred             ccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHHHhcc
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGR  163 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~  163 (173)
                      .+..+|++++|+|+++..+... .   ++.+. ..  ..|+++++||+|+...+.....++++.
T Consensus        61 ~~~~ad~il~v~d~~~~~s~~~-~---~~~~~-~~--~~~ii~v~nK~Dl~~~~~~~~~~~~~~  117 (158)
T PRK15467         61 TLQDVDMLIYVHGANDPESRLP-A---GLLDI-GV--SKRQIAVISKTDMPDADVAATRKLLLE  117 (158)
T ss_pred             HHhcCCEEEEEEeCCCcccccC-H---HHHhc-cC--CCCeEEEEEccccCcccHHHHHHHHHH
Confidence            3568899999999984432221 1   22222 11  267999999999865533333444433

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.56  E-value=2.4e-13  Score=91.74  Aligned_cols=117  Identities=22%  Similarity=0.192  Sum_probs=69.3

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      .+|+++|.+|+|||||++.+++.. +..... ...+.......... .+  ..+.+|||||.....    ...       
T Consensus         2 ~ki~~~G~~~~GKstl~~~l~~~~-~~~~~~-~~~~~~~~~~~~~~-~~~~~~~~~~D~~G~~~~~----~~~-------   67 (161)
T TIGR00231         2 IKIVIVGDPNVGKSTLLNRLLGNK-FITEYK-PGTTRNYVTTVIEE-DGKTYKFNLLDTAGQEDYR----AIR-------   67 (161)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCC-CcCcCC-CCceeeeeEEEEEE-CCEEEEEEEEECCCcccch----HHH-------
Confidence            689999999999999999999877 333322 22333333332334 45  578899999955421    111       


Q ss_pred             HhccCCceEEEEEeecCCC-CCH--HHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSR-FPQ--EEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~-~~~--~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ......++.+++++|.... .+.  ....+...+......  ..|+++++||+|+...
T Consensus        68 ~~~~~~~~~~i~~~d~~~~v~~~~~~~~~~~~~~~~~~~~--~~p~ivv~nK~D~~~~  123 (161)
T TIGR00231        68 RLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAES--NVPIILVGNKIDLRDA  123 (161)
T ss_pred             HHHHhhhhEEEEEEEEeeeehhhhhHhHHHHHHHHHhccc--CCcEEEEEEcccCCcc
Confidence            1223344556666666422 111  112333444443322  3789999999999864

This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.55  E-value=1.6e-13  Score=101.57  Aligned_cols=124  Identities=19%  Similarity=0.161  Sum_probs=85.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhcc
Q 043441           22 VVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAK  101 (173)
Q Consensus        22 i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~  101 (173)
                      |.+||-++||||||++.+...+.  .....+-.|.....-.+....+..+++.|.||+.+..+.-.-++.++.+-+.++ 
T Consensus       162 VGLVG~PNaGKSTlls~vS~AkP--KIadYpFTTL~PnLGvV~~~~~~sfv~ADIPGLIEGAs~G~GLG~~FLrHIERt-  238 (369)
T COG0536         162 VGLVGLPNAGKSTLLSAVSAAKP--KIADYPFTTLVPNLGVVRVDGGESFVVADIPGLIEGASEGVGLGLRFLRHIERT-  238 (369)
T ss_pred             cccccCCCCcHHHHHHHHhhcCC--cccCCccccccCcccEEEecCCCcEEEecCcccccccccCCCccHHHHHHHHhh-
Confidence            78999999999999999998775  233333334333333333336778999999999999888888888888766655 


Q ss_pred             CCceEEEEEeecCCCCC----HHHH-HHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          102 DGIHAVLVGFSVRSRFP----QEEE-AALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       102 ~~~~~ii~v~~~~~~~~----~~~~-~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                         .+++.|+|++ ...    .++. ...+++...-..-..++.+||+||+|....
T Consensus       239 ---~vL~hviD~s-~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~  290 (369)
T COG0536         239 ---RVLLHVIDLS-PIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLD  290 (369)
T ss_pred             ---heeEEEEecC-cccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcC
Confidence               7899999997 333    2222 222333332122244799999999995543

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=99.54  E-value=2e-13  Score=96.98  Aligned_cols=117  Identities=14%  Similarity=0.156  Sum_probs=71.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCC-ccccCCCCccceeeEEEEEEee--------------------------------C
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRA-FKSRASSSGVTSTCEMQRTVLK--------------------------------D   67 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~-~~~~~~~~~~t~~~~~~~~~~~--------------------------------~   67 (173)
                      +++++|.+|+|||||+.+|.+... ...+....+.+.........+.                                .
T Consensus         2 ~i~~~g~~~~GKttL~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (203)
T cd01888           2 NIGTIGHVAHGKSTLVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETKL   81 (203)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCcccc
Confidence            689999999999999999987521 1111111222222222111110                                1


Q ss_pred             CceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCC-CCHHHHHHHHHHHHHHcccccceEEEEEeC
Q 043441           68 GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSR-FPQEEEAALHSWQTLFGKKVFDYMIVVFTG  146 (173)
Q Consensus        68 ~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk  146 (173)
                      ...+.+|||||..           .+...+......+|++++|+++.+. ........+..+... +   ..++++|+||
T Consensus        82 ~~~i~~iDtPG~~-----------~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~-~---~~~iiivvNK  146 (203)
T cd01888          82 VRHVSFVDCPGHE-----------ILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIM-G---LKHIIIVQNK  146 (203)
T ss_pred             ccEEEEEECCChH-----------HHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHc-C---CCcEEEEEEc
Confidence            2678999999942           3444444556678999999999843 233333444434221 1   1578999999


Q ss_pred             CCCCCC
Q 043441          147 GDELED  152 (173)
Q Consensus       147 ~D~~~~  152 (173)
                      +|+...
T Consensus       147 ~Dl~~~  152 (203)
T cd01888         147 IDLVKE  152 (203)
T ss_pred             hhccCH
Confidence            999753

eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the sel

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.54  E-value=2e-13  Score=112.91  Aligned_cols=118  Identities=15%  Similarity=0.159  Sum_probs=83.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      ..+.++|+++|..++|||||+++|.+......  ...+.|.......+.+ .+..+.+|||||+..+.           .
T Consensus       287 ~~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~--e~~GIT~~iga~~v~~-~~~~ItfiDTPGhe~F~-----------~  352 (787)
T PRK05306        287 VPRPPVVTIMGHVDHGKTSLLDAIRKTNVAAG--EAGGITQHIGAYQVET-NGGKITFLDTPGHEAFT-----------A  352 (787)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHhCCcccc--ccCceeeeccEEEEEE-CCEEEEEEECCCCccch-----------h
Confidence            56889999999999999999999987654322  2234455555555666 67889999999987531           1


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .....+..+|++++|+++.+.........+..+..     ...|+++++||+|+...
T Consensus       353 m~~rga~~aDiaILVVdAddGv~~qT~e~i~~a~~-----~~vPiIVviNKiDl~~a  404 (787)
T PRK05306        353 MRARGAQVTDIVVLVVAADDGVMPQTIEAINHAKA-----AGVPIIVAINKIDKPGA  404 (787)
T ss_pred             HHHhhhhhCCEEEEEEECCCCCCHhHHHHHHHHHh-----cCCcEEEEEECcccccc
Confidence            11234566799999999986665555555444332     22789999999999754

>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]

Probab=99.54  E-value=1.7e-13  Score=91.24  Aligned_cols=118  Identities=12%  Similarity=0.135  Sum_probs=90.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      .+...+|+++|..||||||+++.+.+...     ....+|...+.....+ ++-.+.+||.-|..           .+++
T Consensus        13 kerE~riLiLGLdNsGKTti~~kl~~~~~-----~~i~pt~gf~Iktl~~-~~~~L~iwDvGGq~-----------~lr~   75 (185)
T KOG0073|consen   13 KEREVRILILGLDNSGKTTIVKKLLGEDT-----DTISPTLGFQIKTLEY-KGYTLNIWDVGGQK-----------TLRS   75 (185)
T ss_pred             hhheeEEEEEecCCCCchhHHHHhcCCCc-----cccCCccceeeEEEEe-cceEEEEEEcCCcc-----------hhHH
Confidence            44578999999999999999999999763     3344566777777777 88899999998844           5778


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc--ccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK--VFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~  152 (173)
                      +++.++...|++|+|+|.+++....  +....+.+++...  ...+++++.||.|....
T Consensus        76 ~W~nYfestdglIwvvDssD~~r~~--e~~~~L~~lL~eerlaG~~~Lvlank~dl~~~  132 (185)
T KOG0073|consen   76 YWKNYFESTDGLIWVVDSSDRMRMQ--ECKQELTELLVEERLAGAPLLVLANKQDLPGA  132 (185)
T ss_pred             HHHHhhhccCeEEEEEECchHHHHH--HHHHHHHHHHhhhhhcCCceEEEEecCcCccc
Confidence            8889999999999999998654443  3334444444432  33589999999998843

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=99.54  E-value=2.9e-14  Score=109.93  Aligned_cols=136  Identities=20%  Similarity=0.196  Sum_probs=97.3

Q ss_pred             ccCCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHH
Q 043441           11 ELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVG   90 (173)
Q Consensus        11 ~~~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~   90 (173)
                      ..++..+...+++|+|.+++|||||+|.++...   ....+++.|+..-+......+...++++||||+.+.-.....+.
T Consensus       160 rlPsIDp~trTlllcG~PNVGKSSf~~~vtrad---vevqpYaFTTksL~vGH~dykYlrwQViDTPGILD~plEdrN~I  236 (620)
T KOG1490|consen  160 RLPAIDPNTRTLLVCGYPNVGKSSFNNKVTRAD---DEVQPYAFTTKLLLVGHLDYKYLRWQVIDTPGILDRPEEDRNII  236 (620)
T ss_pred             cCCCCCCCcCeEEEecCCCCCcHhhcccccccc---cccCCcccccchhhhhhhhhheeeeeecCCccccCcchhhhhHH
Confidence            346677889999999999999999999998866   35566677766655444432667999999999998533333222


Q ss_pred             HHHHHHHHhccCCceEEEEEeecCCCCCHH---HHHHHHHHHHHHcccccceEEEEEeCCCCCCCCc
Q 043441           91 MEIVKCIGLAKDGIHAVLVGFSVRSRFPQE---EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNE  154 (173)
Q Consensus        91 ~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~  154 (173)
                       ++..+.. ..+-.-+++|+.|.+..+.-.   +..+++.|+.+|.+   .++++|+||+|.+....
T Consensus       237 -EmqsITA-LAHLraaVLYfmDLSe~CGySva~QvkLfhsIKpLFaN---K~~IlvlNK~D~m~~ed  298 (620)
T KOG1490|consen  237 -EMQIITA-LAHLRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLFAN---KVTILVLNKIDAMRPED  298 (620)
T ss_pred             -HHHHHHH-HHHhhhhheeeeechhhhCCCHHHHHHHHHHhHHHhcC---CceEEEeecccccCccc
Confidence             3333222 222224688899998666543   46778888888876   78999999999997643

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.54  E-value=1.3e-13  Score=108.18  Aligned_cols=121  Identities=17%  Similarity=0.219  Sum_probs=81.2

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccc--------------c---------------CCCCccceeeEEEEEEee
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKS--------------R---------------ASSSGVTSTCEMQRTVLK   66 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~--------------~---------------~~~~~~t~~~~~~~~~~~   66 (173)
                      ..+..+++++|..++|||||++.|+.......              +               -...+.|.......... 
T Consensus         3 ~k~~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~-   81 (425)
T PRK12317          3 EKPHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFET-   81 (425)
T ss_pred             CCCEEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEec-
Confidence            45668899999999999999999984322110              0               01345666666666666 


Q ss_pred             CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCC--CCCHHHHHHHHHHHHHHcccccceEEEEE
Q 043441           67 DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRS--RFPQEEEAALHSWQTLFGKKVFDYMIVVF  144 (173)
Q Consensus        67 ~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~~iv~  144 (173)
                      ++..+.+|||||+.+.       ...+.    .....+|++++|+|+++  .+.......+..+.. ++   ..++++++
T Consensus        82 ~~~~i~liDtpG~~~~-------~~~~~----~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~-~~---~~~iivvi  146 (425)
T PRK12317         82 DKYYFTIVDCPGHRDF-------VKNMI----TGASQADAAVLVVAADDAGGVMPQTREHVFLART-LG---INQLIVAI  146 (425)
T ss_pred             CCeEEEEEECCCcccc-------hhhHh----hchhcCCEEEEEEEcccCCCCCcchHHHHHHHHH-cC---CCeEEEEE
Confidence            7789999999996532       11222    33567899999999986  444444444443332 22   14689999


Q ss_pred             eCCCCCCC
Q 043441          145 TGGDELED  152 (173)
Q Consensus       145 tk~D~~~~  152 (173)
                      ||+|+...
T Consensus       147 NK~Dl~~~  154 (425)
T PRK12317        147 NKMDAVNY  154 (425)
T ss_pred             Eccccccc
Confidence            99998753

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.53  E-value=2.5e-13  Score=97.28  Aligned_cols=119  Identities=17%  Similarity=0.044  Sum_probs=71.7

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEE--EEe-eCCceEEEEeCCCCCCCCCCcHHHHH
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQR--TVL-KDGQVVNVIDTPGLFDFSAGSEFVGM   91 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~--~~~-~~~~~~~v~DtpG~~~~~~~~~~~~~   91 (173)
                      ......+++++|++|+|||||++.++.... .....   .|.......  ... .....+.+|||+|....         
T Consensus         5 ~~~~~~kv~liG~~g~GKTtLi~~~~~~~~-~~~~~---~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~---------   71 (215)
T PTZ00132          5 DEVPEFKLILVGDGGVGKTTFVKRHLTGEF-EKKYI---PTLGVEVHPLKFYTNCGPICFNVWDTAGQEKF---------   71 (215)
T ss_pred             cCCCCceEEEECCCCCCHHHHHHHHHhCCC-CCCCC---CccceEEEEEEEEECCeEEEEEEEECCCchhh---------
Confidence            455668999999999999999975543332 12211   122222211  111 13357899999995431         


Q ss_pred             HHHHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           92 EIVKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        92 ~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                        ......++..++++++|++.++..+... ..++..+.... .  ..|++++.||+|+..
T Consensus        72 --~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~--~~~i~lv~nK~Dl~~  127 (215)
T PTZ00132         72 --GGLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVRVC-E--NIPIVLVGNKVDVKD  127 (215)
T ss_pred             --hhhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-C--CCCEEEEEECccCcc
Confidence              1122245667799999999985444332 34444444432 2  268899999999754

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.53  E-value=1.6e-13  Score=91.71  Aligned_cols=118  Identities=18%  Similarity=0.115  Sum_probs=69.3

Q ss_pred             EEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCC
Q 043441           24 FVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDG  103 (173)
Q Consensus        24 lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~  103 (173)
                      ++|++|+|||||+|++.+.........+.............. .+..+.++|+||.....           .......+.
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~l~D~~g~~~~~-----------~~~~~~~~~   68 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTIIDFYSKTIEVDG-KKVKLQIWDTAGQERFR-----------SLRRLYYRG   68 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccchhheeeEEEEECC-EEEEEEEEecCChHHHH-----------hHHHHHhcC
Confidence            589999999999999998765222222221111111111111 25678999999976421           111345667


Q ss_pred             ceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441          104 IHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus       104 ~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ++++++|+++.+.......................|+++++||+|+....
T Consensus        69 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~  118 (157)
T cd00882          69 ADGIILVYDVTDRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEER  118 (157)
T ss_pred             CCEEEEEEECcCHHHHHHHHHHHHHHHHhhccCCCcEEEEEecccccccc
Confidence            89999999998433333222210111111122348999999999988664

The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulate initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Memb

>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=99.53  E-value=3.7e-15  Score=102.91  Aligned_cols=122  Identities=12%  Similarity=0.179  Sum_probs=71.4

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ...++|+|++|||||+|+..|.......+-.+..   ... ........+..+.++|+||...-.   .    ++...+ 
T Consensus         3 ~~~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS~e---~n~-~~~~~~~~~~~~~lvD~PGH~rlr---~----~~~~~~-   70 (181)
T PF09439_consen    3 RPTVLLVGPSGSGKTALFSQLVNGKTVPTVTSME---NNI-AYNVNNSKGKKLRLVDIPGHPRLR---S----KLLDEL-   70 (181)
T ss_dssp             --EEEEE-STTSSHHHHHHHHHHSS---B---SS---EEE-ECCGSSTCGTCECEEEETT-HCCC---H----HHHHHH-
T ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCcCCeecccc---CCc-eEEeecCCCCEEEEEECCCcHHHH---H----HHHHhh-
Confidence            4789999999999999999998764322221110   000 011111145689999999987532   1    222221 


Q ss_pred             hccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc----ccceEEEEEeCCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK----VFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~~iv~tk~D~~~~~  153 (173)
                      .+...+.+||||+|.+ .+..+-....+.|.+++...    ...|++|+.||.|+....
T Consensus        71 ~~~~~~k~IIfvvDSs-~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A~  128 (181)
T PF09439_consen   71 KYLSNAKGIIFVVDSS-TDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTAK  128 (181)
T ss_dssp             HHHGGEEEEEEEEETT-THHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT--
T ss_pred             hchhhCCEEEEEEeCc-cchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCccccccC
Confidence            1344578999999997 55555566677777665442    346999999999998753

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.52  E-value=3.6e-13  Score=110.54  Aligned_cols=119  Identities=15%  Similarity=0.163  Sum_probs=80.1

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee---CCceEEEEeCCCCCCCCCCcHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK---DGQVVNVIDTPGLFDFSAGSEFVGME   92 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~---~~~~~~v~DtpG~~~~~~~~~~~~~~   92 (173)
                      ..+.++|+++|..++|||||+++|.+.......  ..+.|.....+...+.   .+..+.+|||||+..           
T Consensus       241 ~~r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e--~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~-----------  307 (742)
T CHL00189        241 INRPPIVTILGHVDHGKTTLLDKIRKTQIAQKE--AGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEA-----------  307 (742)
T ss_pred             cccCCEEEEECCCCCCHHHHHHHHHhccCcccc--CCccccccceEEEEEEecCCceEEEEEECCcHHH-----------
Confidence            457789999999999999999999876543221  1233333233333321   247899999999642           


Q ss_pred             HHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           93 IVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        93 ~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +.......+..+|++++|+++.+.........++.+..     ...|+++++||+|+...
T Consensus       308 F~~mr~rg~~~aDiaILVVDA~dGv~~QT~E~I~~~k~-----~~iPiIVViNKiDl~~~  362 (742)
T CHL00189        308 FSSMRSRGANVTDIAILIIAADDGVKPQTIEAINYIQA-----ANVPIIVAINKIDKANA  362 (742)
T ss_pred             HHHHHHHHHHHCCEEEEEEECcCCCChhhHHHHHHHHh-----cCceEEEEEECCCcccc
Confidence            33333345667899999999986665555555444432     22789999999998764

>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.52  E-value=2.4e-13  Score=89.70  Aligned_cols=137  Identities=16%  Similarity=0.114  Sum_probs=94.7

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      -.+++++|+.|.|||.|+..+.....-+......+.....+...+-. +...+++|||+|           .+++++...
T Consensus         9 LfKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGg-K~vKLQIWDTAG-----------QErFRSVtR   76 (214)
T KOG0086|consen    9 LFKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGG-KTVKLQIWDTAG-----------QERFRSVTR   76 (214)
T ss_pred             hheeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecC-cEEEEEEeeccc-----------HHHHHHHHH
Confidence            36899999999999999999887663222222233333333333333 456899999999           447888888


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHHHhcccCCCCc
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPL  169 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~~~~~~l  169 (173)
                      .+|+++-+.++|.|++++-+-+. ..|+..++.+.+..  .-++++.||.|+-..+..+..+.-.-+.+++|
T Consensus        77 sYYRGAAGAlLVYD~TsrdsfnaLtnWL~DaR~lAs~n--IvviL~GnKkDL~~~R~VtflEAs~FaqEnel  146 (214)
T KOG0086|consen   77 SYYRGAAGALLVYDITSRDSFNALTNWLTDARTLASPN--IVVILCGNKKDLDPEREVTFLEASRFAQENEL  146 (214)
T ss_pred             HHhccccceEEEEeccchhhHHHHHHHHHHHHhhCCCc--EEEEEeCChhhcChhhhhhHHHHHhhhcccce
Confidence            99999999999999985544442 46666666654433  56778889999887766666665555444444

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.52  E-value=5.9e-13  Score=95.44  Aligned_cols=120  Identities=16%  Similarity=0.087  Sum_probs=80.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .+++++|..|+|||||++++.+.... ....+...+...............+.+|||+|+.           ++......
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~-----------~~~~~~~~   73 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDEFP-EGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQE-----------EYRSLRPE   73 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCcCc-ccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHH-----------HHHHHHHH
Confidence            79999999999999999999987742 2222222222222211111013568999999955           45566667


Q ss_pred             ccCCceEEEEEeecCCCC--CHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRF--PQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ++.++++++++++....-  ......+.+.+....+.  ..+++++.||+|+....
T Consensus        74 y~~~~~~~l~~~d~~~~~~~~~~~~~~~~~l~~~~~~--~~~iilv~nK~Dl~~~~  127 (219)
T COG1100          74 YYRGANGILIVYDSTLRESSDELTEEWLEELRELAPD--DVPILLVGNKIDLFDEQ  127 (219)
T ss_pred             HhcCCCEEEEEEecccchhhhHHHHHHHHHHHHhCCC--CceEEEEecccccccch
Confidence            889999999999997412  22234555555555332  37999999999999774

>KOG0079 consensus GTP-binding protein H-ray, small G protein superfamily [General function prediction only]

Probab=99.52  E-value=2.1e-13  Score=89.45  Aligned_cols=118  Identities=18%  Similarity=0.121  Sum_probs=82.6

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      ...+++|.+|+|||+|+-.+.......+.....+.....+-..+.. ....+++|||+|           .+.++.+...
T Consensus         9 fkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G-~~VkLqIwDtAG-----------qErFrtitst   76 (198)
T KOG0079|consen    9 FKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDING-DRVKLQIWDTAG-----------QERFRTITST   76 (198)
T ss_pred             HHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCC-cEEEEEEeeccc-----------HHHHHHHHHH
Confidence            3568999999999999988876543112122222333333333332 445789999999           4467777788


Q ss_pred             ccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +++++|++++|.|.++.-+-. -+.|++.++.....   .|-++|.||.|..+-
T Consensus        77 yyrgthgv~vVYDVTn~ESF~Nv~rWLeei~~ncds---v~~vLVGNK~d~~~R  127 (198)
T KOG0079|consen   77 YYRGTHGVIVVYDVTNGESFNNVKRWLEEIRNNCDS---VPKVLVGNKNDDPER  127 (198)
T ss_pred             HccCCceEEEEEECcchhhhHhHHHHHHHHHhcCcc---ccceecccCCCCccc
Confidence            999999999999998544433 36777777776543   789999999998864

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=99.51  E-value=2.6e-13  Score=101.47  Aligned_cols=130  Identities=23%  Similarity=0.302  Sum_probs=86.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc----CCC--CccceeeEEEEEEee-CC--ceEEEEeCCCCCCCCCCcH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR----ASS--SGVTSTCEMQRTVLK-DG--QVVNVIDTPGLFDFSAGSE   87 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~----~~~--~~~t~~~~~~~~~~~-~~--~~~~v~DtpG~~~~~~~~~   87 (173)
                      .-..+++++|++|.|||||+|.|++.......    ...  ...+........... ++  .++.|+|||||++.-.+..
T Consensus        21 Gi~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD~idNs~  100 (373)
T COG5019          21 GIDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGDFIDNSK  100 (373)
T ss_pred             CCceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCccccccccc
Confidence            45678999999999999999999987432221    111  123333443333332 22  3789999999998755432


Q ss_pred             HH-------HHHHHHHHH----------hccCCceEEEEEeecC-CCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCC
Q 043441           88 FV-------GMEIVKCIG----------LAKDGIHAVLVGFSVR-SRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDE  149 (173)
Q Consensus        88 ~~-------~~~~~~~~~----------~~~~~~~~ii~v~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~  149 (173)
                      -|       ..++..++.          ..-.++|++||.+..+ ..++.-+..+|+.+.+.      .+++-|+.|+|.
T Consensus       101 ~we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptgh~l~~~DIe~Mk~ls~~------vNlIPVI~KaD~  174 (373)
T COG5019         101 CWEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTGHGLKPLDIEAMKRLSKR------VNLIPVIAKADT  174 (373)
T ss_pred             cHHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCCCCCCCHHHHHHHHHHhcc------cCeeeeeecccc
Confidence            22       222333321          1233579999998763 47777788887777775      789999999999


Q ss_pred             CCC
Q 043441          150 LED  152 (173)
Q Consensus       150 ~~~  152 (173)
                      +..
T Consensus       175 lT~  177 (373)
T COG5019         175 LTD  177 (373)
T ss_pred             CCH
Confidence            976

>cd04129 Rho2 Rho2 subfamily

Probab=99.51  E-value=3.3e-13  Score=94.66  Aligned_cols=113  Identities=19%  Similarity=0.151  Sum_probs=70.0

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEE-EEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM-QRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      .+++++|++|+|||||++.+...... ....+   +....+ ..... .+  ..+.++||||.......           
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l~~~~~~-~~~~~---t~~~~~~~~~~~-~~~~~~l~i~Dt~g~~~~~~~-----------   65 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLGEFP-EEYHP---TVFENYVTDCRV-DGKPVQLALWDTAGQEEYERL-----------   65 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCC-cccCC---cccceEEEEEEE-CCEEEEEEEEECCCChhcccc-----------
Confidence            58999999999999999999854422 22111   211111 12222 22  35789999997543111           


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      ....+..+++++++++.++.-+...  ..+++.+....+   ..|+++|.||+|+..
T Consensus        66 ~~~~~~~a~~~llv~~i~~~~s~~~~~~~~~~~i~~~~~---~~piilvgnK~Dl~~  119 (187)
T cd04129          66 RPLSYSKAHVILIGFAVDTPDSLENVRTKWIEEVRRYCP---NVPVILVGLKKDLRQ  119 (187)
T ss_pred             chhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC---CCCEEEEeeChhhhh
Confidence            0124567899999999974332222  245666655432   289999999999754

Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors).

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=99.51  E-value=6.2e-14  Score=106.57  Aligned_cols=120  Identities=22%  Similarity=0.183  Sum_probs=69.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccc-eeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVT-STCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t-~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      +....|+|+|.+|+|||||||+|.|...-+.+..+.+.+ +......+..++..++++||.||........+..    .+
T Consensus        33 ~~~l~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tGv~etT~~~~~Y~~p~~pnv~lWDlPG~gt~~f~~~~Y----l~  108 (376)
T PF05049_consen   33 NAPLNIAVTGESGSGKSSFINALRGLGHEDEGAAPTGVVETTMEPTPYPHPKFPNVTLWDLPGIGTPNFPPEEY----LK  108 (376)
T ss_dssp             H--EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SSSHSCCTS-EEEE-SS-TTEEEEEE--GGGSS--HHHH----HH
T ss_pred             cCceEEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCeeCCCCCCCCCeEEeCCCCCCCCCCHHHH----HH
Confidence            456899999999999999999998865544444444332 1112223333366789999999998654333332    22


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDE  149 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~  149 (173)
                      ..  .+...|.+|+ +... +++.++....+.++..     ..++++|-||+|.
T Consensus       109 ~~--~~~~yD~fii-i~s~-rf~~ndv~La~~i~~~-----gK~fyfVRTKvD~  153 (376)
T PF05049_consen  109 EV--KFYRYDFFII-ISSE-RFTENDVQLAKEIQRM-----GKKFYFVRTKVDS  153 (376)
T ss_dssp             HT--TGGG-SEEEE-EESS-S--HHHHHHHHHHHHT-----T-EEEEEE--HHH
T ss_pred             Hc--cccccCEEEE-EeCC-CCchhhHHHHHHHHHc-----CCcEEEEEecccc
Confidence            22  2334576554 5555 8999998888888775     2779999999996

IIGP is predominantly associated with the Golgi apparatus and also localizes to the endoplasmic reticulum and exerts a distinct role in IFN-induced intracellular membrane trafficking or processing [].; GO: 0005525 GTP binding, 0016817 hydrolase activity, acting on acid anhydrides, 0016020 membrane; PDB: 1TPZ_A 1TQD_A 1TQ6_A 1TQ2_B 1TQ4_A.

>PRK12735 elongation factor Tu; Reviewed

Probab=99.50  E-value=3.9e-13  Score=104.44  Aligned_cols=120  Identities=14%  Similarity=0.143  Sum_probs=79.0

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCC------Ccc--------ccCCCCccceeeEEEEEEeeCCceEEEEeCCCCC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRR------AFK--------SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF   80 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~------~~~--------~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~   80 (173)
                      ...+..+++++|..++|||||+++|++..      .+.        ..-...+.|.......... ++..+.++||||+.
T Consensus         8 ~~~~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~~~~~-~~~~i~~iDtPGh~   86 (396)
T PRK12735          8 RTKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEYET-ANRHYAHVDCPGHA   86 (396)
T ss_pred             CCCCeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeeeEEcC-CCcEEEEEECCCHH
Confidence            34566899999999999999999998621      100        0011234555554444444 56789999999963


Q ss_pred             CCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccce-EEEEEeCCCCCC
Q 043441           81 DFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDY-MIVVFTGGDELE  151 (173)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~~iv~tk~D~~~  151 (173)
                                 ++...+......+|++++|+++.+.........+..+... +    .| +++++||+|+..
T Consensus        87 -----------~f~~~~~~~~~~aD~~llVvda~~g~~~qt~e~l~~~~~~-g----i~~iivvvNK~Dl~~  142 (396)
T PRK12735         87 -----------DYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQV-G----VPYIVVFLNKCDMVD  142 (396)
T ss_pred             -----------HHHHHHHhhhccCCEEEEEEECCCCCchhHHHHHHHHHHc-C----CCeEEEEEEecCCcc
Confidence                       3333444556678999999999865655555555444332 1    45 456899999974

>PRK09866 hypothetical protein; Provisional

Probab=99.50  E-value=8.9e-13  Score=105.44  Aligned_cols=74  Identities=15%  Similarity=0.135  Sum_probs=54.4

Q ss_pred             ceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCC
Q 043441           69 QVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGD  148 (173)
Q Consensus        69 ~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D  148 (173)
                      ..++++||||+..+..  ..+.+.+.+    ...++|+|+||+|+...++..+...++.+++. +.  ..|+++|+||+|
T Consensus       230 ~QIIFVDTPGIhk~~~--~~L~k~M~e----qL~eADvVLFVVDat~~~s~~DeeIlk~Lkk~-~K--~~PVILVVNKID  300 (741)
T PRK09866        230 GQLTLLDTPGPNEAGQ--PHLQKMLNQ----QLARASAVLAVLDYTQLKSISDEEVREAILAV-GQ--SVPLYVLVNKFD  300 (741)
T ss_pred             CCEEEEECCCCCCccc--hHHHHHHHH----HHhhCCEEEEEEeCCCCCChhHHHHHHHHHhc-CC--CCCEEEEEEccc
Confidence            4689999999986432  223434443    46678999999999866788888887777664 21  148999999999


Q ss_pred             CCC
Q 043441          149 ELE  151 (173)
Q Consensus       149 ~~~  151 (173)
                      ..+
T Consensus       301 l~d  303 (741)
T PRK09866        301 QQD  303 (741)
T ss_pred             CCC
Confidence            975

>KOG1547 consensus Septin CDC10 and related P-loop GTPases [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms; Cytoskeleton]

Probab=99.50  E-value=1.8e-13  Score=96.94  Aligned_cols=127  Identities=22%  Similarity=0.222  Sum_probs=84.7

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCcccc-----CCCCccceeeEEEEEEee-CC--ceEEEEeCCCCCCCCCCcHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSR-----ASSSGVTSTCEMQRTVLK-DG--QVVNVIDTPGLFDFSAGSEFVG   90 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~-----~~~~~~t~~~~~~~~~~~-~~--~~~~v~DtpG~~~~~~~~~~~~   90 (173)
                      ..+|++||.+|.||||++|.|.......+.     ..+...|+.......... ++  .++.++|||||.+.-.+ +..+
T Consensus        46 ~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGfGDqInN-~ncW  124 (336)
T KOG1547|consen   46 DFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGFGDQINN-DNCW  124 (336)
T ss_pred             ceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCcccccCc-cchh
Confidence            367999999999999999999875544432     123344555444333321 22  37899999999986332 2222


Q ss_pred             HHHHHHHHh------------------ccCCceEEEEEeecC-CCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           91 MEIVKCIGL------------------AKDGIHAVLVGFSVR-SRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        91 ~~~~~~~~~------------------~~~~~~~ii~v~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      +.+.+++..                  .--++|+++|.++.+ ..+...+..+++.+.+.      .+++-|+-|+|.+.
T Consensus       125 ePI~kyIneQye~yL~eElni~R~kripDTRVHcclyFi~ptGhsLrplDieflkrLt~v------vNvvPVIakaDtlT  198 (336)
T KOG1547|consen  125 EPIEKYINEQYEQYLREELNIAREKRIPDTRVHCCLYFIPPTGHSLRPLDIEFLKRLTEV------VNVVPVIAKADTLT  198 (336)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHhhhcCCCceEEEEEEEeCCCCCccCcccHHHHHHHhhh------heeeeeEeeccccc
Confidence            222222211                  122468888888774 46777888998888887      77999999999996


Q ss_pred             C
Q 043441          152 D  152 (173)
Q Consensus       152 ~  152 (173)
                      -
T Consensus       199 l  199 (336)
T KOG1547|consen  199 L  199 (336)
T ss_pred             H
Confidence            4

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.49  E-value=3.9e-13  Score=91.88  Aligned_cols=108  Identities=20%  Similarity=0.157  Sum_probs=70.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      +|+++|.+|+|||||++.++... |.....+.....   ...+.. ++  ..+.+|||+|....                
T Consensus         2 ki~vvG~~gvGKTsli~~~~~~~-f~~~~~~~~~~~---~~~i~~-~~~~~~l~i~D~~g~~~~----------------   60 (158)
T cd04103           2 KLGIVGNLQSGKSALVHRYLTGS-YVQLESPEGGRF---KKEVLV-DGQSHLLLIRDEGGAPDA----------------   60 (158)
T ss_pred             EEEEECCCCCcHHHHHHHHHhCC-CCCCCCCCccce---EEEEEE-CCEEEEEEEEECCCCCch----------------
Confidence            68999999999999999877654 222222211111   122333 44  45889999997530                


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDEL  150 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~  150 (173)
                      .+++.+|++++|+|.+++-+-.. ..+++.+..... ....|+++|.||.|+.
T Consensus        61 ~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~i~~~~~-~~~~piilvgnK~Dl~  112 (158)
T cd04103          61 QFASWVDAVIFVFSLENEASFQTVYNLYHQLSSYRN-ISEIPLILVGTQDAIS  112 (158)
T ss_pred             hHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEeeHHHhh
Confidence            23456899999999986555444 456565654421 1236899999999975

The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues.

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.49  E-value=4.7e-13  Score=96.07  Aligned_cols=115  Identities=20%  Similarity=0.273  Sum_probs=74.4

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccC--------------CCCccceeeEEEEEEee---------CCceEEEEeC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRA--------------SSSGVTSTCEMQRTVLK---------DGQVVNVIDT   76 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~--------------~~~~~t~~~~~~~~~~~---------~~~~~~v~Dt   76 (173)
                      ++|+++|..++|||||+.+|+.........              ...+.|.........+.         .+..+.+|||
T Consensus         1 RNvaiiGhvd~GKTTL~d~Ll~~~g~i~~~~~g~~~~~D~~~~E~~RgiTi~~~~~~~~~~~~~~~~~~~~~~~i~iiDT   80 (222)
T cd01885           1 RNICIIAHVDHGKTTLSDSLLASAGIISEKLAGKARYMDSREDEQERGITMKSSAISLYFEYEEEDKADGNEYLINLIDS   80 (222)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcCCCccccCCceeeccCCHHHHHhccccccceEEEEEecCcccccCCCceEEEEECC
Confidence            478999999999999999997543211100              01123333322222331         1457889999


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCC
Q 043441           77 PGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDEL  150 (173)
Q Consensus        77 pG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~  150 (173)
                      ||..+.           .......++.+|++++|+|+.+.........++.....   .  .|+++++||+|+.
T Consensus        81 PG~~~f-----------~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~l~~~~~~---~--~p~ilviNKiD~~  138 (222)
T cd01885          81 PGHVDF-----------SSEVTAALRLCDGALVVVDAVEGVCVQTETVLRQALKE---R--VKPVLVINKIDRL  138 (222)
T ss_pred             CCcccc-----------HHHHHHHHHhcCeeEEEEECCCCCCHHHHHHHHHHHHc---C--CCEEEEEECCCcc
Confidence            998753           22233456678999999999877766665555444332   2  6899999999986

Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes. The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome. The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins. Two major mechanisms are known to regulate protein elongation and both involve eEF2. First, eEF2 can be modulated by reversible phosphorylation. Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes. Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2. In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation. Seco

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.49  E-value=9e-13  Score=108.91  Aligned_cols=120  Identities=19%  Similarity=0.228  Sum_probs=84.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc---C-------------CCCccceeeEEEEEEeeCCceEEEEeCCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR---A-------------SSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   79 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~---~-------------~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~   79 (173)
                      ....++|+++|..++|||||+++|+........   .             ...+.|.........+ ++..+.++||||+
T Consensus         7 ~~~irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~-~~~~i~liDTPG~   85 (689)
T TIGR00484         7 LNRFRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFW-KGHRINIIDTPGH   85 (689)
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEE-CCeEEEEEECCCC
Confidence            456789999999999999999999742211100   0             0134556666666777 7889999999999


Q ss_pred             CCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           80 FDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .+..       .+    +...++.+|++++|+|+.+.........++.+...     ..|+++++||+|+...
T Consensus        86 ~~~~-------~~----~~~~l~~~D~~ilVvda~~g~~~~~~~~~~~~~~~-----~~p~ivviNK~D~~~~  142 (689)
T TIGR00484        86 VDFT-------VE----VERSLRVLDGAVAVLDAVGGVQPQSETVWRQANRY-----EVPRIAFVNKMDKTGA  142 (689)
T ss_pred             cchh-------HH----HHHHHHHhCEEEEEEeCCCCCChhHHHHHHHHHHc-----CCCEEEEEECCCCCCC
Confidence            7631       12    22445567999999999877766666665554432     2689999999999865

After peptide bond formation, this elongation factor of bacteria and organelles catalyzes the translocation of the tRNA-mRNA complex, with its attached nascent polypeptide chain, from the A-site to the P-site of the ribosome. Every completed bacterial genome has at least one copy, but some species have additional EF-G-like proteins. The closest homolog to canonical (e.g. E. coli) EF-G in the spirochetes clusters as if it is derived from mitochondrial forms, while a more distant second copy is also present. Synechocystis PCC6803 has a few proteins more closely related to EF-G than to any other characterized protein. Two of these resemble E. coli EF-G more closely than does the best match from the spirochetes; it may be that both function as authentic EF-G.

>KOG0093 consensus GTPase Rab3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.48  E-value=5.5e-13  Score=87.43  Aligned_cols=127  Identities=11%  Similarity=0.033  Sum_probs=84.4

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ..+++++|.+.+|||+|+-..++......-.+..+..-..+-..... +...+++|||.|..           ..+.+..
T Consensus        21 mfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~-kRiklQiwDTagqE-----------ryrtiTT   88 (193)
T KOG0093|consen   21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSD-KRIKLQIWDTAGQE-----------RYRTITT   88 (193)
T ss_pred             eeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeeecc-cEEEEEEEecccch-----------hhhHHHH
Confidence            45899999999999999999988764333333333333332211122 55689999999955           3555666


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHH
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLED  159 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~  159 (173)
                      .++++++++|+++|.++.-+-.. ..+.-.|+.. . ....++++|.||||+-+++..+.|.
T Consensus        89 ayyRgamgfiLmyDitNeeSf~svqdw~tqIkty-s-w~naqvilvgnKCDmd~eRvis~e~  148 (193)
T KOG0093|consen   89 AYYRGAMGFILMYDITNEESFNSVQDWITQIKTY-S-WDNAQVILVGNKCDMDSERVISHER  148 (193)
T ss_pred             HHhhccceEEEEEecCCHHHHHHHHHHHHHheee-e-ccCceEEEEecccCCccceeeeHHH
Confidence            78999999999999984433222 3444444333 1 2236999999999998776544443

>PRK12739 elongation factor G; Reviewed

Probab=99.48  E-value=8.1e-13  Score=109.16  Aligned_cols=120  Identities=19%  Similarity=0.220  Sum_probs=85.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc---C-------------CCCccceeeEEEEEEeeCCceEEEEeCCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR---A-------------SSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   79 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~---~-------------~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~   79 (173)
                      ....++|+++|..++|||||+++|+........   .             ...+.|.........+ ++..+.++||||+
T Consensus         5 ~~~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~-~~~~i~liDTPG~   83 (691)
T PRK12739          5 LEKTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFW-KGHRINIIDTPGH   83 (691)
T ss_pred             ccCeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEE-CCEEEEEEcCCCH
Confidence            456789999999999999999999742110000   0             1235566666666677 7889999999997


Q ss_pred             CCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           80 FDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .+           +...+...++.+|++++|+|+.+.....+...++.+...     ..|+++++||+|+...
T Consensus        84 ~~-----------f~~e~~~al~~~D~~ilVvDa~~g~~~qt~~i~~~~~~~-----~~p~iv~iNK~D~~~~  140 (691)
T PRK12739         84 VD-----------FTIEVERSLRVLDGAVAVFDAVSGVEPQSETVWRQADKY-----GVPRIVFVNKMDRIGA  140 (691)
T ss_pred             HH-----------HHHHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHc-----CCCEEEEEECCCCCCC
Confidence            53           112233455566999999999877777766666655442     2678999999999865

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=99.48  E-value=8.5e-13  Score=106.50  Aligned_cols=116  Identities=16%  Similarity=0.169  Sum_probs=75.1

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-----------------CCceEEEEeCCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-----------------DGQVVNVIDTPGLF   80 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-----------------~~~~~~v~DtpG~~   80 (173)
                      +.+.|+++|.+++|||||+|+|.+.......  +.+.|...........                 +...+.+|||||+.
T Consensus         3 r~piV~IiG~~d~GKTSLln~l~~~~v~~~e--~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e   80 (590)
T TIGR00491         3 RSPIVSVLGHVDHGKTTLLDKIRGSAVAKRE--AGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHE   80 (590)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcccccccc--CCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcH
Confidence            4578999999999999999999987642221  1112211111111000                 11248899999965


Q ss_pred             CCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           81 DFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      .           +.......++.+|++++|+++++.........++.++..     ..|+++++||+|+..
T Consensus        81 ~-----------f~~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~~l~~~-----~vpiIVv~NK~Dl~~  135 (590)
T TIGR00491        81 A-----------FTNLRKRGGALADLAILIVDINEGFKPQTQEALNILRMY-----KTPFVVAANKIDRIP  135 (590)
T ss_pred             h-----------HHHHHHHHHhhCCEEEEEEECCcCCCHhHHHHHHHHHHc-----CCCEEEEEECCCccc
Confidence            3           222223456788999999999876666665655555432     268999999999874

This model describes archaeal and eukaryotic orthologs of bacterial IF-2. Like IF-2, it helps convey the initiator tRNA to the ribosome, although the initiator is N-formyl-Met in bacteria and Met here. This protein is not closely related to the subunits of eIF-2 of eukaryotes, which is also involved in the initiation of translation. The aIF-2 of Methanococcus jannaschii contains a large intein interrupting a region of very strongly conserved sequence very near the amino end; this model does not correctly align the sequences from Methanococcus jannaschii and Pyrococcus horikoshii in this region.

>PRK12736 elongation factor Tu; Reviewed

Probab=99.47  E-value=8.6e-13  Score=102.50  Aligned_cols=121  Identities=15%  Similarity=0.190  Sum_probs=80.2

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccc--------------cCCCCccceeeEEEEEEeeCCceEEEEeCCCCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKS--------------RASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   81 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~--------------~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~   81 (173)
                      ..+..+++++|..++|||||+++|++...-..              .-...+.|.......... ++..+.++||||+. 
T Consensus         9 ~k~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~~~-~~~~i~~iDtPGh~-   86 (394)
T PRK12736          9 SKPHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYET-EKRHYAHVDCPGHA-   86 (394)
T ss_pred             CCCeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEecC-CCcEEEEEECCCHH-
Confidence            45668999999999999999999987321000              001234555554444444 56788999999954 


Q ss_pred             CCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           82 FSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                                ++..........+|++++|+++...+.......+..+... +   ..++++++||+|+.+.
T Consensus        87 ----------~f~~~~~~~~~~~d~~llVvd~~~g~~~~t~~~~~~~~~~-g---~~~~IvviNK~D~~~~  143 (394)
T PRK12736         87 ----------DYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQV-G---VPYLVVFLNKVDLVDD  143 (394)
T ss_pred             ----------HHHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHHc-C---CCEEEEEEEecCCcch
Confidence                      2222223344577999999999866666666666655443 1   1347789999998743

>cd04167 Snu114p Snu114p subfamily

Probab=99.47  E-value=5.7e-13  Score=95.39  Aligned_cols=115  Identities=19%  Similarity=0.243  Sum_probs=71.3

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCcccc-----------------CCCCccceeeEEEEEEee----CCceEEEEeCCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSR-----------------ASSSGVTSTCEMQRTVLK----DGQVVNVIDTPG   78 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~-----------------~~~~~~t~~~~~~~~~~~----~~~~~~v~DtpG   78 (173)
                      ++++++|..|+|||||+++|+........                 ....+.+.........+.    ....+.+|||||
T Consensus         1 rnv~iiG~~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG   80 (213)
T cd04167           1 RNVAIAGHLHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDSKGKSYLFNIIDTPG   80 (213)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEEEcCCCCEEEEEEEECCC
Confidence            36899999999999999999864322110                 000112222222222221    235789999999


Q ss_pred             CCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCC
Q 043441           79 LFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDEL  150 (173)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~  150 (173)
                      ..+.           .......+..+|++++|+|+.+.........++....   ..  .|+++|+||+|+.
T Consensus        81 ~~~f-----------~~~~~~~~~~aD~~llVvD~~~~~~~~~~~~~~~~~~---~~--~p~iiviNK~D~~  136 (213)
T cd04167          81 HVNF-----------MDEVAAALRLSDGVVLVVDVVEGVTSNTERLIRHAIL---EG--LPIVLVINKIDRL  136 (213)
T ss_pred             Ccch-----------HHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHH---cC--CCEEEEEECcccC
Confidence            8753           1222344557799999999986665544444333322   22  7899999999986

Snu114p is one of several proteins that make up the U5 small nuclear ribonucleoprotein (snRNP) particle. U5 is a component of the spliceosome, which catalyzes the splicing of pre-mRNA to remove introns. Snu114p is homologous to EF-2, but typically contains an additional N-terminal domain not found in Ef-2. This protein is part of the GTP translation factor family and the Ras superfamily, characterized by five G-box motifs.

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=99.47  E-value=8.7e-13  Score=94.86  Aligned_cols=125  Identities=15%  Similarity=0.098  Sum_probs=75.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      +|+++|+.||||||+.+.+.++..+ ......+.|......++.......+.+||.||......+.-  ..+.    ...
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p-~dT~~L~~T~~ve~~~v~~~~~~~l~iwD~pGq~~~~~~~~--~~~~----~~i   73 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSP-RDTLRLEPTIDVEKSHVRFLSFLPLNIWDCPGQDDFMENYF--NSQR----EEI   73 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---G-GGGGG-----SEEEEEEECTTSCEEEEEEE-SSCSTTHTTH--TCCH----HHH
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCc-hhccccCCcCCceEEEEecCCCcEEEEEEcCCccccccccc--cccH----HHH
Confidence            6899999999999999999987632 33345567777776666553667999999999986533210  0001    124


Q ss_pred             cCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          101 KDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +++++++|||+|+.+.--.++ ..+.+.+..+.......++.+++-|+|.+.+
T Consensus        74 f~~v~~LIyV~D~qs~~~~~~l~~~~~~i~~l~~~sp~~~v~vfiHK~D~l~~  126 (232)
T PF04670_consen   74 FSNVGVLIYVFDAQSDDYDEDLAYLSDCIEALRQYSPNIKVFVFIHKMDLLSE  126 (232)
T ss_dssp             HCTESEEEEEEETT-STCHHHHHHHHHHHHHHHHHSTT-EEEEEEE-CCCS-H
T ss_pred             HhccCEEEEEEEcccccHHHHHHHHHHHHHHHHHhCCCCeEEEEEeecccCCH
Confidence            667899999999973322333 3333333333332334789999999999865

RCC1 catalyzes guanine nucleotide exchange on Ran, a well characterised nuclear Ras-like small G protein that plays an essential role in the import and export of proteins and RNAs across the nuclear membrane through the nuclear pore complex. RCC1 is located inside the nucleus, bound to chromatin. The concentration of GTP within the cell is ~30 times higher than the concentration of GDP, thus resulting in the preferential production of the GTP form of Ran by RCC1 within the nucleus. Gtr1p is located within both the cytoplasm and the nucleus and has been reported to play a role in cell growth. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1 and Rag A and Gtr1p belong to the sixth subfamily of the Ras-like small GTPase superfamily []. ; GO: 0005525 GTP binding, 0005634 nucleus, 0005737 cytoplasm; PDB: 3R7W_B 2Q3F_B 3LLU_A.

>PRK10218 GTP-binding protein; Provisional

Probab=99.47  E-value=2.2e-12  Score=104.43  Aligned_cols=119  Identities=18%  Similarity=0.216  Sum_probs=83.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCC-Ccccc-------------CCCCccceeeEEEEEEeeCCceEEEEeCCCCCCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRR-AFKSR-------------ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   82 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~-~~~~~-------------~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~   82 (173)
                      ...++|+++|..++|||||+++|+... .+...             -...+.|.........+ ++..+.+|||||..++
T Consensus         3 ~~iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~-~~~~inliDTPG~~df   81 (607)
T PRK10218          3 EKLRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKW-NDYRINIVDTPGHADF   81 (607)
T ss_pred             CCceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEec-CCEEEEEEECCCcchh
Confidence            456899999999999999999998632 11111             01234555555566666 7789999999998753


Q ss_pred             CCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           83 SAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .           ..+..+++.+|++++|+|+.+.........+..+.+.     ..|.++++||+|+...
T Consensus        82 ~-----------~~v~~~l~~aDg~ILVVDa~~G~~~qt~~~l~~a~~~-----gip~IVviNKiD~~~a  135 (607)
T PRK10218         82 G-----------GEVERVMSMVDSVLLVVDAFDGPMPQTRFVTKKAFAY-----GLKPIVVINKVDRPGA  135 (607)
T ss_pred             H-----------HHHHHHHHhCCEEEEEEecccCccHHHHHHHHHHHHc-----CCCEEEEEECcCCCCC
Confidence            1           2223455678999999999866666555555544432     2678999999998755

>PRK00007 elongation factor G; Reviewed

Probab=99.47  E-value=1.3e-12  Score=107.92  Aligned_cols=120  Identities=18%  Similarity=0.203  Sum_probs=85.2

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC---CCCccccC-------------CCCccceeeEEEEEEeeCCceEEEEeCCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG---RRAFKSRA-------------SSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   79 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~---~~~~~~~~-------------~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~   79 (173)
                      ..+.++|+++|..++|||||+++|+.   ........             ...+.|.........+ .+..+.++||||+
T Consensus         7 ~~~Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~-~~~~~~liDTPG~   85 (693)
T PRK00007          7 LERYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFW-KDHRINIIDTPGH   85 (693)
T ss_pred             ccceeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEE-CCeEEEEEeCCCc
Confidence            45678999999999999999999973   21110000             1234566665666666 7889999999997


Q ss_pred             CCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           80 FDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .++       ..+..    ...+.+|++++|+|+...+...+...++.+.+.     ..|.++++||+|+...
T Consensus        86 ~~f-------~~ev~----~al~~~D~~vlVvda~~g~~~qt~~~~~~~~~~-----~~p~iv~vNK~D~~~~  142 (693)
T PRK00007         86 VDF-------TIEVE----RSLRVLDGAVAVFDAVGGVEPQSETVWRQADKY-----KVPRIAFVNKMDRTGA  142 (693)
T ss_pred             HHH-------HHHHH----HHHHHcCEEEEEEECCCCcchhhHHHHHHHHHc-----CCCEEEEEECCCCCCC
Confidence            641       12333    344456999999999878777777776666553     2678999999999865

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.47  E-value=2.5e-12  Score=104.12  Aligned_cols=115  Identities=20%  Similarity=0.260  Sum_probs=79.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCC--ccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRA--FKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~--~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      +|+++|..++|||||+++|++...  +... ...+.|.........+ .+..+.+|||||..           .+...+.
T Consensus         2 ~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE-~~rGiTid~~~~~~~~-~~~~v~~iDtPGhe-----------~f~~~~~   68 (581)
T TIGR00475         2 IIATAGHVDHGKTTLLKALTGIAADRLPEE-KKRGMTIDLGFAYFPL-PDYRLGFIDVPGHE-----------KFISNAI   68 (581)
T ss_pred             EEEEECCCCCCHHHHHHHHhCccCcCChhH-hcCCceEEeEEEEEEe-CCEEEEEEECCCHH-----------HHHHHHH
Confidence            689999999999999999997431  1111 1234566665555666 56889999999953           3333444


Q ss_pred             hccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..+..+|++++|+++++.........+..+.. .+   ..++++|+||+|+.+.
T Consensus        69 ~g~~~aD~aILVVDa~~G~~~qT~ehl~il~~-lg---i~~iIVVlNK~Dlv~~  118 (581)
T TIGR00475        69 AGGGGIDAALLVVDADEGVMTQTGEHLAVLDL-LG---IPHTIVVITKADRVNE  118 (581)
T ss_pred             hhhccCCEEEEEEECCCCCcHHHHHHHHHHHH-cC---CCeEEEEEECCCCCCH
Confidence            56678899999999986655555444444332 22   1349999999999864

In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes.

>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.47  E-value=1.4e-12  Score=98.16  Aligned_cols=130  Identities=21%  Similarity=0.209  Sum_probs=85.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccc-----cCCCCccceeeEEEEEEeeC-C--ceEEEEeCCCCCCCCCCcHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKS-----RASSSGVTSTCEMQRTVLKD-G--QVVNVIDTPGLFDFSAGSEF   88 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~-----~~~~~~~t~~~~~~~~~~~~-~--~~~~v~DtpG~~~~~~~~~~   88 (173)
                      .-..+++++|++|.|||||||+|++......     .......|............ +  .++.|+||||+++.-.+..-
T Consensus        19 G~~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD~vdns~~   98 (366)
T KOG2655|consen   19 GFDFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGDAVDNSNC   98 (366)
T ss_pred             CCceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCccccccccc
Confidence            3457899999999999999999988754221     11111123333333333312 2  37899999999987554322


Q ss_pred             -------HHHHHHHHHHh---------ccCCceEEEEEeecC-CCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           89 -------VGMEIVKCIGL---------AKDGIHAVLVGFSVR-SRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        89 -------~~~~~~~~~~~---------~~~~~~~ii~v~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                             +..++.+++..         .-.++|++||.+..+ ..+.+-+...++.+...      .+++-|+.|+|.+.
T Consensus        99 w~pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~ghgL~p~Di~~Mk~l~~~------vNiIPVI~KaD~lT  172 (366)
T KOG2655|consen   99 WRPIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPTGHGLKPLDIEFMKKLSKK------VNLIPVIAKADTLT  172 (366)
T ss_pred             chhhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCCCCCCcHhhHHHHHHHhcc------ccccceeeccccCC
Confidence                   23344444321         122689999999874 35788888887777765      78999999999997


Q ss_pred             C
Q 043441          152 D  152 (173)
Q Consensus       152 ~  152 (173)
                      .
T Consensus       173 ~  173 (366)
T KOG2655|consen  173 K  173 (366)
T ss_pred             H
Confidence            6

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=99.47  E-value=8e-13  Score=101.91  Aligned_cols=130  Identities=18%  Similarity=0.151  Sum_probs=87.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCc-cceeeEEEEEEeeCCceEEEEeCCCCCC-CCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSG-VTSTCEMQRTVLKDGQVVNVIDTPGLFD-FSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~-~t~~~~~~~~~~~~~~~~~v~DtpG~~~-~~~~~~~~~~~~~   94 (173)
                      ..+..++++|++++|||||+|+|.....  ...++.+ .|.+.-...++. ++..+.+.||+|+.+ .....+..+   .
T Consensus       266 q~gl~iaIvGrPNvGKSSLlNaL~~~dr--sIVSpv~GTTRDaiea~v~~-~G~~v~L~DTAGiRe~~~~~iE~~g---I  339 (531)
T KOG1191|consen  266 QSGLQIAIVGRPNVGKSSLLNALSREDR--SIVSPVPGTTRDAIEAQVTV-NGVPVRLSDTAGIREESNDGIEALG---I  339 (531)
T ss_pred             hcCCeEEEEcCCCCCHHHHHHHHhcCCc--eEeCCCCCcchhhheeEeec-CCeEEEEEeccccccccCChhHHHh---H
Confidence            4568999999999999999999999876  3344444 444444555555 999999999999998 222223222   2


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc-------cccceEEEEEeCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK-------KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~~~iv~tk~D~~~~  152 (173)
                      ..++.....+|++++|+|+....+.++....+.+...-..       ....+++++.||.|...+
T Consensus       340 ~rA~k~~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~  404 (531)
T KOG1191|consen  340 ERARKRIERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSK  404 (531)
T ss_pred             HHHHHHHhhcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCc
Confidence            2233455678999999999644444444444444432111       122689999999998865

>PRK00049 elongation factor Tu; Reviewed

Probab=99.46  E-value=1.3e-12  Score=101.54  Aligned_cols=119  Identities=16%  Similarity=0.149  Sum_probs=81.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcc--------------ccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFK--------------SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   81 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~--------------~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~   81 (173)
                      ..+..+++++|..++|||||+++|++...-.              ..-...+.|.......... ++..+.++||||+. 
T Consensus         9 ~~~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~-~~~~i~~iDtPG~~-   86 (396)
T PRK00049          9 TKPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEYET-EKRHYAHVDCPGHA-   86 (396)
T ss_pred             CCCEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeeeEEEEcC-CCeEEEEEECCCHH-
Confidence            3566899999999999999999998732100              0001234555554444444 56789999999964 


Q ss_pred             CCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEE-EEEeCCCCCC
Q 043441           82 FSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMI-VVFTGGDELE  151 (173)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~-iv~tk~D~~~  151 (173)
                                ++...+......+|++++|+|+...........+..+... +    .|.+ +++||+|+..
T Consensus        87 ----------~f~~~~~~~~~~aD~~llVVDa~~g~~~qt~~~~~~~~~~-g----~p~iiVvvNK~D~~~  142 (396)
T PRK00049         87 ----------DYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQV-G----VPYIVVFLNKCDMVD  142 (396)
T ss_pred             ----------HHHHHHHhhhccCCEEEEEEECCCCCchHHHHHHHHHHHc-C----CCEEEEEEeecCCcc
Confidence                      3444444556788999999999866666666666655543 2    4554 6899999974

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.46  E-value=2.1e-12  Score=104.58  Aligned_cols=116  Identities=20%  Similarity=0.263  Sum_probs=81.9

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCC-Ccccc-------------CCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRR-AFKSR-------------ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAG   85 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~-~~~~~-------------~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~   85 (173)
                      ++|+++|..++|||||+++|+... .+...             -...+.|.........+ ++..+.+|||||+.++   
T Consensus         2 RNIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~-~~~kinlIDTPGh~DF---   77 (594)
T TIGR01394         2 RNIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRY-NGTKINIVDTPGHADF---   77 (594)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEE-CCEEEEEEECCCHHHH---
Confidence            579999999999999999998532 11111             01235666666677777 7889999999997642   


Q ss_pred             cHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           86 SEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                              ...+...++.+|++++|+|+.+........+++.+.+.   .  .|.++++||+|+...
T Consensus        78 --------~~ev~~~l~~aD~alLVVDa~~G~~~qT~~~l~~a~~~---~--ip~IVviNKiD~~~a  131 (594)
T TIGR01394        78 --------GGEVERVLGMVDGVLLLVDASEGPMPQTRFVLKKALEL---G--LKPIVVINKIDRPSA  131 (594)
T ss_pred             --------HHHHHHHHHhCCEEEEEEeCCCCCcHHHHHHHHHHHHC---C--CCEEEEEECCCCCCc
Confidence                    22223445677999999999866655555665555442   2  678999999998654

This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.45  E-value=1.5e-12  Score=93.54  Aligned_cols=115  Identities=17%  Similarity=0.195  Sum_probs=72.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCcc-----------------------------ccCCCCccceeeEEEEEEeeCCceE
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFK-----------------------------SRASSSGVTSTCEMQRTVLKDGQVV   71 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~-----------------------------~~~~~~~~t~~~~~~~~~~~~~~~~   71 (173)
                      +|+++|..++|||||+.+|+......                             ..-...+.|.........+ .+..+
T Consensus         1 nv~i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~-~~~~i   79 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFET-EKYRF   79 (219)
T ss_pred             CEEEecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEee-CCeEE
Confidence            47999999999999999986321100                             0011234556666666666 78899


Q ss_pred             EEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCC-------CCHHHHHHHHHHHHHHcccccceEEEEE
Q 043441           72 NVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSR-------FPQEEEAALHSWQTLFGKKVFDYMIVVF  144 (173)
Q Consensus        72 ~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~~iv~  144 (173)
                      .++||||+.+           +...+......+|++++|+|+.+.       ........+... ..++   ..|+++++
T Consensus        80 ~liDtpG~~~-----------~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~-~~~~---~~~iiivv  144 (219)
T cd01883          80 TILDAPGHRD-----------FVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLA-RTLG---VKQLIVAV  144 (219)
T ss_pred             EEEECCChHH-----------HHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHH-HHcC---CCeEEEEE
Confidence            9999999643           122222345678999999999852       112222222222 2222   25789999


Q ss_pred             eCCCCCC
Q 043441          145 TGGDELE  151 (173)
Q Consensus       145 tk~D~~~  151 (173)
                      ||+|+..
T Consensus       145 NK~Dl~~  151 (219)
T cd01883         145 NKMDDVT  151 (219)
T ss_pred             Ecccccc
Confidence            9999983

EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.45  E-value=1.3e-12  Score=101.64  Aligned_cols=121  Identities=16%  Similarity=0.217  Sum_probs=78.9

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCC------CCcc--------ccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGR------RAFK--------SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   81 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~------~~~~--------~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~   81 (173)
                      ..+..+++++|..++|||||+++|++.      ..+.        ..-...+.|.......... ++..+.++||||+.+
T Consensus         9 ~~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~~~~~~~-~~~~~~liDtpGh~~   87 (394)
T TIGR00485         9 TKPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHVEYET-ENRHYAHVDCPGHAD   87 (394)
T ss_pred             CCceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeEEEEEcC-CCEEEEEEECCchHH
Confidence            456789999999999999999999843      1000        0001234555554444444 567899999999753


Q ss_pred             CCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           82 FSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                                 +..........+|++++|+++.+.........+..+... +   ..++++++||+|+...
T Consensus        88 -----------f~~~~~~~~~~~D~~ilVvda~~g~~~qt~e~l~~~~~~-g---i~~iIvvvNK~Dl~~~  143 (394)
T TIGR00485        88 -----------YVKNMITGAAQMDGAILVVSATDGPMPQTREHILLARQV-G---VPYIVVFLNKCDMVDD  143 (394)
T ss_pred             -----------HHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHc-C---CCEEEEEEEecccCCH
Confidence                       222222334567999999999866666665555555443 1   1345578999998753

This alignment models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.45  E-value=2.1e-12  Score=104.54  Aligned_cols=118  Identities=17%  Similarity=0.166  Sum_probs=75.0

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-----------------CCceEEEEeCC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-----------------DGQVVNVIDTP   77 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-----------------~~~~~~v~Dtp   77 (173)
                      +..+.+.|+++|.+++|||||+++|.+........  .+.|...........                 .-..+.+||||
T Consensus         2 ~~~R~p~V~i~Gh~~~GKTSLl~~l~~~~v~~~~~--g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTP   79 (586)
T PRK04004          2 KKLRQPIVVVLGHVDHGKTTLLDKIRGTAVAAKEA--GGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTP   79 (586)
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHhCcccccCCC--CceEEeeceeeccccccccccceeccccccccccCCEEEEECC
Confidence            34567899999999999999999998765322221  111111110000000                 00127899999


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCC
Q 043441           78 GLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDEL  150 (173)
Q Consensus        78 G~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~  150 (173)
                      |...+           .......+..+|++++|+|+++.+.......++.+...     ..|+++++||+|+.
T Consensus        80 G~e~f-----------~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~~~~~-----~vpiIvviNK~D~~  136 (586)
T PRK04004         80 GHEAF-----------TNLRKRGGALADIAILVVDINEGFQPQTIEAINILKRR-----KTPFVVAANKIDRI  136 (586)
T ss_pred             ChHHH-----------HHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHHHHHc-----CCCEEEEEECcCCc
Confidence            97642           22222345678999999999876666666665554432     27899999999986

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.45  E-value=1.5e-12  Score=103.17  Aligned_cols=124  Identities=14%  Similarity=0.138  Sum_probs=79.9

Q ss_pred             CCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccc--------------cC-----------------CCCccceeeEEE
Q 043441           13 TSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKS--------------RA-----------------SSSGVTSTCEMQ   61 (173)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~--------------~~-----------------~~~~~t~~~~~~   61 (173)
                      .+......+++++|..++|||||++.|+.......              +.                 ...+.|......
T Consensus        21 ~~~~~~~~~i~iiGhvdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~~~~  100 (474)
T PRK05124         21 AQQHKSLLRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYR  100 (474)
T ss_pred             hccccCceEEEEECCCCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEeeEE
Confidence            34456779999999999999999999875432111              10                 012345555555


Q ss_pred             EEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEE
Q 043441           62 RTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMI  141 (173)
Q Consensus        62 ~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  141 (173)
                      .... ++..+.++||||+.+       ...++.    .....+|++++|+|+...+.......+..+ ..++.   .+++
T Consensus       101 ~~~~-~~~~i~~iDTPGh~~-------f~~~~~----~~l~~aD~allVVDa~~G~~~qt~~~~~l~-~~lg~---~~iI  164 (474)
T PRK05124        101 YFST-EKRKFIIADTPGHEQ-------YTRNMA----TGASTCDLAILLIDARKGVLDQTRRHSFIA-TLLGI---KHLV  164 (474)
T ss_pred             Eecc-CCcEEEEEECCCcHH-------HHHHHH----HHHhhCCEEEEEEECCCCccccchHHHHHH-HHhCC---CceE
Confidence            5555 667899999999542       122222    334678999999999766554333332222 22232   5789


Q ss_pred             EEEeCCCCCCC
Q 043441          142 VVFTGGDELED  152 (173)
Q Consensus       142 iv~tk~D~~~~  152 (173)
                      +++||+|+...
T Consensus       165 vvvNKiD~~~~  175 (474)
T PRK05124        165 VAVNKMDLVDY  175 (474)
T ss_pred             EEEEeeccccc
Confidence            99999999854

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=99.45  E-value=3.3e-13  Score=89.53  Aligned_cols=101  Identities=19%  Similarity=0.219  Sum_probs=67.3

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      ++++++|++|||||||+++|.+...      ....|...     .+ .+   .+|||||=+-   +    ...+.+.+..
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~~------~~~KTq~i-----~~-~~---~~IDTPGEyi---E----~~~~y~aLi~   59 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEEI------RYKKTQAI-----EY-YD---NTIDTPGEYI---E----NPRFYHALIV   59 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCCC------CcCcccee-----Ee-cc---cEEECChhhe---e----CHHHHHHHHH
Confidence            5899999999999999999998552      11122222     22 22   2699999552   1    2234455555


Q ss_pred             ccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDEL  150 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~  150 (173)
                      ...+++.++++.|+++....-....    ...|    ..|++-|+||.|+.
T Consensus        60 ta~dad~V~ll~dat~~~~~~pP~f----a~~f----~~pvIGVITK~Dl~  102 (143)
T PF10662_consen   60 TAQDADVVLLLQDATEPRSVFPPGF----ASMF----NKPVIGVITKIDLP  102 (143)
T ss_pred             HHhhCCEEEEEecCCCCCccCCchh----hccc----CCCEEEEEECccCc
Confidence            5668899999999985443333222    2222    27899999999999

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>PLN03127 Elongation factor Tu; Provisional

Probab=99.45  E-value=2.2e-12  Score=101.46  Aligned_cols=121  Identities=13%  Similarity=0.132  Sum_probs=81.6

Q ss_pred             CCCCCccEEEEEcCCCCCHHHHHHHHhCCCC------c------c--ccCCCCccceeeEEEEEEeeCCceEEEEeCCCC
Q 043441           14 SPSNGVRTVVFVGRTGNGKSATGNSILGRRA------F------K--SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   79 (173)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKStlin~l~~~~~------~------~--~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~   79 (173)
                      +...+..+|+++|..++|||||+++|++...      .      +  ..-...+.|.+........ ++..+.++||||+
T Consensus        56 ~~~k~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~-~~~~i~~iDtPGh  134 (447)
T PLN03127         56 TRTKPHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEYET-AKRHYAHVDCPGH  134 (447)
T ss_pred             hcCCceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEEEEcC-CCeEEEEEECCCc
Confidence            3456778899999999999999999974210      0      0  0011245566655555555 6678999999998


Q ss_pred             CCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccce-EEEEEeCCCCCC
Q 043441           80 FDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDY-MIVVFTGGDELE  151 (173)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~~iv~tk~D~~~  151 (173)
                      .+       ....+.    .....+|++++|+|+.+.....+...+..+... +    .| +++++||+|+..
T Consensus       135 ~~-------f~~~~~----~g~~~aD~allVVda~~g~~~qt~e~l~~~~~~-g----ip~iIvviNKiDlv~  191 (447)
T PLN03127        135 AD-------YVKNMI----TGAAQMDGGILVVSAPDGPMPQTKEHILLARQV-G----VPSLVVFLNKVDVVD  191 (447)
T ss_pred             cc-------hHHHHH----HHHhhCCEEEEEEECCCCCchhHHHHHHHHHHc-C----CCeEEEEEEeeccCC
Confidence            63       122233    233458999999999867666666666655543 1    45 678999999985

>TIGR00503 prfC peptide chain release factor 3

Probab=99.44  E-value=3.2e-12  Score=102.27  Aligned_cols=119  Identities=15%  Similarity=0.143  Sum_probs=79.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcc--ccC------------------CCCccceeeEEEEEEeeCCceEEEEeC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFK--SRA------------------SSSGVTSTCEMQRTVLKDGQVVNVIDT   76 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~--~~~------------------~~~~~t~~~~~~~~~~~~~~~~~v~Dt   76 (173)
                      ...++++++|..++|||||+++|+......  .+.                  ...+.+.........+ ++..+.++||
T Consensus         9 ~~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~-~~~~inliDT   87 (527)
T TIGR00503         9 DKRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPY-RDCLVNLLDT   87 (527)
T ss_pred             ccCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEee-CCeEEEEEEC
Confidence            567899999999999999999985321110  000                  0113344445555666 7789999999


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           77 PGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        77 pG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ||..+.           ......++..+|++++|+|+.+.+......+++....     ...|+++++||+|+...
T Consensus        88 PG~~df-----------~~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~-----~~~PiivviNKiD~~~~  147 (527)
T TIGR00503        88 PGHEDF-----------SEDTYRTLTAVDNCLMVIDAAKGVETRTRKLMEVTRL-----RDTPIFTFMNKLDRDIR  147 (527)
T ss_pred             CChhhH-----------HHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHh-----cCCCEEEEEECccccCC
Confidence            997532           2222334567799999999986666555555443332     22789999999998754

This translation releasing factor, RF-3 (prfC) was originally described as stop codon-independent, in contrast to peptide chain release factor 1 (RF-1, prfA) and RF-2 (prfB). RF-1 and RF-2 are closely related to each other, while RF-3 is similar to elongation factors EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2 is active at UAA and UGA. More recently, RF-3 was shown to be active primarily at UGA stop codons in E. coli. All bacteria and organelles have RF-1. The Mycoplasmas and organelles, which translate UGA as Trp rather than as a stop codon, lack RF-2. RF-3, in contrast, seems to be rare among bacteria and is found so far only in Escherichia coli and some other gamma subdivision Proteobacteria, in Synechocystis PCC6803, and in Staphylococcus aureus.

>KOG0394 consensus Ras-related GTPase [General function prediction only]

Probab=99.44  E-value=6.3e-13  Score=90.28  Aligned_cols=124  Identities=12%  Similarity=0.066  Sum_probs=79.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+|+++|.+|+|||+|+|.+.............+..-..+...+.. ....+++|||.|..           ++.+.
T Consensus         7 ~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~-~~vtlQiWDTAGQE-----------RFqsL   74 (210)
T KOG0394|consen    7 RTLLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDD-RSVTLQIWDTAGQE-----------RFQSL   74 (210)
T ss_pred             ccceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcC-eEEEEEEEecccHH-----------Hhhhc
Confidence            3458999999999999999999988774332222223333333333332 33578999999954           45555


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHc-cc-ccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFG-KK-VFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~-~~-~~~~~~iv~tk~D~~~~  152 (173)
                      -..+|+++|+++++++..+.-+-+. ..|-+.+..... .+ -.-|++|+.||.|.-..
T Consensus        75 g~aFYRgaDcCvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~  133 (210)
T KOG0394|consen   75 GVAFYRGADCCVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGG  133 (210)
T ss_pred             ccceecCCceEEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCC
Confidence            4579999999999999873322221 244443333222 11 22399999999998653

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.44  E-value=2.3e-12  Score=104.45  Aligned_cols=114  Identities=19%  Similarity=0.198  Sum_probs=73.8

Q ss_pred             cCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCce
Q 043441           26 GRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIH  105 (173)
Q Consensus        26 G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~  105 (173)
                      |++|+||||++|++++... ..+ ..++.|.+.......+ ++..+.++||||..+......  .+++.+.. ...+.+|
T Consensus         1 G~pNvGKSSL~N~Ltg~~~-~v~-n~pG~Tv~~~~~~i~~-~~~~i~lvDtPG~~~~~~~s~--~e~v~~~~-l~~~~aD   74 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQ-TVG-NWPGVTVEKKEGKLGF-QGEDIEIVDLPGIYSLTTFSL--EEEVARDY-LLNEKPD   74 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCC-eec-CCCCeEEEEEEEEEEE-CCeEEEEEECCCccccCccch--HHHHHHHH-HhhcCCC
Confidence            8999999999999999764 222 3445566655555666 677899999999987543221  11222111 1234789


Q ss_pred             EEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          106 AVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       106 ~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ++++|+|++ .+.... .....+.+   .  ..|+++++||+|+.+.
T Consensus        75 vvI~VvDat-~ler~l-~l~~ql~~---~--~~PiIIVlNK~Dl~~~  114 (591)
T TIGR00437        75 LVVNVVDAS-NLERNL-YLTLQLLE---L--GIPMILALNLVDEAEK  114 (591)
T ss_pred             EEEEEecCC-cchhhH-HHHHHHHh---c--CCCEEEEEehhHHHHh
Confidence            999999998 443322 22222222   2  2799999999998754

FeoB (773 amino acids in E. coli), a cytoplasmic membrane protein required for iron(II) update, is encoded in an operon with FeoA (75 amino acids), which is also required, and is regulated by Fur. There appear to be two copies in Archaeoglobus fulgidus and Clostridium acetobutylicum.

>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]

Probab=99.44  E-value=9.4e-13  Score=87.82  Aligned_cols=130  Identities=14%  Similarity=0.040  Sum_probs=92.2

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ..+++++|.+-+|||+|+..++......-.....+..-..+...+.......+++|||+|           .++++++.+
T Consensus         8 qfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtag-----------qerfrsitk   76 (213)
T KOG0091|consen    8 QFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAG-----------QERFRSITK   76 (213)
T ss_pred             EEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccc-----------hHHHHHHHH
Confidence            368999999999999999999876642222222222222222223322456899999999           457889999


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHH
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLED  159 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~  159 (173)
                      ++|++.-++++|+|++++-+-+. ..|+++.....+...+.-+.+|.+|+|+...+..+.++
T Consensus        77 syyrnsvgvllvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRqVt~EE  138 (213)
T KOG0091|consen   77 SYYRNSVGVLLVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQVTAEE  138 (213)
T ss_pred             HHhhcccceEEEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhhhccccHHH
Confidence            99999999999999997666553 67777777766644445677899999998665555444

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.44  E-value=6.7e-12  Score=102.09  Aligned_cols=117  Identities=21%  Similarity=0.269  Sum_probs=79.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCcc-ccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFK-SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~-~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .|+++|..++|||||+++|+|...-. ......+.|....+......++..+.+|||||+.           .+.+.+..
T Consensus         2 ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~g~~i~~IDtPGhe-----------~fi~~m~~   70 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPDGRVLGFIDVPGHE-----------KFLSNMLA   70 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCCCcEEEEEECCCHH-----------HHHHHHHH
Confidence            68999999999999999999854210 1112235666555444444356678999999963           23333335


Q ss_pred             ccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ....+|++++|+++.+.+.......+..+... +   ..++++|+||+|+.+.
T Consensus        71 g~~~~D~~lLVVda~eg~~~qT~ehl~il~~l-g---i~~iIVVlNKiDlv~~  119 (614)
T PRK10512         71 GVGGIDHALLVVACDDGVMAQTREHLAILQLT-G---NPMLTVALTKADRVDE  119 (614)
T ss_pred             HhhcCCEEEEEEECCCCCcHHHHHHHHHHHHc-C---CCeEEEEEECCccCCH
Confidence            56678999999999866666666655544332 2   1456899999999754

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.43  E-value=1e-11  Score=84.49  Aligned_cols=132  Identities=14%  Similarity=0.137  Sum_probs=94.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccc-----cCCCC---ccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKS-----RASSS---GVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEF   88 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~-----~~~~~---~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~   88 (173)
                      ....+|++.|+.++||||++..+........     ..+..   ..|....+.......+..+.+++|||+.        
T Consensus         8 ~~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~~~~~~v~LfgtPGq~--------   79 (187)
T COG2229           8 MIETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELDEDTGVHLFGTPGQE--------   79 (187)
T ss_pred             ccceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccceEEcCcceEEEecCCCcH--------
Confidence            3567899999999999999999987663221     11122   2455555666666344799999999965        


Q ss_pred             HHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCc-ccHHHHhcc
Q 043441           89 VGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNE-ETLEDYLGR  163 (173)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~-~~~~~~~~~  163 (173)
                         ++.-++....+++.+.++++|.+...+.+....++.+.....    .|++|+.||.|+.+... +.+.++++.
T Consensus        80 ---RF~fm~~~l~~ga~gaivlVDss~~~~~~a~~ii~f~~~~~~----ip~vVa~NK~DL~~a~ppe~i~e~l~~  148 (187)
T COG2229          80 ---RFKFMWEILSRGAVGAIVLVDSSRPITFHAEEIIDFLTSRNP----IPVVVAINKQDLFDALPPEKIREALKL  148 (187)
T ss_pred             ---HHHHHHHHHhCCcceEEEEEecCCCcchHHHHHHHHHhhccC----CCEEEEeeccccCCCCCHHHHHHHHHh
Confidence               444445556778899999999986767666677666666532    78999999999987642 345566655

>PRK13351 elongation factor G; Reviewed

Probab=99.43  E-value=3.2e-12  Score=105.77  Aligned_cols=120  Identities=16%  Similarity=0.174  Sum_probs=82.1

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcc-------ccC---------CCCccceeeEEEEEEeeCCceEEEEeCCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFK-------SRA---------SSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   79 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~-------~~~---------~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~   79 (173)
                      ....++|+++|..|+|||||+++|+......       .+.         ...+.|.........+ .+..+.+|||||.
T Consensus         5 ~~~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~-~~~~i~liDtPG~   83 (687)
T PRK13351          5 LMQIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDW-DNHRINLIDTPGH   83 (687)
T ss_pred             cccccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEE-CCEEEEEEECCCc
Confidence            3456899999999999999999997532100       000         0123444444555666 7789999999997


Q ss_pred             CCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           80 FDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .+           +......+++.+|++++|+|+++.........++.+...     ..|+++++||+|+...
T Consensus        84 ~d-----------f~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~~~~~~~-----~~p~iiviNK~D~~~~  140 (687)
T PRK13351         84 ID-----------FTGEVERSLRVLDGAVVVFDAVTGVQPQTETVWRQADRY-----GIPRLIFINKMDRVGA  140 (687)
T ss_pred             HH-----------HHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhc-----CCCEEEEEECCCCCCC
Confidence            64           222233456677999999999866666655555444332     2689999999998865

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.43  E-value=3.6e-12  Score=100.08  Aligned_cols=121  Identities=20%  Similarity=0.244  Sum_probs=77.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccc--------------c---------------CCCCccceeeEEEEEEee
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKS--------------R---------------ASSSGVTSTCEMQRTVLK   66 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~--------------~---------------~~~~~~t~~~~~~~~~~~   66 (173)
                      ..+..+++++|..++|||||++.|+.......              +               -...+.|.......... 
T Consensus         4 ~~~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~-   82 (426)
T TIGR00483         4 EKEHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFET-   82 (426)
T ss_pred             CCceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEcc-
Confidence            44568899999999999999999974211000              0               01235566666556665 


Q ss_pred             CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCC---CCHHHHHHHHHHHHHHcccccceEEEE
Q 043441           67 DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSR---FPQEEEAALHSWQTLFGKKVFDYMIVV  143 (173)
Q Consensus        67 ~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~~iv  143 (173)
                      ++..+.+|||||..+           +...+...+..+|++++|+|+++.   ........+. +...++   ..+++++
T Consensus        83 ~~~~i~iiDtpGh~~-----------f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~-~~~~~~---~~~iIVv  147 (426)
T TIGR00483        83 DKYEVTIVDCPGHRD-----------FIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAF-LARTLG---INQLIVA  147 (426)
T ss_pred             CCeEEEEEECCCHHH-----------HHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHH-HHHHcC---CCeEEEE
Confidence            677899999999542           233333456678999999999855   2222222121 222222   2579999


Q ss_pred             EeCCCCCCC
Q 043441          144 FTGGDELED  152 (173)
Q Consensus       144 ~tk~D~~~~  152 (173)
                      +||+|+...
T Consensus       148 iNK~Dl~~~  156 (426)
T TIGR00483       148 INKMDSVNY  156 (426)
T ss_pred             EEChhccCc
Confidence            999999753

This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels.

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.42  E-value=4.7e-12  Score=101.30  Aligned_cols=120  Identities=14%  Similarity=0.171  Sum_probs=79.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcc--ccC------------------CCCccceeeEEEEEEeeCCceEEEEeC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFK--SRA------------------SSSGVTSTCEMQRTVLKDGQVVNVIDT   76 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~--~~~------------------~~~~~t~~~~~~~~~~~~~~~~~v~Dt   76 (173)
                      ...++++++|..++|||||.++|+......  .+.                  ...+.+.........+ ++..+.++||
T Consensus         8 ~~~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~-~~~~inliDT   86 (526)
T PRK00741          8 AKRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPY-RDCLINLLDT   86 (526)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEE-CCEEEEEEEC
Confidence            567899999999999999999986311100  000                  0112334444455666 7788999999


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           77 PGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        77 pG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ||..+..       .+..    .+++.+|++++|+|+.+........+++....     ...|+++++||+|+...+
T Consensus        87 PG~~df~-------~~~~----~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~-----~~iPiiv~iNK~D~~~a~  147 (526)
T PRK00741         87 PGHEDFS-------EDTY----RTLTAVDSALMVIDAAKGVEPQTRKLMEVCRL-----RDTPIFTFINKLDRDGRE  147 (526)
T ss_pred             CCchhhH-------HHHH----HHHHHCCEEEEEEecCCCCCHHHHHHHHHHHh-----cCCCEEEEEECCcccccC
Confidence            9976531       1222    34456799999999987765555454443332     227899999999987653

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.42  E-value=6.9e-12  Score=90.33  Aligned_cols=116  Identities=17%  Similarity=0.093  Sum_probs=74.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCC-------------Cccce------------------------eeEEEEE
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASS-------------SGVTS------------------------TCEMQRT   63 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~-------------~~~t~------------------------~~~~~~~   63 (173)
                      +++++|..++|||||++.+.... +..+...             .+.|.                        .......
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~-~~~~~~~~~~~~~~~~~E~~~g~t~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   79 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGE-LDNGRGKARLNLFRHKHEVESGRTSSVSNEILGFDSDGEVVNYPDNHLSESDIEIC   79 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCC-cCCCCCeEEeehhhhhhhhhcCchhhhhhhhcccCCCCceecCCCCccccccceee
Confidence            57899999999999999998533 2111100             00000                        0000111


Q ss_pred             EeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEE
Q 043441           64 VLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVV  143 (173)
Q Consensus        64 ~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv  143 (173)
                      .. .+..+.++||||...       ..+.+...+.  ...+|.+++|+++...+...+...++++.+.   .  .|+++|
T Consensus        80 ~~-~~~~i~liDtpG~~~-------~~~~~~~~~~--~~~~D~~llVvda~~g~~~~d~~~l~~l~~~---~--ip~ivv  144 (224)
T cd04165          80 EK-SSKLVTFIDLAGHER-------YLKTTLFGLT--GYAPDYAMLVVAANAGIIGMTKEHLGLALAL---N--IPVFVV  144 (224)
T ss_pred             ee-CCcEEEEEECCCcHH-------HHHHHHHhhc--ccCCCEEEEEEECCCCCcHHHHHHHHHHHHc---C--CCEEEE
Confidence            22 567899999999653       1222222211  1367999999999877887788887777664   1  679999


Q ss_pred             EeCCCCCCC
Q 043441          144 FTGGDELED  152 (173)
Q Consensus       144 ~tk~D~~~~  152 (173)
                      +||+|+...
T Consensus       145 vNK~D~~~~  153 (224)
T cd04165         145 VTKIDLAPA  153 (224)
T ss_pred             EECccccCH
Confidence            999998754

Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.42  E-value=4.9e-12  Score=89.33  Aligned_cols=115  Identities=17%  Similarity=-0.021  Sum_probs=71.6

Q ss_pred             ccEEEEEcCCCCCHHHHHH-HHhCCCCcccc--CCCCcccee----eEEE---------EEEeeCCceEEEEeCCCCCCC
Q 043441           19 VRTVVFVGRTGNGKSATGN-SILGRRAFKSR--ASSSGVTST----CEMQ---------RTVLKDGQVVNVIDTPGLFDF   82 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin-~l~~~~~~~~~--~~~~~~t~~----~~~~---------~~~~~~~~~~~v~DtpG~~~~   82 (173)
                      ..+|+++|..|+|||||+. .+.+.. +..+  .....+|..    ....         .+.. ....+.+|||+|....
T Consensus         2 ~~Kiv~vG~~~vGKTsLi~~~~~~~~-~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~-~~v~l~iwDTaG~~~~   79 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLICARACNKT-LTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDG-VSVSLRLWDTFGDHDK   79 (195)
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCC-cccccCccccCCceecccceeEEeeeccccceeeCC-EEEEEEEEeCCCChhh
Confidence            3689999999999999996 554432 2111  111112221    1000         1111 2357899999996531


Q ss_pred             CCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHH--HHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           83 SAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEE--AALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                                +.   ..+++++|++++|++.+++.+-+..  .|++.+.....   ..|+++|.||+|+.+
T Consensus        80 ----------~~---~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~~---~~piilvgNK~DL~~  134 (195)
T cd01873          80 ----------DR---RFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFCP---RVPVILVGCKLDLRY  134 (195)
T ss_pred             ----------hh---cccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhCC---CCCEEEEEEchhccc
Confidence                      11   2368899999999999865554432  46666665432   268999999999764

Members of the RhoBTB subfamily of Rho GTPases are present in vertebrates, Drosophila, and Dictyostelium. RhoBTB proteins are characterized by a modular organization, consisting of a GTPase domain, a proline rich region, a tandem of two BTB (Broad-Complex, Tramtrack, and Bric a brac) domains, and a C-terminal region of unknown function. RhoBTB proteins may act as docking points for multiple components participating in signal transduction cascades. RhoBTB genes appeared upregulated in some cancer cell lines, suggesting a participation of RhoBTB proteins in the pathogenesis of particular tumors. Note that the Dictyostelium RacA GTPase domain is more closely related to Rac proteins than to RhoBTB proteins, where RacA actually belongs. Thus, the Dictyostelium RacA is not included here. Most Rho proteins contain a lipid modification site at the C-terminus; however, RhoBTB is one of few Rho subfamilies that lack this feature.

>PLN03126 Elongation factor Tu; Provisional

Probab=99.41  E-value=4.2e-12  Score=100.42  Aligned_cols=122  Identities=13%  Similarity=0.168  Sum_probs=80.8

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCcc--------------ccCCCCccceeeEEEEEEeeCCceEEEEeCCCCC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFK--------------SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF   80 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~--------------~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~   80 (173)
                      ...+..+++++|..++|||||+++|++.....              ..-...+.|.......... ++..+.++||||+.
T Consensus        77 ~~k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~-~~~~i~liDtPGh~  155 (478)
T PLN03126         77 RKKPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYET-ENRHYAHVDCPGHA  155 (478)
T ss_pred             ccCCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEec-CCcEEEEEECCCHH
Confidence            35667889999999999999999998522100              0111234455554444555 67789999999965


Q ss_pred             CCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           81 DFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +       ...++.    .....+|+.++|+|+.+......+..+..+... +   ..++++++||+|+...
T Consensus       156 ~-------f~~~~~----~g~~~aD~ailVVda~~G~~~qt~e~~~~~~~~-g---i~~iIvvvNK~Dl~~~  212 (478)
T PLN03126        156 D-------YVKNMI----TGAAQMDGAILVVSGADGPMPQTKEHILLAKQV-G---VPNMVVFLNKQDQVDD  212 (478)
T ss_pred             H-------HHHHHH----HHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHc-C---CCeEEEEEecccccCH
Confidence            3       222333    344567999999999866666555555544433 2   1347889999998753

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.40  E-value=6.4e-12  Score=103.02  Aligned_cols=122  Identities=14%  Similarity=0.121  Sum_probs=78.2

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccc--------------cC-----------------CCCccceeeEEEEE
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKS--------------RA-----------------SSSGVTSTCEMQRT   63 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~--------------~~-----------------~~~~~t~~~~~~~~   63 (173)
                      ...+..+++++|..++|||||++.|+.......              +.                 ...+.|........
T Consensus        20 ~~~~~~~i~iiGh~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~~   99 (632)
T PRK05506         20 ERKSLLRFITCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRYF   99 (632)
T ss_pred             cCCCeeEEEEECCCCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeEE
Confidence            345567899999999999999999986432111              00                 01233444444455


Q ss_pred             EeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEE
Q 043441           64 VLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVV  143 (173)
Q Consensus        64 ~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv  143 (173)
                      .. ++..+.++||||+.+       ....+.    .....+|++++|+|+...........+..+... +.   .+++++
T Consensus       100 ~~-~~~~~~liDtPG~~~-------f~~~~~----~~~~~aD~~llVvda~~g~~~~t~e~~~~~~~~-~~---~~iivv  163 (632)
T PRK05506        100 AT-PKRKFIVADTPGHEQ-------YTRNMV----TGASTADLAIILVDARKGVLTQTRRHSFIASLL-GI---RHVVLA  163 (632)
T ss_pred             cc-CCceEEEEECCChHH-------HHHHHH----HHHHhCCEEEEEEECCCCccccCHHHHHHHHHh-CC---CeEEEE
Confidence            55 667899999999542       122232    345578999999999766554443333333332 21   578899


Q ss_pred             EeCCCCCCC
Q 043441          144 FTGGDELED  152 (173)
Q Consensus       144 ~tk~D~~~~  152 (173)
                      +||+|+...
T Consensus       164 vNK~D~~~~  172 (632)
T PRK05506        164 VNKMDLVDY  172 (632)
T ss_pred             EEecccccc
Confidence            999999753

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.39  E-value=5e-12  Score=98.56  Aligned_cols=117  Identities=15%  Similarity=0.118  Sum_probs=76.4

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccc--------------cC-----------------CCCccceeeEEEEEEeeCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKS--------------RA-----------------SSSGVTSTCEMQRTVLKDG   68 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~--------------~~-----------------~~~~~t~~~~~~~~~~~~~   68 (173)
                      .+++++|..++|||||++.|+.......              +.                 ...+.|.+.......+ ++
T Consensus         1 ~~~~~vGhvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~~~-~~   79 (406)
T TIGR02034         1 LRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYFST-DK   79 (406)
T ss_pred             CeEEEECCCCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEEcc-CC
Confidence            3799999999999999999864321100              00                 1124455555555555 67


Q ss_pred             ceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCC
Q 043441           69 QVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGD  148 (173)
Q Consensus        69 ~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D  148 (173)
                      ..+.++||||+.+       ....+.    .....+|++++|+|+...+.......+..+... +   ..++++++||+|
T Consensus        80 ~~~~liDtPGh~~-------f~~~~~----~~~~~aD~allVVda~~G~~~qt~~~~~~~~~~-~---~~~iivviNK~D  144 (406)
T TIGR02034        80 RKFIVADTPGHEQ-------YTRNMA----TGASTADLAVLLVDARKGVLEQTRRHSYIASLL-G---IRHVVLAVNKMD  144 (406)
T ss_pred             eEEEEEeCCCHHH-------HHHHHH----HHHhhCCEEEEEEECCCCCccccHHHHHHHHHc-C---CCcEEEEEEecc
Confidence            7899999999542       122232    345578999999999866655544433333332 2   156899999999


Q ss_pred             CCCC
Q 043441          149 ELED  152 (173)
Q Consensus       149 ~~~~  152 (173)
                      +...
T Consensus       145 ~~~~  148 (406)
T TIGR02034       145 LVDY  148 (406)
T ss_pred             cccc
Confidence            9854

Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules. With members of the Rhizobiaceae family, nodQ often appears as a fusion of cysN (large subunit of ATP sulfurase) and cysC (APS kinase).

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.39  E-value=9.6e-12  Score=100.92  Aligned_cols=119  Identities=19%  Similarity=0.230  Sum_probs=75.7

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCc------cccC-------CCCccceeeEEEEEEee----CCceEEEEeCCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAF------KSRA-------SSSGVTSTCEMQRTVLK----DGQVVNVIDTPGLF   80 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~------~~~~-------~~~~~t~~~~~~~~~~~----~~~~~~v~DtpG~~   80 (173)
                      ..++++++|..++|||||+++|+.....      ....       ...+.|.........+.    ....+.+|||||+.
T Consensus         2 ~iRNi~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~   81 (595)
T TIGR01393         2 NIRNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHV   81 (595)
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcH
Confidence            3578999999999999999999864211      1111       11244544444444331    12478999999987


Q ss_pred             CCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           81 DFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ++           ...+..++..+|++++|+|+++..+......+....+   ..  .|+++|+||+|+...
T Consensus        82 dF-----------~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~---~~--ipiIiViNKiDl~~~  137 (595)
T TIGR01393        82 DF-----------SYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALE---ND--LEIIPVINKIDLPSA  137 (595)
T ss_pred             HH-----------HHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHH---cC--CCEEEEEECcCCCcc
Confidence            52           2222345667899999999986665554333222222   22  689999999998644

LepA (GUF1 in Saccaromyces) is a GTP-binding membrane protein related to EF-G and EF-Tu. Two types of phylogenetic tree, rooted by other GTP-binding proteins, suggest that eukaryotic homologs (including GUF1 of yeast) originated within the bacterial LepA family. The function is unknown.

>KOG0395 consensus Ras-related GTPase [General function prediction only]

Probab=99.37  E-value=6.6e-12  Score=88.51  Aligned_cols=128  Identities=22%  Similarity=0.130  Sum_probs=84.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ...+++++|.+|+|||++...+++... .....+...+...+...+.. ..-.+.|+||+|..+....           -
T Consensus         2 ~~~kvvvlG~~gVGKSal~~qf~~~~f-~~~y~ptied~y~k~~~v~~-~~~~l~ilDt~g~~~~~~~-----------~   68 (196)
T KOG0395|consen    2 REYKVVVLGAGGVGKSALTIQFLTGRF-VEDYDPTIEDSYRKELTVDG-EVCMLEILDTAGQEEFSAM-----------R   68 (196)
T ss_pred             CceEEEEECCCCCCcchheeeeccccc-ccccCCCccccceEEEEECC-EEEEEEEEcCCCcccChHH-----------H
Confidence            357899999999999999988887763 33333333333444444432 3347789999995443211           1


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHH
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLED  159 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~  159 (173)
                      ..+....|++++|++.+++-+-++ ..+.+.|.+..+. ...|+++|.||+|+......+.++
T Consensus        69 ~~~~~~~~gF~lVysitd~~SF~~~~~l~~~I~r~~~~-~~~PivlVGNK~Dl~~~R~V~~ee  130 (196)
T KOG0395|consen   69 DLYIRNGDGFLLVYSITDRSSFEEAKQLREQILRVKGR-DDVPIILVGNKCDLERERQVSEEE  130 (196)
T ss_pred             HHhhccCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCc-CCCCEEEEEEcccchhccccCHHH
Confidence            235667799999999986666554 4555555443333 236999999999998755455554

>KOG0075 consensus GTP-binding ADP-ribosylation factor-like protein [General function prediction only]

Probab=99.37  E-value=3.2e-12  Score=83.86  Aligned_cols=126  Identities=15%  Similarity=0.061  Sum_probs=86.6

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ....+.++|-.+||||||+|.+......    ..-.+|.....+.+.- .+..+.+||.||..           .++..+
T Consensus        19 ~emel~lvGLq~sGKtt~Vn~ia~g~~~----edmiptvGfnmrk~tk-gnvtiklwD~gGq~-----------rfrsmW   82 (186)
T KOG0075|consen   19 EEMELSLVGLQNSGKTTLVNVIARGQYL----EDMIPTVGFNMRKVTK-GNVTIKLWDLGGQP-----------RFRSMW   82 (186)
T ss_pred             heeeEEEEeeccCCcceEEEEEeeccch----hhhcccccceeEEecc-CceEEEEEecCCCc-----------cHHHHH
Confidence            3467999999999999999998754321    2223444445555554 67789999999976           456666


Q ss_pred             HhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc--ccceEEEEEeCCCCCCCCcccHHHHhcc
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK--VFDYMIVVFTGGDELEDNEETLEDYLGR  163 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~~~~~~~~~~~~  163 (173)
                      ..+++++++|+||+|+.+ ..... ..-+++..++...  ...|++++.||.|+....  +.++.+.+
T Consensus        83 erycR~v~aivY~VDaad-~~k~~-~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~AL--~~~~li~r  146 (186)
T KOG0075|consen   83 ERYCRGVSAIVYVVDAAD-PDKLE-ASRSELHDLLDKPSLTGIPLLVLGNKIDLPGAL--SKIALIER  146 (186)
T ss_pred             HHHhhcCcEEEEEeecCC-cccch-hhHHHHHHHhcchhhcCCcEEEecccccCcccc--cHHHHHHH
Confidence            688999999999999984 32222 1122233333332  336999999999999874  66666555

>cd01882 BMS1 Bms1

Probab=99.35  E-value=3.5e-11  Score=86.78  Aligned_cols=112  Identities=18%  Similarity=0.123  Sum_probs=73.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      ..++..|+++|.+|+|||||+|.|++........ ....+.     ......+..+.++||||..          ..+..
T Consensus        36 ~~~~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~-~~~g~i-----~i~~~~~~~i~~vDtPg~~----------~~~l~   99 (225)
T cd01882          36 EPPPLVVAVVGPPGVGKTTLIKSLVKNYTKQNIS-DIKGPI-----TVVTGKKRRLTFIECPNDI----------NAMID   99 (225)
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhhcccCccc-cccccE-----EEEecCCceEEEEeCCchH----------HHHHH
Confidence            5677889999999999999999998753211111 111111     1111166788999999732          23333


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccce-EEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDY-MIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~~iv~tk~D~~~~  152 (173)
                      .    ...+|++++++|+...+...+...++.+.+. +    .| +++|+||+|++..
T Consensus       100 ~----ak~aDvVllviDa~~~~~~~~~~i~~~l~~~-g----~p~vi~VvnK~D~~~~  148 (225)
T cd01882         100 I----AKVADLVLLLIDASFGFEMETFEFLNILQVH-G----FPRVMGVLTHLDLFKK  148 (225)
T ss_pred             H----HHhcCEEEEEEecCcCCCHHHHHHHHHHHHc-C----CCeEEEEEeccccCCc
Confidence            3    3456999999999867776666665555543 1    44 4559999999854

Bms1 is an essential, evolutionarily conserved, nucleolar protein. Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits. Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit. The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly. It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.34  E-value=2.9e-11  Score=98.27  Aligned_cols=120  Identities=19%  Similarity=0.215  Sum_probs=75.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccc----cC---------CCCccceeeEEEEEEee----CCceEEEEeCCCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKS----RA---------SSSGVTSTCEMQRTVLK----DGQVVNVIDTPGL   79 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~----~~---------~~~~~t~~~~~~~~~~~----~~~~~~v~DtpG~   79 (173)
                      +..++++++|..++|||||+.+|+.......    +.         ...+.|.........+.    ....+.+|||||+
T Consensus         5 ~~iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh   84 (600)
T PRK05433          5 KNIRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGH   84 (600)
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCc
Confidence            4568999999999999999999975321100    00         11233443333333331    2457899999998


Q ss_pred             CCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           80 FDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .++           ...+..++..+|++++|+|+++.........+....   ..  ..|+++|+||+|+...
T Consensus        85 ~dF-----------~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~---~~--~lpiIvViNKiDl~~a  141 (600)
T PRK05433         85 VDF-----------SYEVSRSLAACEGALLVVDASQGVEAQTLANVYLAL---EN--DLEIIPVLNKIDLPAA  141 (600)
T ss_pred             HHH-----------HHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHH---HC--CCCEEEEEECCCCCcc
Confidence            753           122223455679999999998666554433332222   22  2689999999998654

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.32  E-value=3.3e-11  Score=94.93  Aligned_cols=117  Identities=18%  Similarity=0.191  Sum_probs=74.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccc-----------------------------cCCCCccceeeEEEEEEeeC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKS-----------------------------RASSSGVTSTCEMQRTVLKD   67 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~-----------------------------~~~~~~~t~~~~~~~~~~~~   67 (173)
                      .+..+++++|..++|||||+..|+.......                             .-...+.|.........+ +
T Consensus         5 k~~~nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~~~-~   83 (446)
T PTZ00141          5 KTHINLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKFET-P   83 (446)
T ss_pred             CceEEEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEEcc-C
Confidence            4567899999999999999998864110000                             001234566666666666 7


Q ss_pred             CceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCC-------CHHHHHHHHHHHHHHcccccceE
Q 043441           68 GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRF-------PQEEEAALHSWQTLFGKKVFDYM  140 (173)
Q Consensus        68 ~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~-------~~~~~~~~~~l~~~~~~~~~~~~  140 (173)
                      +..+.++||||..+           +...+......+|++++|+|+....       .......+..+... +   ..++
T Consensus        84 ~~~i~lIDtPGh~~-----------f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~-g---i~~i  148 (446)
T PTZ00141         84 KYYFTIIDAPGHRD-----------FIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFTL-G---VKQM  148 (446)
T ss_pred             CeEEEEEECCChHH-----------HHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHHc-C---CCeE
Confidence            77999999999653           2333334456789999999997543       12223333333222 2   1457


Q ss_pred             EEEEeCCCC
Q 043441          141 IVVFTGGDE  149 (173)
Q Consensus       141 ~iv~tk~D~  149 (173)
                      ++++||+|.
T Consensus       149 iv~vNKmD~  157 (446)
T PTZ00141        149 IVCINKMDD  157 (446)
T ss_pred             EEEEEcccc
Confidence            899999994

>PTZ00416 elongation factor 2; Provisional

Probab=99.32  E-value=1e-11  Score=104.39  Aligned_cols=121  Identities=17%  Similarity=0.195  Sum_probs=80.7

Q ss_pred             CCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccC--------------CCCccceeeEEEEEEee---------CCce
Q 043441           14 SPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA--------------SSSGVTSTCEMQRTVLK---------DGQV   70 (173)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~--------------~~~~~t~~~~~~~~~~~---------~~~~   70 (173)
                      +.....++|+++|..++|||||+++|+.........              ...+.|.........+.         .+..
T Consensus        14 ~~~~~irni~iiGh~d~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~   93 (836)
T PTZ00416         14 DNPDQIRNMSVIAHVDHGKSTLTDSLVCKAGIISSKNAGDARFTDTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFL   93 (836)
T ss_pred             hCccCcCEEEEECCCCCCHHHHHHHHHHhcCCcccccCCceeecccchhhHhhcceeeccceEEEeecccccccCCCceE
Confidence            345677899999999999999999998643211110              00122222222222331         1456


Q ss_pred             EEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCC
Q 043441           71 VNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDEL  150 (173)
Q Consensus        71 ~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~  150 (173)
                      +.++||||+.+           +...+....+.+|++++|+++.+.+.......++.+.+.   .  .|+++++||+|+.
T Consensus        94 i~liDtPG~~~-----------f~~~~~~al~~~D~ailVvda~~g~~~~t~~~~~~~~~~---~--~p~iv~iNK~D~~  157 (836)
T PTZ00416         94 INLIDSPGHVD-----------FSSEVTAALRVTDGALVVVDCVEGVCVQTETVLRQALQE---R--IRPVLFINKVDRA  157 (836)
T ss_pred             EEEEcCCCHHh-----------HHHHHHHHHhcCCeEEEEEECCCCcCccHHHHHHHHHHc---C--CCEEEEEEChhhh
Confidence            89999999875           222234556778999999999877877776666555443   2  6899999999998

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.30  E-value=4.1e-11  Score=93.52  Aligned_cols=120  Identities=13%  Similarity=0.176  Sum_probs=70.9

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCcccc-CCCCccceeeEEEEE--------------Ee-----------eCCceE
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSR-ASSSGVTSTCEMQRT--------------VL-----------KDGQVV   71 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~-~~~~~~t~~~~~~~~--------------~~-----------~~~~~~   71 (173)
                      +..+|+++|..++|||||+++|.+....... ....+.|....+...              ..           ..+..+
T Consensus         3 ~~~~i~iiG~~~~GKSTL~~~Lt~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   82 (406)
T TIGR03680         3 PEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKCPECDGPECYTTEPVCPNCGSETELLRRV   82 (406)
T ss_pred             ceEEEEEEccCCCCHHHHHHHHhCeecccCHhHHHcCceeEecccccccccccccCccccccccccccccccccccccEE
Confidence            4578999999999999999999874311000 001112211111000              00           014678


Q ss_pred             EEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCC-CHHHHHHHHHHHHHHcccccceEEEEEeCCCCC
Q 043441           72 NVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRF-PQEEEAALHSWQTLFGKKVFDYMIVVFTGGDEL  150 (173)
Q Consensus        72 ~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~  150 (173)
                      .++||||..+           +...+......+|++++|+|+++.. .......+..+ ..++   ..++++++||+|+.
T Consensus        83 ~liDtPGh~~-----------f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l-~~~g---i~~iIVvvNK~Dl~  147 (406)
T TIGR03680        83 SFVDAPGHET-----------LMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMAL-EIIG---IKNIVIVQNKIDLV  147 (406)
T ss_pred             EEEECCCHHH-----------HHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHH-HHcC---CCeEEEEEEccccC
Confidence            9999999642           2222333445679999999998554 33333333333 2222   25789999999998


Q ss_pred             CC
Q 043441          151 ED  152 (173)
Q Consensus       151 ~~  152 (173)
                      ..
T Consensus       148 ~~  149 (406)
T TIGR03680       148 SK  149 (406)
T ss_pred             CH
Confidence            54

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.30  E-value=2.6e-11  Score=90.98  Aligned_cols=130  Identities=15%  Similarity=0.251  Sum_probs=89.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeE-EEEEEe----e------C------------------
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCE-MQRTVL----K------D------------------   67 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~-~~~~~~----~------~------------------   67 (173)
                      ...+-|+++|+...||||||+.|+..........+.+.|.... ......    +      +                  
T Consensus        56 d~KPmill~GqyStGKTtfi~yLle~dypg~riGpEPTtd~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~aflnR  135 (532)
T KOG1954|consen   56 DAKPMILLVGQYSTGKTTFIRYLLEQDYPGLRIGPEPTTDRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNAFLNR  135 (532)
T ss_pred             ccCceEEEEeccccchhHHHHHHHhCCCCccccCCCCCcceeEEEEecCcccccCCceeeecCCCchhhhhhhHHHHHHH
Confidence            4567899999999999999999998876433333332222111 111110    0      0                  


Q ss_pred             ----------CceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHH--HHHHHHHHHHHHccc
Q 043441           68 ----------GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQE--EEAALHSWQTLFGKK  135 (173)
Q Consensus        68 ----------~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~--~~~~~~~l~~~~~~~  135 (173)
                                -..+.++||||+.+...+.-.....+...+.++..++|.|++++|+. .++-.  -+..+..++   +.+
T Consensus       136 f~csqmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~h-KLDIsdEf~~vi~aLk---G~E  211 (532)
T KOG1954|consen  136 FMCSQLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAH-KLDISDEFKRVIDALK---GHE  211 (532)
T ss_pred             HHHhcCChhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechh-hccccHHHHHHHHHhh---CCc
Confidence                      02489999999998765544556667777888999999999999996 55444  345544444   334


Q ss_pred             ccceEEEEEeCCCCCCC
Q 043441          136 VFDYMIVVFTGGDELED  152 (173)
Q Consensus       136 ~~~~~~iv~tk~D~~~~  152 (173)
                        ..+-||+||+|..+.
T Consensus       212 --dkiRVVLNKADqVdt  226 (532)
T KOG1954|consen  212 --DKIRVVLNKADQVDT  226 (532)
T ss_pred             --ceeEEEeccccccCH
Confidence              689999999999976

>PTZ00258 GTP-binding protein; Provisional

Probab=99.30  E-value=4.7e-11  Score=91.82  Aligned_cols=93  Identities=16%  Similarity=0.125  Sum_probs=63.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeC----------------CceEEEEeCCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD----------------GQVVNVIDTPGL   79 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~----------------~~~~~v~DtpG~   79 (173)
                      .....+|++||.+++|||||+|+|++....  ....+..|..........++                ...+.++||||+
T Consensus        18 ~~~~~kvgIVG~PNvGKSTLfnaLt~~~~~--v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGL   95 (390)
T PTZ00258         18 PGNNLKMGIVGLPNVGKSTTFNALCKQQVP--AENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGL   95 (390)
T ss_pred             CCCCcEEEEECCCCCChHHHHHHHhcCccc--ccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCc
Confidence            356678999999999999999999887642  22233444444444443311                124899999999


Q ss_pred             CCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecC
Q 043441           80 FDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVR  114 (173)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~  114 (173)
                      .......+.++.++..    ..+.+|++++|++..
T Consensus        96 v~ga~~g~gLg~~fL~----~Ir~aD~il~VVd~f  126 (390)
T PTZ00258         96 VKGASEGEGLGNAFLS----HIRAVDGIYHVVRAF  126 (390)
T ss_pred             CcCCcchhHHHHHHHH----HHHHCCEEEEEEeCC
Confidence            9765544555555554    345679999999973

>cd01900 YchF YchF subfamily

Probab=99.29  E-value=2.8e-11  Score=89.28  Aligned_cols=86  Identities=19%  Similarity=0.144  Sum_probs=58.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC----------------ceEEEEeCCCCCCCCCC
Q 043441           22 VVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG----------------QVVNVIDTPGLFDFSAG   85 (173)
Q Consensus        22 i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~----------------~~~~v~DtpG~~~~~~~   85 (173)
                      +++||.+++|||||+|+|++....  ....+..|...........+.                ..+.++|+||+......
T Consensus         1 igivG~PN~GKSTLfn~Lt~~~~~--~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~~a~~   78 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKAGAE--AANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASK   78 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCCc--cccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCCch
Confidence            579999999999999999998752  222334444444433333121                14899999999976555


Q ss_pred             cHHHHHHHHHHHHhccCCceEEEEEeec
Q 043441           86 SEFVGMEIVKCIGLAKDGIHAVLVGFSV  113 (173)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~ii~v~~~  113 (173)
                      .+.++.++...    .+.+|++++|+++
T Consensus        79 ~~glg~~fL~~----i~~~D~li~VV~~  102 (274)
T cd01900          79 GEGLGNKFLSH----IREVDAIAHVVRC  102 (274)
T ss_pred             hhHHHHHHHHH----HHhCCEEEEEEeC
Confidence            55556555543    4467999999987

YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.29  E-value=6.9e-12  Score=104.03  Aligned_cols=121  Identities=18%  Similarity=0.246  Sum_probs=77.0

Q ss_pred             CCCCCccEEEEEcCCCCCHHHHHHHHhCCCC--------------ccccCCCCccceeeEEE----EEEeeCCceEEEEe
Q 043441           14 SPSNGVRTVVFVGRTGNGKSATGNSILGRRA--------------FKSRASSSGVTSTCEMQ----RTVLKDGQVVNVID   75 (173)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKStlin~l~~~~~--------------~~~~~~~~~~t~~~~~~----~~~~~~~~~~~v~D   75 (173)
                      ......++|+++|..++|||||++.|+....              +.......+.|......    ...+ .+..+.++|
T Consensus        14 ~~~~~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~-~~~~i~liD   92 (720)
T TIGR00490        14 WKPKFIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEG-NEYLINLID   92 (720)
T ss_pred             hCcccccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecC-CceEEEEEe
Confidence            3445678999999999999999999874211              00000011223222211    1233 566899999


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           76 TPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        76 tpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      |||+.+..       .+.    ...++.+|++++|+++.+.........++.+.+.   .  .|.++++||+|+..
T Consensus        93 TPG~~~f~-------~~~----~~al~~aD~~llVvda~~g~~~~t~~~~~~~~~~---~--~p~ivviNKiD~~~  152 (720)
T TIGR00490        93 TPGHVDFG-------GDV----TRAMRAVDGAIVVVCAVEGVMPQTETVLRQALKE---N--VKPVLFINKVDRLI  152 (720)
T ss_pred             CCCccccH-------HHH----HHHHHhcCEEEEEEecCCCCCccHHHHHHHHHHc---C--CCEEEEEEChhccc
Confidence            99998632       122    2445677999999999866666655554443322   2  56789999999974

This model represents archaeal elongation factor 2, a protein more similar to eukaryotic EF-2 than to bacterial EF-G, both in sequence similarity and in sharing with eukaryotes the property of having a diphthamide (modified His) residue at a conserved position. The diphthamide can be ADP-ribosylated by diphtheria toxin in the presence of NAD.

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.29  E-value=7.4e-11  Score=92.14  Aligned_cols=122  Identities=13%  Similarity=0.184  Sum_probs=73.1

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCc-cccCCCCccceeeEEEEEEe--------------e-----------CCc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAF-KSRASSSGVTSTCEMQRTVL--------------K-----------DGQ   69 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~-~~~~~~~~~t~~~~~~~~~~--------------~-----------~~~   69 (173)
                      ..+..+++++|..++|||||+.+|.+.... ...-...+.|.........+              .           ...
T Consensus         6 ~~~~~ni~v~Gh~d~GKSTL~~~L~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (411)
T PRK04000          6 VQPEVNIGMVGHVDHGKTTLVQALTGVWTDRHSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETELLR   85 (411)
T ss_pred             CCCcEEEEEEccCCCCHHHHHHHhhCeecccCHhHHhcCcEEEecccccccccccccCcccccccccccccccccccccc
Confidence            455689999999999999999999764210 00001122333222111000              0           025


Q ss_pred             eEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCC-CHHHHHHHHHHHHHHcccccceEEEEEeCCC
Q 043441           70 VVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRF-PQEEEAALHSWQTLFGKKVFDYMIVVFTGGD  148 (173)
Q Consensus        70 ~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D  148 (173)
                      .+.++||||..           ++...+......+|++++|+|+.+.. .......+..+... +   ..++++|+||+|
T Consensus        86 ~i~liDtPG~~-----------~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~~l~~~-~---i~~iiVVlNK~D  150 (411)
T PRK04000         86 RVSFVDAPGHE-----------TLMATMLSGAALMDGAILVIAANEPCPQPQTKEHLMALDII-G---IKNIVIVQNKID  150 (411)
T ss_pred             EEEEEECCCHH-----------HHHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHHHHHHHc-C---CCcEEEEEEeec
Confidence            78999999953           22222333445679999999998554 44444444444322 2   146899999999


Q ss_pred             CCCC
Q 043441          149 ELED  152 (173)
Q Consensus       149 ~~~~  152 (173)
                      +...
T Consensus       151 l~~~  154 (411)
T PRK04000        151 LVSK  154 (411)
T ss_pred             cccc
Confidence            9864

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=99.26  E-value=5.5e-11  Score=100.16  Aligned_cols=121  Identities=16%  Similarity=0.196  Sum_probs=79.5

Q ss_pred             CCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccC--------------CCCccceeeEEEEEEee-------------
Q 043441           14 SPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA--------------SSSGVTSTCEMQRTVLK-------------   66 (173)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~--------------~~~~~t~~~~~~~~~~~-------------   66 (173)
                      ..+...++|+++|..++|||||+.+|+.........              ...+.|.........+.             
T Consensus        14 ~~~~~Irni~iiGhvd~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~   93 (843)
T PLN00116         14 DKKHNIRNMSVIAHVDHGKSTLTDSLVAAAGIIAQEVAGDVRMTDTRADEAERGITIKSTGISLYYEMTDESLKDFKGER   93 (843)
T ss_pred             hCccCccEEEEEcCCCCCHHHHHHHHHHhcCCcccccCCceeeccCcHHHHHhCCceecceeEEEeeccccccccccccc
Confidence            346678999999999999999999997543211110              01122333222233331             


Q ss_pred             --CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEE
Q 043441           67 --DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVF  144 (173)
Q Consensus        67 --~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~  144 (173)
                        .+..+.++||||+.+           +........+.+|+.++|+|+.+.+....+..++.+.+.   .  .|+++++
T Consensus        94 ~~~~~~inliDtPGh~d-----------F~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~~~~~~~---~--~p~i~~i  157 (843)
T PLN00116         94 DGNEYLINLIDSPGHVD-----------FSSEVTAALRITDGALVVVDCIEGVCVQTETVLRQALGE---R--IRPVLTV  157 (843)
T ss_pred             CCCceEEEEECCCCHHH-----------HHHHHHHHHhhcCEEEEEEECCCCCcccHHHHHHHHHHC---C--CCEEEEE
Confidence              145678999999874           222223445667999999999877776666665554432   2  7899999


Q ss_pred             eCCCCC
Q 043441          145 TGGDEL  150 (173)
Q Consensus       145 tk~D~~  150 (173)
                      ||+|++
T Consensus       158 NK~D~~  163 (843)
T PLN00116        158 NKMDRC  163 (843)
T ss_pred             ECCccc
Confidence            999998

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.26  E-value=2.7e-11  Score=89.40  Aligned_cols=91  Identities=18%  Similarity=0.265  Sum_probs=68.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEE-EEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM-QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      .+..-++++||.+++|||||+|.|++...   ....++.|+.... .-..+ ++-.++++|+||+.+........+.+..
T Consensus        60 KsGda~v~lVGfPsvGKStLL~~LTnt~s---eva~y~FTTl~~VPG~l~Y-~ga~IQild~Pgii~gas~g~grG~~vl  135 (365)
T COG1163          60 KSGDATVALVGFPSVGKSTLLNKLTNTKS---EVADYPFTTLEPVPGMLEY-KGAQIQLLDLPGIIEGASSGRGRGRQVL  135 (365)
T ss_pred             ccCCeEEEEEcCCCccHHHHHHHHhCCCc---cccccCceecccccceEee-cCceEEEEcCcccccCcccCCCCcceee
Confidence            34567899999999999999999999763   4444444444443 33445 8899999999999987665554455555


Q ss_pred             HHHHhccCCceEEEEEeecC
Q 043441           95 KCIGLAKDGIHAVLVGFSVR  114 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~  114 (173)
                          ...+.||.+++|+|+.
T Consensus       136 ----sv~R~ADlIiiVld~~  151 (365)
T COG1163         136 ----SVARNADLIIIVLDVF  151 (365)
T ss_pred             ----eeeccCCEEEEEEecC
Confidence                5677889999999997

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=99.25  E-value=9.2e-11  Score=89.33  Aligned_cols=89  Identities=18%  Similarity=0.121  Sum_probs=60.0

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC----------------ceEEEEeCCCCCCCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG----------------QVVNVIDTPGLFDFS   83 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~----------------~~~~v~DtpG~~~~~   83 (173)
                      .++++||.+++|||||+|+|++....  -...+..|...........+.                ..+.++|+||+....
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~~~--v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~a   80 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAGAE--AANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKGA   80 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCe--ecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCCC
Confidence            58999999999999999999997731  122233443444333333121                258999999999765


Q ss_pred             CCcHHHHHHHHHHHHhccCCceEEEEEeecC
Q 043441           84 AGSEFVGMEIVKCIGLAKDGIHAVLVGFSVR  114 (173)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~  114 (173)
                      ...+.++.++..    ..+.+|++++|+++.
T Consensus        81 ~~g~glg~~fL~----~i~~aD~li~VVd~f  107 (364)
T PRK09601         81 SKGEGLGNQFLA----NIREVDAIVHVVRCF  107 (364)
T ss_pred             ChHHHHHHHHHH----HHHhCCEEEEEEeCC
Confidence            444445555553    455679999999983

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.24  E-value=2.7e-11  Score=84.41  Aligned_cols=121  Identities=12%  Similarity=0.124  Sum_probs=79.7

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ....++++|+++||||+++-.|.......     .-............ ...+..++|.||...       +...+....
T Consensus        37 ~~~~Vll~Gl~dSGKT~LF~qL~~gs~~~-----TvtSiepn~a~~r~-gs~~~~LVD~PGH~r-------lR~kl~e~~  103 (238)
T KOG0090|consen   37 KQNAVLLVGLSDSGKTSLFTQLITGSHRG-----TVTSIEPNEATYRL-GSENVTLVDLPGHSR-------LRRKLLEYL  103 (238)
T ss_pred             cCCcEEEEecCCCCceeeeeehhcCCccC-----eeeeeccceeeEee-cCcceEEEeCCCcHH-------HHHHHHHHc
Confidence            34789999999999999998876543211     11122222233333 556689999999763       222233222


Q ss_pred             HhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc----cccceEEEEEeCCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK----KVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~~iv~tk~D~~~~~  153 (173)
                      +.. ..+.+|+||+|.. .+..+-+...+++.+.+-.    ....|++|+.||-|+....
T Consensus       104 ~~~-~~akaiVFVVDSa-~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tAk  161 (238)
T KOG0090|consen  104 KHN-YSAKAIVFVVDSA-TFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTAK  161 (238)
T ss_pred             ccc-ccceeEEEEEecc-ccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhcC
Confidence            221 3678999999998 7777766777777665443    2346999999999999763

>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.24  E-value=6.2e-11  Score=80.79  Aligned_cols=118  Identities=12%  Similarity=0.046  Sum_probs=85.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      .....+|+++|--+|||||++..|--.+..     ..-+|.......+.+ ++..+.+||.-|..           .++.
T Consensus        14 ~~~e~~IlmlGLD~AGKTTILykLk~~E~v-----ttvPTiGfnVE~v~y-kn~~f~vWDvGGq~-----------k~R~   76 (181)
T KOG0070|consen   14 GKKEMRILMVGLDAAGKTTILYKLKLGEIV-----TTVPTIGFNVETVEY-KNISFTVWDVGGQE-----------KLRP   76 (181)
T ss_pred             CcceEEEEEEeccCCCceeeeEeeccCCcc-----cCCCccccceeEEEE-cceEEEEEecCCCc-----------cccc
Confidence            566789999999999999999887554432     224566666777777 89999999999965           3555


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc--ccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK--VFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~  152 (173)
                      .++.+++..+++|||+|.+++..-.+  .-+.+...+...  ...|+++..||.|+...
T Consensus        77 lW~~Y~~~t~~lIfVvDS~Dr~Ri~e--ak~eL~~~l~~~~l~~~~llv~aNKqD~~~a  133 (181)
T KOG0070|consen   77 LWKHYFQNTQGLIFVVDSSDRERIEE--AKEELHRMLAEPELRNAPLLVFANKQDLPGA  133 (181)
T ss_pred             chhhhccCCcEEEEEEeCCcHHHHHH--HHHHHHHHHcCcccCCceEEEEechhhcccc
Confidence            56678999999999999985543332  222333333222  34799999999998865

>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.22  E-value=6.3e-12  Score=85.17  Aligned_cols=124  Identities=19%  Similarity=0.115  Sum_probs=83.9

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC-ccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSS-GVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      +-+...+++++|..++||||+|...+... |..+.... +.....+...+.. ...+..+|||.|..           ++
T Consensus        16 d~e~aiK~vivGng~VGKssmiqryCkgi-fTkdykktIgvdflerqi~v~~-Edvr~mlWdtagqe-----------Ef   82 (246)
T KOG4252|consen   16 DYERAIKFVIVGNGSVGKSSMIQRYCKGI-FTKDYKKTIGVDFLERQIKVLI-EDVRSMLWDTAGQE-----------EF   82 (246)
T ss_pred             hhhhhEEEEEECCCccchHHHHHHHhccc-cccccccccchhhhhHHHHhhH-HHHHHHHHHhccch-----------hH
Confidence            44567899999999999999999988654 33332221 1111111112222 44577899999954           56


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCc
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNE  154 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~  154 (173)
                      ..+.+.+|+++.+.++|+..+++-+-+- ..|.+.+.....   ..|+++|-||+|+++.+.
T Consensus        83 DaItkAyyrgaqa~vLVFSTTDr~SFea~~~w~~kv~~e~~---~IPtV~vqNKIDlveds~  141 (246)
T KOG4252|consen   83 DAITKAYYRGAQASVLVFSTTDRYSFEATLEWYNKVQKETE---RIPTVFVQNKIDLVEDSQ  141 (246)
T ss_pred             HHHHHHHhccccceEEEEecccHHHHHHHHHHHHHHHHHhc---cCCeEEeeccchhhHhhh
Confidence            6666789999999999999986655442 455555554433   379999999999997643

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=99.22  E-value=7.5e-11  Score=102.35  Aligned_cols=139  Identities=16%  Similarity=0.216  Sum_probs=89.7

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCcccc------CCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCC----cHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSR------ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAG----SEFV   89 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~------~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~----~~~~   89 (173)
                      +=.+++|++|+||||+++.- |...+...      ....+.|..|.+.     -....+++||+|..-.+..    ....
T Consensus       112 PWYlviG~~gsGKtt~l~~s-gl~~pl~~~~~~~~~~~~~~t~~c~ww-----f~~~avliDtaG~y~~~~~~~~~~~~~  185 (1169)
T TIGR03348       112 PWYLVIGPPGSGKTTLLQNS-GLKFPLAERLGAAALRGVGGTRNCDWW-----FTDEAVLIDTAGRYTTQDSDPEEDAAA  185 (1169)
T ss_pred             CCEEEECCCCCchhHHHHhC-CCCCcCchhhccccccCCCCCcccceE-----ecCCEEEEcCCCccccCCCcccccHHH
Confidence            55899999999999999875 43321111      0112233333332     3456789999997754421    2333


Q ss_pred             HHHHHHHHHhc--cCCceEEEEEeecCCCCCH--H--------HHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccH
Q 043441           90 GMEIVKCIGLA--KDGIHAVLVGFSVRSRFPQ--E--------EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETL  157 (173)
Q Consensus        90 ~~~~~~~~~~~--~~~~~~ii~v~~~~~~~~~--~--------~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~  157 (173)
                      ...+...++..  .+..+++|+++++.+-+..  .        -+..++++.+.++..  .|+++|+||+|++.+    .
T Consensus       186 W~~fL~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~--~PVYvv~Tk~Dll~G----F  259 (1169)
T TIGR03348       186 WLGFLGLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGAR--FPVYLVLTKADLLAG----F  259 (1169)
T ss_pred             HHHHHHHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCC--CCEEEEEecchhhcC----H
Confidence            55666666654  4568999999999733321  1        145556666676655  899999999999975    7


Q ss_pred             HHHhcccCCCCcc
Q 043441          158 EDYLGRECPKPLK  170 (173)
Q Consensus       158 ~~~~~~~~~~~l~  170 (173)
                      ++|+.....+..+
T Consensus       260 ~~~f~~l~~~~r~  272 (1169)
T TIGR03348       260 EEFFADLDAEERE  272 (1169)
T ss_pred             HHHHHhCCHHHHh
Confidence            7777775544433

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>KOG0088 consensus GTPase Rab21, small G protein superfamily [General function prediction only]

Probab=99.20  E-value=2.4e-11  Score=80.80  Aligned_cols=129  Identities=16%  Similarity=0.125  Sum_probs=85.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      .-..+++++|..-+|||+|+-..+-...-..-.+........+...+.. ..-.+.+|||+|...+..    ++      
T Consensus        11 s~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed-~ra~L~IWDTAGQErfHA----LG------   79 (218)
T KOG0088|consen   11 SFKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVED-CRADLHIWDTAGQERFHA----LG------   79 (218)
T ss_pred             ceeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhccccccc-ceeeeeeeeccchHhhhc----cC------
Confidence            3457899999999999999977665442111111111111111122222 345788999999654321    11      


Q ss_pred             HHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHH
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLED  159 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~  159 (173)
                       ..+|++.++.++|+|++++-+-. .+.|...++..+++.  .-.+||.||.|+-+.+..+.++
T Consensus        80 -PIYYRgSnGalLVyDITDrdSFqKVKnWV~Elr~mlGne--i~l~IVGNKiDLEeeR~Vt~qe  140 (218)
T KOG0088|consen   80 -PIYYRGSNGALLVYDITDRDSFQKVKNWVLELRTMLGNE--IELLIVGNKIDLEEERQVTRQE  140 (218)
T ss_pred             -ceEEeCCCceEEEEeccchHHHHHHHHHHHHHHHHhCCe--eEEEEecCcccHHHhhhhhHHH
Confidence             14899999999999999665544 478999999999887  7789999999987665444443

>KOG0074 consensus GTP-binding ADP-ribosylation factor-like protein ARL3 [General function prediction only]

Probab=99.20  E-value=1.2e-10  Score=76.14  Aligned_cols=128  Identities=12%  Similarity=0.044  Sum_probs=86.3

Q ss_pred             CCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           14 SPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      +.+.+..+++++|-.+||||||++.|.+....     ....|.......+.......+.+||.-|..           .+
T Consensus        12 s~t~rEirilllGldnAGKTT~LKqL~sED~~-----hltpT~GFn~k~v~~~g~f~LnvwDiGGqr-----------~I   75 (185)
T KOG0074|consen   12 SRTRREIRILLLGLDNAGKTTFLKQLKSEDPR-----HLTPTNGFNTKKVEYDGTFHLNVWDIGGQR-----------GI   75 (185)
T ss_pred             CCCcceEEEEEEecCCCcchhHHHHHccCChh-----hccccCCcceEEEeecCcEEEEEEecCCcc-----------cc
Confidence            45577899999999999999999999886642     122233333333444244789999998854           46


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHH--HHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHHHh
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQE--EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYL  161 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~  161 (173)
                      +.+++.+|.+.|.+|||+|.+++-..+  ...+.+.+.+.--  ...|+.|..||-|++...  ..++.-
T Consensus        76 RpyWsNYyenvd~lIyVIDS~D~krfeE~~~el~ELleeeKl--~~vpvlIfankQdlltaa--~~eeia  141 (185)
T KOG0074|consen   76 RPYWSNYYENVDGLIYVIDSTDEKRFEEISEELVELLEEEKL--AEVPVLIFANKQDLLTAA--KVEEIA  141 (185)
T ss_pred             chhhhhhhhccceEEEEEeCCchHhHHHHHHHHHHHhhhhhh--hccceeehhhhhHHHhhc--chHHHH
Confidence            777788999999999999986432222  2333333333211  236899999999998763  444433

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=99.20  E-value=2.4e-10  Score=85.35  Aligned_cols=131  Identities=15%  Similarity=0.173  Sum_probs=92.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccc--------------cC-----------------CCCccceeeEEEEEE
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKS--------------RA-----------------SSSGVTSTCEMQRTV   64 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~--------------~~-----------------~~~~~t~~~~~~~~~   64 (173)
                      +....+++-+|+.-.||||||-.|+-......              +.                 ...+.|.+..+....
T Consensus         3 ~k~lLRfiTcGSVDDGKSTLIGRLL~Dtk~i~eDQla~l~~dS~~~~t~g~~~D~ALLvDGL~AEREQGITIDVAYRyFs   82 (431)
T COG2895           3 HKSLLRFITCGSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGITIDVAYRYFS   82 (431)
T ss_pred             cccceeEEEeccccCcchhhhhhhhhcchhhhHHHHHHHhcccccccCCCCccchhhhhhhhHHHHhcCceEEEEeeecc
Confidence            44568999999999999999988865332110              00                 113778888877777


Q ss_pred             eeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEE
Q 043441           65 LKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVF  144 (173)
Q Consensus        65 ~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~  144 (173)
                      . ..+.+++.||||..+           +.+-+..-..-+|+.|+++|+...+- ++....-.|..+++-   .++++++
T Consensus        83 T-~KRkFIiADTPGHeQ-----------YTRNMaTGASTadlAIlLVDAR~Gvl-~QTrRHs~I~sLLGI---rhvvvAV  146 (431)
T COG2895          83 T-EKRKFIIADTPGHEQ-----------YTRNMATGASTADLAILLVDARKGVL-EQTRRHSFIASLLGI---RHVVVAV  146 (431)
T ss_pred             c-ccceEEEecCCcHHH-----------HhhhhhcccccccEEEEEEecchhhH-HHhHHHHHHHHHhCC---cEEEEEE
Confidence            7 888999999999663           22222245667799999999973333 233445557777765   7899999


Q ss_pred             eCCCCCCCCcccHHHHhc
Q 043441          145 TGGDELEDNEETLEDYLG  162 (173)
Q Consensus       145 tk~D~~~~~~~~~~~~~~  162 (173)
                      ||+|+.+.+.+..++..+
T Consensus       147 NKmDLvdy~e~~F~~I~~  164 (431)
T COG2895         147 NKMDLVDYSEEVFEAIVA  164 (431)
T ss_pred             eeecccccCHHHHHHHHH
Confidence            999999987666665544

>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.20  E-value=1.3e-09  Score=71.14  Aligned_cols=128  Identities=13%  Similarity=0.127  Sum_probs=90.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+++.+|-.+|||||++-.|.-...     .....|.......+.+ ++..+.+||.-|..           .++..
T Consensus        15 ~KE~~ilmlGLd~aGKTtiLyKLkl~~~-----~~~ipTvGFnvetVty-kN~kfNvwdvGGqd-----------~iRpl   77 (180)
T KOG0071|consen   15 NKEMRILMLGLDAAGKTTILYKLKLGQS-----VTTIPTVGFNVETVTY-KNVKFNVWDVGGQD-----------KIRPL   77 (180)
T ss_pred             cccceEEEEecccCCceehhhHHhcCCC-----cccccccceeEEEEEe-eeeEEeeeeccCch-----------hhhHH
Confidence            3468999999999999999988764331     2233455666667777 88999999988844           67777


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc--ccceEEEEEeCCCCCCCCc-ccHHHHhcc
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK--VFDYMIVVFTGGDELEDNE-ETLEDYLGR  163 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~~~-~~~~~~~~~  163 (173)
                      +..++.+..++|||+|..++  ..-...-+++..+.+.+  -..+++|+.||-|+.+... ..+.++++-
T Consensus        78 WrhYy~gtqglIFV~Dsa~~--dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~A~~pqei~d~leL  145 (180)
T KOG0071|consen   78 WRHYYTGTQGLIFVVDSADR--DRIEEARNELHRIINDREMRDAIILILANKQDLPDAMKPQEIQDKLEL  145 (180)
T ss_pred             HHhhccCCceEEEEEeccch--hhHHHHHHHHHHHhCCHhhhcceEEEEecCcccccccCHHHHHHHhcc
Confidence            88899999999999999855  22233444455554443  2247889999999987632 345555543

>cd01858 NGP_1 NGP-1

Probab=99.19  E-value=7.8e-11  Score=80.40  Aligned_cols=57  Identities=25%  Similarity=0.321  Sum_probs=40.6

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   79 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~   79 (173)
                      ...+++++|.+|+|||||+|+|.+......+.. .+.|.......    .+..+.++||||+
T Consensus       101 ~~~~v~~~G~~nvGKStliN~l~~~~~~~~~~~-~g~T~~~~~~~----~~~~~~liDtPGi  157 (157)
T cd01858         101 KQISVGFIGYPNVGKSSIINTLRSKKVCKVAPI-PGETKVWQYIT----LMKRIYLIDCPGV  157 (157)
T ss_pred             cceEEEEEeCCCCChHHHHHHHhcCCceeeCCC-CCeeEeEEEEE----cCCCEEEEECcCC
Confidence            356889999999999999999999765444432 33444443322    2345899999995

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=99.19  E-value=5.2e-10  Score=85.80  Aligned_cols=132  Identities=14%  Similarity=0.111  Sum_probs=80.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCC----CCccc---------c-CCCCc---cceeeEE---EEEEeeCC----ceE
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGR----RAFKS---------R-ASSSG---VTSTCEM---QRTVLKDG----QVV   71 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~----~~~~~---------~-~~~~~---~t~~~~~---~~~~~~~~----~~~   71 (173)
                      ......+.++|+.++|||||||++++.    +....         - .+..+   .|++..+   ...+....    .++
T Consensus        14 T~G~IyIGvvGpvrtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~~~~~~~~V   93 (492)
T TIGR02836        14 TQGDIYIGVVGPVRTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEININEGTKFKV   93 (492)
T ss_pred             hCCcEEEEEEcCCCCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEeccCCCcccE
Confidence            345678999999999999999999987    32100         0 11223   4555544   33332223    589


Q ss_pred             EEEeCCCCCCCCCCcHHHHHH--------------HHH-----HHHhccCCceEEEEEe-ecC------CCCCHHHHHHH
Q 043441           72 NVIDTPGLFDFSAGSEFVGME--------------IVK-----CIGLAKDGIHAVLVGF-SVR------SRFPQEEEAAL  125 (173)
Q Consensus        72 ~v~DtpG~~~~~~~~~~~~~~--------------~~~-----~~~~~~~~~~~ii~v~-~~~------~~~~~~~~~~~  125 (173)
                      +++||+|+.+...--..-...              +..     .-+.....++..++|. |.+      +.....+..++
T Consensus        94 rlIDcvG~~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i  173 (492)
T TIGR02836        94 RLVDCVGYTVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVI  173 (492)
T ss_pred             EEEECCCcccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCCccccccccchHHHHHHH
Confidence            999999999754311111111              111     1112233567767766 663      34555567887


Q ss_pred             HHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          126 HSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       126 ~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +.+++.     ..|+++|+|+.|....
T Consensus       174 ~eLk~~-----~kPfiivlN~~dp~~~  195 (492)
T TIGR02836       174 EELKEL-----NKPFIILLNSTHPYHP  195 (492)
T ss_pred             HHHHhc-----CCCEEEEEECcCCCCc
Confidence            777775     2899999999997644

A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.19  E-value=6.7e-10  Score=87.10  Aligned_cols=119  Identities=15%  Similarity=0.192  Sum_probs=93.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ++++.|.++|-.-.|||||+.+|-+......  ...+.|...-...+..+.+..++|.||||.--+        ..|+  
T Consensus       151 ~RpPVVTiMGHVDHGKTTLLD~lRks~VAA~--E~GGITQhIGAF~V~~p~G~~iTFLDTPGHaAF--------~aMR--  218 (683)
T KOG1145|consen  151 PRPPVVTIMGHVDHGKTTLLDALRKSSVAAG--EAGGITQHIGAFTVTLPSGKSITFLDTPGHAAF--------SAMR--  218 (683)
T ss_pred             CCCCeEEEeecccCChhhHHHHHhhCceehh--hcCCccceeceEEEecCCCCEEEEecCCcHHHH--------HHHH--
Confidence            5789999999999999999999988765333  345677777777777778999999999996532        2222  


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                       ..-..-.|.+++|+.+.|..-+...+.++..++.     ..|+++++||+|+...+
T Consensus       219 -aRGA~vtDIvVLVVAadDGVmpQT~EaIkhAk~A-----~VpiVvAinKiDkp~a~  269 (683)
T KOG1145|consen  219 -ARGANVTDIVVLVVAADDGVMPQTLEAIKHAKSA-----NVPIVVAINKIDKPGAN  269 (683)
T ss_pred             -hccCccccEEEEEEEccCCccHhHHHHHHHHHhc-----CCCEEEEEeccCCCCCC
Confidence             2345566899999999888887777777777764     38999999999998764

>PRK12740 elongation factor G; Reviewed

Probab=99.19  E-value=3.5e-10  Score=93.57  Aligned_cols=111  Identities=23%  Similarity=0.259  Sum_probs=73.9

Q ss_pred             EcCCCCCHHHHHHHHhCCCCcccc---C-------------CCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHH
Q 043441           25 VGRTGNGKSATGNSILGRRAFKSR---A-------------SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEF   88 (173)
Q Consensus        25 vG~~g~GKStlin~l~~~~~~~~~---~-------------~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~   88 (173)
                      +|..++|||||++.|+........   .             ...+.|.........+ .+..+.+|||||..+.      
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~-~~~~i~liDtPG~~~~------   73 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEW-KGHKINLIDTPGHVDF------   73 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEE-CCEEEEEEECCCcHHH------
Confidence            589999999999999543221100   0             0124455555556666 7889999999997631      


Q ss_pred             HHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           89 VGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                       ..+.    ...+..+|++++++|++..........++.+...     ..|+++++||+|....
T Consensus        74 -~~~~----~~~l~~aD~vllvvd~~~~~~~~~~~~~~~~~~~-----~~p~iiv~NK~D~~~~  127 (668)
T PRK12740         74 -TGEV----ERALRVLDGAVVVVCAVGGVEPQTETVWRQAEKY-----GVPRIIFVNKMDRAGA  127 (668)
T ss_pred             -HHHH----HHHHHHhCeEEEEEeCCCCcCHHHHHHHHHHHHc-----CCCEEEEEECCCCCCC
Confidence             1122    2345567999999999866665555555444332     2689999999998865

>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.17  E-value=4.7e-10  Score=73.31  Aligned_cols=132  Identities=14%  Similarity=0.119  Sum_probs=90.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      +...+.+++|.-|+|||.|+..++.+..........+.....+...+.. ....+++|||.|           .++++..
T Consensus         9 syifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriievsg-qkiklqiwdtag-----------qerfrav   76 (215)
T KOG0097|consen    9 SYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSG-QKIKLQIWDTAG-----------QERFRAV   76 (215)
T ss_pred             hheEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecC-cEEEEEEeeccc-----------HHHHHHH
Confidence            4567889999999999999999887764444444444444444555544 567899999999           3467777


Q ss_pred             HHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHHHhc
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLG  162 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~  162 (173)
                      ..++++++-+.+.|.|++.+-+-+ ...|+-..+.+...  ..-++++.||.|+-..+..+.++.-+
T Consensus        77 trsyyrgaagalmvyditrrstynhlsswl~dar~ltnp--nt~i~lignkadle~qrdv~yeeak~  141 (215)
T KOG0097|consen   77 TRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNP--NTVIFLIGNKADLESQRDVTYEEAKE  141 (215)
T ss_pred             HHHHhccccceeEEEEehhhhhhhhHHHHHhhhhccCCC--ceEEEEecchhhhhhcccCcHHHHHH
Confidence            778999999999999998333322 23454444444222  24567888999987665566665443

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.16  E-value=1.3e-09  Score=84.54  Aligned_cols=89  Identities=18%  Similarity=0.069  Sum_probs=57.4

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEe--------------------e---CCceEEEEeC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL--------------------K---DGQVVNVIDT   76 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~--------------------~---~~~~~~v~Dt   76 (173)
                      .+|+++|.+++|||||+|+|++.....  ...+..|..........                    .   ....+.++||
T Consensus         2 ~kigivG~pnvGKSTlfn~Lt~~~~~~--~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~   79 (396)
T PRK09602          2 ITIGLVGKPNVGKSTFFNAATLADVEI--ANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDV   79 (396)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCcccc--cCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEc
Confidence            479999999999999999999876422  12222332222211110                    0   1245789999


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecC
Q 043441           77 PGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVR  114 (173)
Q Consensus        77 pG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~  114 (173)
                      ||+.......+.+..++.+    ..+.+|++++|+++.
T Consensus        80 aGl~~ga~~g~glg~~fL~----~ir~ad~ll~Vvd~~  113 (396)
T PRK09602         80 AGLVPGAHEGRGLGNQFLD----DLRQADALIHVVDAS  113 (396)
T ss_pred             CCcCCCccchhhHHHHHHH----HHHHCCEEEEEEeCC
Confidence            9998754433444444443    355679999999996

>KOG3883 consensus Ras family small GTPase [Signal transduction mechanisms]

Probab=99.14  E-value=1.2e-09  Score=72.32  Aligned_cols=121  Identities=17%  Similarity=0.073  Sum_probs=76.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHh-CCCCccccCCCCccceeeEEEEEEee--CCceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSIL-GRRAFKSRASSSGVTSTCEMQRTVLK--DGQVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~-~~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      ...++++++|.-++|||+++..|+ |.........+....+.  ...++..  ....+.++||.|+...+.   ++-   
T Consensus         7 Gk~~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiEDiY--~~svet~rgarE~l~lyDTaGlq~~~~---eLp---   78 (198)
T KOG3883|consen    7 GKVCKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIEDIY--VASVETDRGAREQLRLYDTAGLQGGQQ---ELP---   78 (198)
T ss_pred             CcceEEEEECCccccHHHHHHHHHhccCCCCCccccchhhhe--eEeeecCCChhheEEEeecccccCchh---hhh---
Confidence            346899999999999999997765 54443333322211222  2222221  335789999999987421   111   


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHH---cccccceEEEEEeCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLF---GKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~~~iv~tk~D~~~~  152 (173)
                          +.++.-+|++++|.+..+.   ++.+.++.|+...   ..+...|++++.|+.|+.++
T Consensus        79 ----rhy~q~aDafVLVYs~~d~---eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p  133 (198)
T KOG3883|consen   79 ----RHYFQFADAFVLVYSPMDP---ESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEP  133 (198)
T ss_pred             ----HhHhccCceEEEEecCCCH---HHHHHHHHHHHHHhhccccccccEEEEechhhcccc
Confidence                2466677999999887633   3444444454433   23344699999999999755

>KOG0083 consensus GTPase Rab26/Rab37, small G protein superfamily [General function prediction only]

Probab=99.13  E-value=1.9e-11  Score=79.01  Aligned_cols=116  Identities=11%  Similarity=0.096  Sum_probs=77.2

Q ss_pred             EEEcCCCCCHHHHHHHHhCCCCcccc-CCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhcc
Q 043441           23 VFVGRTGNGKSATGNSILGRRAFKSR-ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAK  101 (173)
Q Consensus        23 ~lvG~~g~GKStlin~l~~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~  101 (173)
                      +++|.++.|||.++-..-........ .+..+.....+...... +...+++|||.|.           +++++....++
T Consensus         1 mllgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~-~kvklqiwdtagq-----------erfrsvt~ayy   68 (192)
T KOG0083|consen    1 MLLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDD-KKVKLQIWDTAGQ-----------ERFRSVTHAYY   68 (192)
T ss_pred             CccccCccCceEEEEEeccCceecCceeeeeeeccccceeccCC-cEEEEEEeeccch-----------HHHhhhhHhhh
Confidence            47899999999876443221111111 12222222222233322 4457999999994           46777778899


Q ss_pred             CCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          102 DGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       102 ~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +.+|+++++.|+.++.+-+. ..|+..|.+--...  ..++++.||+|+..+
T Consensus        69 rda~allllydiankasfdn~~~wlsei~ey~k~~--v~l~llgnk~d~a~e  118 (192)
T KOG0083|consen   69 RDADALLLLYDIANKASFDNCQAWLSEIHEYAKEA--VALMLLGNKCDLAHE  118 (192)
T ss_pred             cccceeeeeeecccchhHHHHHHHHHHHHHHHHhh--HhHhhhccccccchh
Confidence            99999999999986766554 57777777764443  678999999998754

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.13  E-value=2.5e-09  Score=83.87  Aligned_cols=119  Identities=16%  Similarity=0.153  Sum_probs=91.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee--CCceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK--DGQVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      .+.+.|.++|---.|||||+..|-+.+....  ...+.|...-.+.....  ....+.|+||||+..+.        .|+
T Consensus         3 ~R~PvVtimGHVDHGKTtLLD~IR~t~Va~~--EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeAFt--------~mR   72 (509)
T COG0532           3 LRPPVVTIMGHVDHGKTTLLDKIRKTNVAAG--EAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEAFT--------AMR   72 (509)
T ss_pred             CCCCEEEEeCcccCCccchhhhHhcCccccc--cCCceeeEeeeEEEEeccCCCceEEEEcCCcHHHHH--------HHH
Confidence            4678999999999999999999988776333  34567777777777764  34789999999966421        111


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                         ..-..=+|..++|+++.+.+-+...+.++.++..     ..|+++++||+|+.+.+
T Consensus        73 ---aRGa~vtDIaILVVa~dDGv~pQTiEAI~hak~a-----~vP~iVAiNKiDk~~~n  123 (509)
T COG0532          73 ---ARGASVTDIAILVVAADDGVMPQTIEAINHAKAA-----GVPIVVAINKIDKPEAN  123 (509)
T ss_pred             ---hcCCccccEEEEEEEccCCcchhHHHHHHHHHHC-----CCCEEEEEecccCCCCC
Confidence               2234456899999999989888888888877775     28999999999999764

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=99.13  E-value=6e-11  Score=80.51  Aligned_cols=65  Identities=29%  Similarity=0.340  Sum_probs=37.6

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCC----CCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRAS----SSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAG   85 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~----~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~   85 (173)
                      ..+++++|++|+|||||+|+|++......+..    ..+..+.....-+.+  .....++||||+.+....
T Consensus        35 ~k~~vl~G~SGvGKSSLiN~L~~~~~~~t~~is~~~~rGkHTTt~~~l~~l--~~g~~iIDTPGf~~~~l~  103 (161)
T PF03193_consen   35 GKTSVLLGQSGVGKSSLINALLPEAKQKTGEISEKTGRGKHTTTHRELFPL--PDGGYIIDTPGFRSFGLW  103 (161)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHTSS----S--------------SEEEEEE--TTSEEEECSHHHHT--GC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhcchhhhhhhcccCCCcccCCCeeEEec--CCCcEEEECCCCCccccc
Confidence            38999999999999999999999755443321    112222112222222  335689999999986543

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=99.13  E-value=2.1e-10  Score=79.37  Aligned_cols=58  Identities=33%  Similarity=0.397  Sum_probs=43.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   79 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~   79 (173)
                      ....+++++|.+++|||||+|+|++......+. .++.|...+....    +..+.++||||+
T Consensus       115 ~~~~~~~~vG~pnvGKSslin~l~~~~~~~~~~-~pg~T~~~~~~~~----~~~~~l~DtPGi  172 (172)
T cd04178         115 KTSITVGVVGFPNVGKSSLINSLKRSRACNVGA-TPGVTKSMQEVHL----DKKVKLLDSPGI  172 (172)
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCcccceecC-CCCeEcceEEEEe----CCCEEEEECcCC
Confidence            345799999999999999999999987654443 3455555444332    356899999995

Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.12  E-value=1.5e-09  Score=85.59  Aligned_cols=122  Identities=16%  Similarity=0.166  Sum_probs=75.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCc--------------cc---------------cCCCCccceeeEEEEEEee
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAF--------------KS---------------RASSSGVTSTCEMQRTVLK   66 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~--------------~~---------------~~~~~~~t~~~~~~~~~~~   66 (173)
                      ..+..+++++|..++|||||+-+|+.....              ..               .-...+.|.......... 
T Consensus         4 ~k~~~ni~i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~~~~~~~~-   82 (447)
T PLN00043          4 EKVHINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDIALWKFET-   82 (447)
T ss_pred             CCceEEEEEEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEEEEEEecC-
Confidence            345688999999999999999887631100              00               001235566666666666 


Q ss_pred             CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCC-CCH---HHHHHHHHHHHHHcccccceEEE
Q 043441           67 DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSR-FPQ---EEEAALHSWQTLFGKKVFDYMIV  142 (173)
Q Consensus        67 ~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~-~~~---~~~~~~~~l~~~~~~~~~~~~~i  142 (173)
                      ++..+.++||||..           ++.......+..+|+.++|+++.+. +..   ...++.+.+.-.. .....++++
T Consensus        83 ~~~~i~liDtPGh~-----------df~~~~~~g~~~aD~aIlVVda~~G~~e~g~~~~~qT~eh~~~~~-~~gi~~iIV  150 (447)
T PLN00043         83 TKYYCTVIDAPGHR-----------DFIKNMITGTSQADCAVLIIDSTTGGFEAGISKDGQTREHALLAF-TLGVKQMIC  150 (447)
T ss_pred             CCEEEEEEECCCHH-----------HHHHHHHhhhhhccEEEEEEEcccCceecccCCCchHHHHHHHHH-HcCCCcEEE
Confidence            67789999999965           3443444556788999999999743 210   0112222222111 111146789


Q ss_pred             EEeCCCCC
Q 043441          143 VFTGGDEL  150 (173)
Q Consensus       143 v~tk~D~~  150 (173)
                      ++||+|+.
T Consensus       151 ~vNKmD~~  158 (447)
T PLN00043        151 CCNKMDAT  158 (447)
T ss_pred             EEEcccCC
Confidence            99999976

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.12  E-value=2.2e-09  Score=81.82  Aligned_cols=132  Identities=19%  Similarity=0.244  Sum_probs=85.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCC-Cccc-------------c---------------CCCCccceeeEEEEEEee
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRR-AFKS-------------R---------------ASSSGVTSTCEMQRTVLK   66 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~-~~~~-------------~---------------~~~~~~t~~~~~~~~~~~   66 (173)
                      ..+..+++++|...+||||++-.|+-.. ..+.             +               -...+.|........+. 
T Consensus         4 ~Kph~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~~~fet-   82 (428)
T COG5256           4 EKPHLNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTIDVAHSKFET-   82 (428)
T ss_pred             CCCceEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcceEEEEEEEEeec-
Confidence            4567899999999999999997774211 1000             0               01236677766666666 


Q ss_pred             CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCC-------CCHHHHHHHHHHHHHHcccccce
Q 043441           67 DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSR-------FPQEEEAALHSWQTLFGKKVFDY  139 (173)
Q Consensus        67 ~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~  139 (173)
                      +...+.++|+||..++       .+++.    ....-+|+.++|+++...       ..... ...-.|...++   ..+
T Consensus        83 ~k~~~tIiDaPGHrdF-------vknmI----tGasqAD~aVLVV~a~~~efE~g~~~~gQt-rEH~~La~tlG---i~~  147 (428)
T COG5256          83 DKYNFTIIDAPGHRDF-------VKNMI----TGASQADVAVLVVDARDGEFEAGFGVGGQT-REHAFLARTLG---IKQ  147 (428)
T ss_pred             CCceEEEeeCCchHHH-------HHHhh----cchhhccEEEEEEECCCCccccccccCCch-hHHHHHHHhcC---Cce
Confidence            6678999999996542       33333    344556999999999743       11111 12222334434   378


Q ss_pred             EEEEEeCCCCCCCCcccHHHHhcc
Q 043441          140 MIVVFTGGDELEDNEETLEDYLGR  163 (173)
Q Consensus       140 ~~iv~tk~D~~~~~~~~~~~~~~~  163 (173)
                      .++++||+|...-+.+.+++.+..
T Consensus       148 lIVavNKMD~v~wde~rf~ei~~~  171 (428)
T COG5256         148 LIVAVNKMDLVSWDEERFEEIVSE  171 (428)
T ss_pred             EEEEEEcccccccCHHHHHHHHHH
Confidence            999999999998766666665554

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=99.12  E-value=6.4e-10  Score=89.04  Aligned_cols=133  Identities=20%  Similarity=0.200  Sum_probs=91.9

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC----------------------------------------cc-ce
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSS----------------------------------------GV-TS   56 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~----------------------------------------~~-t~   56 (173)
                      ...+|++.|.+.+||||++|+++-....+++..+.                                        .. ..
T Consensus       108 ~~mKV~ifGrts~GKSt~iNAmL~~klLP~g~gh~TncF~~VegadG~e~vl~~~~s~ek~d~~ti~~~~haL~~~~~~~  187 (749)
T KOG0448|consen  108 RHMKVAIFGRTSAGKSTVINAMLHKKLLPSGIGHTTNCFLEVEGADGAEAVLATEGSEEKIDMKTINQLAHALKPDKDLG  187 (749)
T ss_pred             cccEEEEeCCCCCcHHHHHHHHHHHhhCcccccccceeeeeecccCCcceeeccCCCcccccHHHHhHHHHhcCcccccC
Confidence            44789999999999999999999877666554221                                        00 00


Q ss_pred             eeEEEEEEeeCC------ceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHH
Q 043441           57 TCEMQRTVLKDG------QVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQT  130 (173)
Q Consensus        57 ~~~~~~~~~~~~------~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~  130 (173)
                      ......+.++++      ..+.++|.||+.-.        .+...++..+..++|+++||+++.+.++..+++.+....+
T Consensus       188 ~~sLlrV~~p~~~csLLrnDivliDsPGld~~--------se~tswid~~cldaDVfVlV~NaEntlt~sek~Ff~~vs~  259 (749)
T KOG0448|consen  188 AGSLLRVFWPDDKCSLLRNDIVLIDSPGLDVD--------SELTSWIDSFCLDADVFVLVVNAENTLTLSEKQFFHKVSE  259 (749)
T ss_pred             cceEEEEEecCccchhhhccceeccCCCCCCc--------hhhhHHHHHHhhcCCeEEEEecCccHhHHHHHHHHHHhhc
Confidence            011112222122      36899999999863        2444555567778999999999988888888888766665


Q ss_pred             HHcccccceEEEEEeCCCCCCCCcccHHHHhcc
Q 043441          131 LFGKKVFDYMIVVFTGGDELEDNEETLEDYLGR  163 (173)
Q Consensus       131 ~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~  163 (173)
                      .     +.+++|+.||+|......+-.++..++
T Consensus       260 ~-----KpniFIlnnkwDasase~ec~e~V~~Q  287 (749)
T KOG0448|consen  260 E-----KPNIFILNNKWDASASEPECKEDVLKQ  287 (749)
T ss_pred             c-----CCcEEEEechhhhhcccHHHHHHHHHH
Confidence            4     378999999999987754444444444

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.12  E-value=9.9e-10  Score=82.87  Aligned_cols=87  Identities=17%  Similarity=0.080  Sum_probs=54.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEe-----------------------eCCceEEEEeCCC
Q 043441           22 VVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-----------------------KDGQVVNVIDTPG   78 (173)
Q Consensus        22 i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~-----------------------~~~~~~~v~DtpG   78 (173)
                      ++++|.+++|||||+|+|++......  ..+..|..........                       .....+.++||||
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~~~~--~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aG   78 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADVEIA--NYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAG   78 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCCccc--CCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCC
Confidence            57999999999999999998763111  1122222222211110                       0224689999999


Q ss_pred             CCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecC
Q 043441           79 LFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVR  114 (173)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~  114 (173)
                      +.........+..++.    ..++.+|++++|+++.
T Consensus        79 lv~ga~~~~glg~~fL----~~ir~aD~ii~Vvd~~  110 (318)
T cd01899          79 LVPGAHEGKGLGNKFL----DDLRDADALIHVVDAS  110 (318)
T ss_pred             CCCCccchhhHHHHHH----HHHHHCCEEEEEEeCC
Confidence            9765433333334444    3456779999999996

Ygr210 is a member of Obg-like family and present in archaea and fungi. They are characterized by a distinct glycine-rich motif immediately following the Walker B motif. The Ygr210 and YyaF/YchF subfamilies appear to form one major branch of the Obg-like family. Among eukaryotes, the Ygr210 subfamily is represented only in fungi. These fungal proteins form a tight cluster with their archaeal orthologs, which suggests the possibility of horizontal transfer from archaea to fungi.

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=99.12  E-value=8.4e-10  Score=87.00  Aligned_cols=130  Identities=15%  Similarity=0.108  Sum_probs=86.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      .....||+|+|.-|+||||||.+|+.....+.-. .........  .-..+.+....++||.--.+   ....+.+    
T Consensus         6 t~kdVRIvliGD~G~GKtSLImSL~~eef~~~VP-~rl~~i~IP--advtPe~vpt~ivD~ss~~~---~~~~l~~----   75 (625)
T KOG1707|consen    6 TLKDVRIVLIGDEGVGKTSLIMSLLEEEFVDAVP-RRLPRILIP--ADVTPENVPTSIVDTSSDSD---DRLCLRK----   75 (625)
T ss_pred             CccceEEEEECCCCccHHHHHHHHHhhhcccccc-ccCCccccC--CccCcCcCceEEEecccccc---hhHHHHH----
Confidence            3456899999999999999999999988533322 111111111  11122555688999984322   1222232    


Q ss_pred             HHHhccCCceEEEEEeecCCCC--CHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHH
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRF--PQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLED  159 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~  159 (173)
                          ..+++|++.++...++.-  +.-...|+-.+++.++.....|+++|.||+|..+....+.++
T Consensus        76 ----EirkA~vi~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~s~e~  137 (625)
T KOG1707|consen   76 ----EIRKADVICLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENNSDEV  137 (625)
T ss_pred             ----HHhhcCEEEEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCccccccchhH
Confidence                344668888887666322  233578888899998887889999999999999886554444

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=99.10  E-value=9e-09  Score=74.23  Aligned_cols=71  Identities=25%  Similarity=0.247  Sum_probs=49.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCC-CCccccCCCCccceeeEEEEEEee--CCceEEEEeCCCCCCCCCCc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGR-RAFKSRASSSGVTSTCEMQRTVLK--DGQVVNVIDTPGLFDFSAGS   86 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~-~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~~v~DtpG~~~~~~~~   86 (173)
                      ..+...|.++|++++|||||+|.|++. ..|..+......|...-.......  .+..++++||||+.+.....
T Consensus         4 ~~~v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~~~~~~~v~~lDteG~~~~~~~~   77 (224)
T cd01851           4 GFPVAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFKLGKEHAVLLLDTEGTDGRERGE   77 (224)
T ss_pred             CCCEEEEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEeccccCCCcceEEEEecCCcCccccCc
Confidence            346678999999999999999999998 245545444445544333333221  25789999999999865433

Guanylate-binding proteins (GBPs) define a group of proteins that are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. Furthermore, two unique regions around the base and the phosphate-binding areas, the guanine and the phosphate caps, respectively, give the nucleotide-binding site a unique appearance not found in the canonical GTP-binding proteins. The phosphate cap, which constitutes the region analogous to switch I, completely shields the phosphate-binding site from solvent such that a potential GTPase-activating protein

>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]

Probab=99.10  E-value=1.5e-09  Score=85.43  Aligned_cols=134  Identities=19%  Similarity=0.163  Sum_probs=100.0

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCC-------------------------------------------
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASS-------------------------------------------   51 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~-------------------------------------------   51 (173)
                      ....-++|++||...+||||.+.++.....|+-|...                                           
T Consensus       304 t~DhLPRVVVVGDQSaGKTSVLEmiAqARIFPRGSGEMMTRaPVKVTLsEGPyHVAqFrDSsREfDLTKE~DLq~LR~e~  383 (980)
T KOG0447|consen  304 TQDHLPRVVVVGDQSAGKTSVLEMIAQARIFPRGSGEMMTRSPVKVTLSEGPHHVALFKDSSREFDLTKEEDLAALRHEI  383 (980)
T ss_pred             ccccCceEEEEcCccccchHHHHHHHHhccCcCCCcceeccCCeEEEeccCcchhhhhccccccccccchhHHHHHHHHH
Confidence            3456789999999999999999999888777655311                                           


Q ss_pred             ---------CccceeeEEEEEEeeCC---ceEEEEeCCCCCCCC--CCcHHHHHHHHHHHHhccCCceEEEEEeecCCCC
Q 043441           52 ---------SGVTSTCEMQRTVLKDG---QVVNVIDTPGLFDFS--AGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRF  117 (173)
Q Consensus        52 ---------~~~t~~~~~~~~~~~~~---~~~~v~DtpG~~~~~--~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~  117 (173)
                               .+.|.......... ++   .+++++|.||+..+-  .....+...+.++.+.+..++++||+|++.. ..
T Consensus       384 E~RMr~sVr~GkTVSnEvIsltV-KGPgLqRMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDG-SV  461 (980)
T KOG0447|consen  384 ELRMRKNVKEGCTVSPETISLNV-KGPGLQRMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDG-SV  461 (980)
T ss_pred             HHHHHhcccCCcccccceEEEee-cCCCcceeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccC-Cc
Confidence                     13444444444444 33   478999999999753  2345566778888889999999999999988 77


Q ss_pred             CHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          118 PQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       118 ~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +.+-..+-+.....-+.  ...+++|+||.|+.+.
T Consensus       462 DAERSnVTDLVsq~DP~--GrRTIfVLTKVDlAEk  494 (980)
T KOG0447|consen  462 DAERSIVTDLVSQMDPH--GRRTIFVLTKVDLAEK  494 (980)
T ss_pred             chhhhhHHHHHHhcCCC--CCeeEEEEeecchhhh
Confidence            77777777767665333  3789999999998865

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=99.10  E-value=2.7e-10  Score=82.53  Aligned_cols=77  Identities=19%  Similarity=0.119  Sum_probs=44.7

Q ss_pred             eEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHH--H-HHcccccceEEEEEeC
Q 043441           70 VVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQ--T-LFGKKVFDYMIVVFTG  146 (173)
Q Consensus        70 ~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~--~-~~~~~~~~~~~iv~tk  146 (173)
                      ..+++||||..+.- .+...+.-+...+...  .+.++++++|.. +-+...-.+-+.+.  . ++.  -+.|+++|+||
T Consensus       117 ~~~liDTPGQIE~F-tWSAsGsIIte~lass--~ptvv~YvvDt~-rs~~p~tFMSNMlYAcSilyk--tklp~ivvfNK  190 (366)
T KOG1532|consen  117 DYVLIDTPGQIEAF-TWSASGSIITETLASS--FPTVVVYVVDTP-RSTSPTTFMSNMLYACSILYK--TKLPFIVVFNK  190 (366)
T ss_pred             CEEEEcCCCceEEE-EecCCccchHhhHhhc--CCeEEEEEecCC-cCCCchhHHHHHHHHHHHHHh--ccCCeEEEEec
Confidence            48999999988641 2222222233333333  457889999986 33333222222222  2 222  23899999999


Q ss_pred             CCCCCC
Q 043441          147 GDELED  152 (173)
Q Consensus       147 ~D~~~~  152 (173)
                      .|..+.
T Consensus       191 ~Dv~d~  196 (366)
T KOG1532|consen  191 TDVSDS  196 (366)
T ss_pred             cccccc
Confidence            998865

>PRK07560 elongation factor EF-2; Reviewed

Probab=99.10  E-value=3.3e-10  Score=94.33  Aligned_cols=121  Identities=19%  Similarity=0.295  Sum_probs=76.5

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccC--------------CCCccceeeEEEEEEe--e-CCceEEEEeCC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA--------------SSSGVTSTCEMQRTVL--K-DGQVVNVIDTP   77 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~--------------~~~~~t~~~~~~~~~~--~-~~~~~~v~Dtp   77 (173)
                      ..++.++|+++|..++|||||+.+|+.........              ...+.|.........+  . .+..+.++|||
T Consensus        16 ~~~~iRni~iigh~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~i~liDtP   95 (731)
T PRK07560         16 NPEQIRNIGIIAHIDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDTP   95 (731)
T ss_pred             chhcccEEEEEEeCCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEEEecCCcEEEEEEcCC
Confidence            35677899999999999999999997532111100              0012222222222211  1 34578899999


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           78 GLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        78 G~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      |+.++       ..+..    ...+.+|++++|+|+........+..++...+.   .  .|.++++||+|+..
T Consensus        96 G~~df-------~~~~~----~~l~~~D~avlVvda~~g~~~~t~~~~~~~~~~---~--~~~iv~iNK~D~~~  153 (731)
T PRK07560         96 GHVDF-------GGDVT----RAMRAVDGAIVVVDAVEGVMPQTETVLRQALRE---R--VKPVLFINKVDRLI  153 (731)
T ss_pred             CccCh-------HHHHH----HHHHhcCEEEEEEECCCCCCccHHHHHHHHHHc---C--CCeEEEEECchhhc
Confidence            98863       22333    345566999999999867766666655544332   2  56799999999873

>KOG0393 consensus Ras-related small GTPase, Rho type [General function prediction only]

Probab=99.10  E-value=2.4e-10  Score=79.66  Aligned_cols=120  Identities=19%  Similarity=0.082  Sum_probs=82.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ...++++||..++|||+++-..+... |.....+.-.........+.......+.+|||.|..+.        .+++   
T Consensus         3 ~~~K~VvVGDga~GKT~ll~~~t~~~-fp~~yvPTVFdnys~~v~V~dg~~v~L~LwDTAGqedY--------DrlR---   70 (198)
T KOG0393|consen    3 RRIKCVVVGDGAVGKTCLLISYTTNA-FPEEYVPTVFDNYSANVTVDDGKPVELGLWDTAGQEDY--------DRLR---   70 (198)
T ss_pred             eeeEEEEECCCCcCceEEEEEeccCc-CcccccCeEEccceEEEEecCCCEEEEeeeecCCCccc--------cccc---
Confidence            34789999999999999998877653 55555543332222222221113457899999998874        1222   


Q ss_pred             HhccCCceEEEEEeecCCCCCHH--HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQE--EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      -.+++.+|++++|++..++.+-+  ...|+-+++...+.   .|+++|.||.|+.++
T Consensus        71 plsY~~tdvfl~cfsv~~p~S~~nv~~kW~pEi~~~cp~---vpiiLVGtk~DLr~d  124 (198)
T KOG0393|consen   71 PLSYPQTDVFLLCFSVVSPESFENVKSKWIPEIKHHCPN---VPIILVGTKADLRDD  124 (198)
T ss_pred             ccCCCCCCEEEEEEEcCChhhHHHHHhhhhHHHHhhCCC---CCEEEEeehHHhhhC
Confidence            13788999999999987555444  35677777766543   899999999999854

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=99.09  E-value=3e-09  Score=87.34  Aligned_cols=121  Identities=21%  Similarity=0.295  Sum_probs=87.2

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccc---cC-------------CCCccceeeEEEEEEeeCC-ceEEEEeCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKS---RA-------------SSSGVTSTCEMQRTVLKDG-QVVNVIDTPG   78 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~---~~-------------~~~~~t~~~~~~~~~~~~~-~~~~v~DtpG   78 (173)
                      ....+++.++|...+||||+..+|+-..-..+   ..             ...+.|.........+ .+ ..+.+|||||
T Consensus         7 ~~~~RNigI~aHidaGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~~-~~~~~iNlIDTPG   85 (697)
T COG0480           7 LERIRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLFW-KGDYRINLIDTPG   85 (697)
T ss_pred             cccceEEEEEeccCCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEEEE-cCceEEEEeCCCC
Confidence            56678999999999999999988864221111   11             1136677777777788 64 8999999999


Q ss_pred             CCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           79 LFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      +.++.       .+..+.+..    +|+.++|+++.........-..+...+.   .  .|.++++||+|++..+
T Consensus        86 HVDFt-------~EV~rslrv----lDgavvVvdaveGV~~QTEtv~rqa~~~---~--vp~i~fiNKmDR~~a~  144 (697)
T COG0480          86 HVDFT-------IEVERSLRV----LDGAVVVVDAVEGVEPQTETVWRQADKY---G--VPRILFVNKMDRLGAD  144 (697)
T ss_pred             ccccH-------HHHHHHHHh----hcceEEEEECCCCeeecHHHHHHHHhhc---C--CCeEEEEECccccccC
Confidence            99863       344444444    4899999999877776665554444443   2  7999999999999764

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=99.09  E-value=6e-10  Score=82.42  Aligned_cols=133  Identities=18%  Similarity=0.156  Sum_probs=89.5

Q ss_pred             CCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           14 SPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      ....+.+.|.+||++++||||||++|++........  ...|.+...+....+.++.+.+.||.||.+  .-+..+...+
T Consensus       173 r~~~s~pviavVGYTNaGKsTLikaLT~Aal~p~dr--LFATLDpT~h~a~Lpsg~~vlltDTvGFis--dLP~~LvaAF  248 (410)
T KOG0410|consen  173 REGESSPVIAVVGYTNAGKSTLIKALTKAALYPNDR--LFATLDPTLHSAHLPSGNFVLLTDTVGFIS--DLPIQLVAAF  248 (410)
T ss_pred             cccCCCceEEEEeecCccHHHHHHHHHhhhcCccch--hheeccchhhhccCCCCcEEEEeechhhhh--hCcHHHHHHH
Confidence            344567899999999999999999999776644443  335556666666776888999999999996  2334444444


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHHH-HHHHHHHHHHcc---cccceEEEEEeCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEEE-AALHSWQTLFGK---KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~~-~~~~~l~~~~~~---~~~~~~~iv~tk~D~~~~  152 (173)
                      ...+. ....+|.++-|+|++.+.-..++ ..+..+.++ +-   .....++=|-||.|.-..
T Consensus       249 ~ATLe-eVaeadlllHvvDiShP~ae~q~e~Vl~vL~~i-gv~~~pkl~~mieVdnkiD~e~~  309 (410)
T KOG0410|consen  249 QATLE-EVAEADLLLHVVDISHPNAEEQRETVLHVLNQI-GVPSEPKLQNMIEVDNKIDYEED  309 (410)
T ss_pred             HHHHH-HHhhcceEEEEeecCCccHHHHHHHHHHHHHhc-CCCcHHHHhHHHhhccccccccc
Confidence            44333 23467999999999854444443 444444443 22   122467788899887654

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=99.09  E-value=5.5e-10  Score=74.88  Aligned_cols=59  Identities=25%  Similarity=0.402  Sum_probs=40.7

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   81 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~   81 (173)
                      ...+++++|.+|+||||++|+|++..... .....+.|.....  +.. . ..+.++||||+..
T Consensus        82 ~~~~~~~~G~~~vGKstlin~l~~~~~~~-~~~~~~~~~~~~~--~~~-~-~~~~i~DtpG~~~  140 (141)
T cd01857          82 ENATIGLVGYPNVGKSSLINALVGKKKVS-VSATPGKTKHFQT--IFL-T-PTITLCDCPGLVF  140 (141)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCcee-eCCCCCcccceEE--EEe-C-CCEEEEECCCcCC
Confidence            33489999999999999999999877542 2222334443332  333 2 3689999999864

Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.

>KOG2486 consensus Predicted GTPase [General function prediction only]

Probab=99.07  E-value=2e-09  Score=78.13  Aligned_cols=127  Identities=17%  Similarity=0.147  Sum_probs=82.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcc-ccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCC--CcHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFK-SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA--GSEFVGMEI   93 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~-~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~--~~~~~~~~~   93 (173)
                      ...++++++|.+++|||+|+|.++...... .+....+.|...+...    -+..++++|.||+..+.-  +..+-...+
T Consensus       134 ~~~pe~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f~----v~~~~~~vDlPG~~~a~y~~~~~~d~~~~  209 (320)
T KOG2486|consen  134 DKRPELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHFH----VGKSWYEVDLPGYGRAGYGFELPADWDKF  209 (320)
T ss_pred             CCCceeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeeeee----ccceEEEEecCCcccccCCccCcchHhHh
Confidence            456899999999999999999998755432 2222444555444333    578999999999554321  111111122


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ......-.+..-.+++.++++-.+..-+...++++.+.     ..|+.+|+||||+...
T Consensus       210 t~~Y~leR~nLv~~FLLvd~sv~i~~~D~~~i~~~ge~-----~VP~t~vfTK~DK~k~  263 (320)
T KOG2486|consen  210 TKSYLLERENLVRVFLLVDASVPIQPTDNPEIAWLGEN-----NVPMTSVFTKCDKQKK  263 (320)
T ss_pred             HHHHHHhhhhhheeeeeeeccCCCCCCChHHHHHHhhc-----CCCeEEeeehhhhhhh
Confidence            22111112222345667788768888888888888775     2899999999999854

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=99.04  E-value=1.9e-09  Score=80.51  Aligned_cols=66  Identities=23%  Similarity=0.336  Sum_probs=48.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSE   87 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~   87 (173)
                      ....+++++|.+|+||||++|+|++......+. .++.|...+...    .+..+.++||||+..+....+
T Consensus       119 ~~~~~~~~~G~pnvGKSsliN~l~~~~~~~~~~-~~g~T~~~~~~~----~~~~~~l~DtPGi~~~~~~~~  184 (287)
T PRK09563        119 PRAIRAMIIGIPNVGKSTLINRLAGKKIAKTGN-RPGVTKAQQWIK----LGKGLELLDTPGILWPKLEDQ  184 (287)
T ss_pred             cCceEEEEECCCCCCHHHHHHHHhcCCccccCC-CCCeEEEEEEEE----eCCcEEEEECCCcCCCCCCcH
Confidence            456789999999999999999999987644443 345555554322    245689999999987654433

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=99.03  E-value=9.5e-10  Score=74.88  Aligned_cols=58  Identities=28%  Similarity=0.405  Sum_probs=41.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   79 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~   79 (173)
                      ....+++++|.+|+||||++|+|++......+.. .+.|......  ..  +..+.++||||+
T Consensus        98 ~~~~~~~~~G~~~~GKstlin~l~~~~~~~~~~~-~~~t~~~~~~--~~--~~~~~liDtPG~  155 (155)
T cd01849          98 KKSITVGVIGYPNVGKSSVINALLNKLKLKVGNV-PGTTTSQQEV--KL--DNKIKLLDTPGI  155 (155)
T ss_pred             ccCcEEEEEccCCCCHHHHHHHHHccccccccCC-CCcccceEEE--Ee--cCCEEEEECCCC
Confidence            4678999999999999999999998765333322 3344444332  22  356899999996

These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.

>cd01855 YqeH YqeH

Probab=99.03  E-value=6.2e-10  Score=78.27  Aligned_cols=58  Identities=29%  Similarity=0.291  Sum_probs=39.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccc------c-CCCCccceeeEEEEEEeeCCceEEEEeCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKS------R-ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   79 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~------~-~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~   79 (173)
                      ...+++++|.+|+|||||+|+|++......      . ...++.|........    +..+.++||||+
T Consensus       126 ~~~~~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~gtT~~~~~~~~----~~~~~~~DtPG~  190 (190)
T cd01855         126 KGGDVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIPGTTLDLIKIPL----GNGKKLYDTPGI  190 (190)
T ss_pred             cCCcEEEEcCCCCCHHHHHHHHHHhcccccccccccccCCCCCeeeeeEEEec----CCCCEEEeCcCC
Confidence            457899999999999999999998654221      1 122344444433332    236799999996

YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=99.03  E-value=2.2e-09  Score=84.77  Aligned_cols=129  Identities=19%  Similarity=0.143  Sum_probs=86.7

Q ss_pred             CCcccCCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccC-CCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCc
Q 043441            8 DDWELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA-SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGS   86 (173)
Q Consensus         8 ~~~~~~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~   86 (173)
                      ..+..+...+++..+++|||+|.||||||.+|+...--.... ...+.|.       ...+.+++.+..+|.  +     
T Consensus        58 mvdrtp~d~PPPfIvavvGPpGtGKsTLirSlVrr~tk~ti~~i~GPiTv-------vsgK~RRiTflEcp~--D-----  123 (1077)
T COG5192          58 MVDRTPKDLPPPFIVAVVGPPGTGKSTLIRSLVRRFTKQTIDEIRGPITV-------VSGKTRRITFLECPS--D-----  123 (1077)
T ss_pred             cccCCcccCCCCeEEEeecCCCCChhHHHHHHHHHHHHhhhhccCCceEE-------eecceeEEEEEeChH--H-----
Confidence            345556677888899999999999999999998643110111 1111222       111667899999993  2     


Q ss_pred             HHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHHHhc
Q 043441           87 EFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLG  162 (173)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~  162 (173)
                         ..++...++..    |.++++++.+=.+..+...+++.+... |.   ..++-|+||.|+.... .++...-+
T Consensus       124 ---l~~miDvaKIa----DLVlLlIdgnfGfEMETmEFLnil~~H-Gm---PrvlgV~ThlDlfk~~-stLr~~KK  187 (1077)
T COG5192         124 ---LHQMIDVAKIA----DLVLLLIDGNFGFEMETMEFLNILISH-GM---PRVLGVVTHLDLFKNP-STLRSIKK  187 (1077)
T ss_pred             ---HHHHHhHHHhh----heeEEEeccccCceehHHHHHHHHhhc-CC---CceEEEEeecccccCh-HHHHHHHH
Confidence               33566555544    899999999767777777777766665 32   6799999999988653 34444333

>PRK13768 GTPase; Provisional

Probab=99.01  E-value=1.8e-09  Score=79.28  Aligned_cols=80  Identities=16%  Similarity=0.080  Sum_probs=49.5

Q ss_pred             eEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCC
Q 043441           70 VVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDE  149 (173)
Q Consensus        70 ~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~  149 (173)
                      .+.++||||..+.... ......+.+.+....  ++++++++|+....+..+.....++..........|+++|+||+|+
T Consensus        98 ~~~~~d~~g~~~~~~~-~~~~~~~~~~l~~~~--~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~~~~~~i~v~nK~D~  174 (253)
T PRK13768         98 DYVLVDTPGQMELFAF-RESGRKLVERLSGSS--KSVVVFLIDAVLAKTPSDFVSLLLLALSVQLRLGLPQIPVLNKADL  174 (253)
T ss_pred             CEEEEeCCcHHHHHhh-hHHHHHHHHHHHhcC--CeEEEEEechHHhCCHHHHHHHHHHHHHHHHHcCCCEEEEEEhHhh
Confidence            6899999997764221 223334444443322  7899999999755555554444333321111123799999999999


Q ss_pred             CCC
Q 043441          150 LED  152 (173)
Q Consensus       150 ~~~  152 (173)
                      +..
T Consensus       175 ~~~  177 (253)
T PRK13768        175 LSE  177 (253)
T ss_pred             cCc
Confidence            876

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=99.01  E-value=6.6e-09  Score=81.64  Aligned_cols=130  Identities=18%  Similarity=0.257  Sum_probs=89.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccC-------------CCCccceeeEEEEEEeeCC---ceEEEEeCCCCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA-------------SSSGVTSTCEMQRTVLKDG---QVVNVIDTPGLF   80 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~-------------~~~~~t~~~~~~~~~~~~~---~~~~v~DtpG~~   80 (173)
                      ++.+++.++.---.|||||...|+....+....             ...+.|...+...+.+ ++   ..+.+|||||..
T Consensus        58 ~~iRNfsIIAHVDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIkaQtasify-~~~~~ylLNLIDTPGHv  136 (650)
T KOG0462|consen   58 ENIRNFSIIAHVDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKAQTASIFY-KDGQSYLLNLIDTPGHV  136 (650)
T ss_pred             hhccceEEEEEecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEeeeeEEEE-EcCCceEEEeecCCCcc
Confidence            677899999999999999999986533211110             1236677666666666 44   678999999999


Q ss_pred             CCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHHH
Q 043441           81 DFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDY  160 (173)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~  160 (173)
                      ++..+-.           ..+..++++|+++|+........   .-.+...|...  ..++.|+||.|+...+.+..+..
T Consensus       137 DFs~EVs-----------Rslaac~G~lLvVDA~qGvqAQT---~anf~lAfe~~--L~iIpVlNKIDlp~adpe~V~~q  200 (650)
T KOG0462|consen  137 DFSGEVS-----------RSLAACDGALLVVDASQGVQAQT---VANFYLAFEAG--LAIIPVLNKIDLPSADPERVENQ  200 (650)
T ss_pred             cccceeh-----------ehhhhcCceEEEEEcCcCchHHH---HHHHHHHHHcC--CeEEEeeeccCCCCCCHHHHHHH
Confidence            8754322           34445699999999985554443   33344444433  67999999999998866555555


Q ss_pred             hcc
Q 043441          161 LGR  163 (173)
Q Consensus       161 ~~~  163 (173)
                      +.+
T Consensus       201 ~~~  203 (650)
T KOG0462|consen  201 LFE  203 (650)
T ss_pred             HHH
Confidence            444

>PRK12288 GTPase RsgA; Reviewed

Probab=99.01  E-value=2.3e-09  Score=81.86  Aligned_cols=61  Identities=30%  Similarity=0.469  Sum_probs=42.3

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC----c--cceeeEEEEEEeeCCceEEEEeCCCCCCCCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSS----G--VTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~----~--~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~   84 (173)
                      ..++++|++|+|||||||+|++......+....    +  .|+....+...  .  ...++||||+.+...
T Consensus       206 ki~~~vG~sgVGKSTLiN~Ll~~~~~~t~~is~~~~rGrHTT~~~~l~~l~--~--~~~liDTPGir~~~l  272 (347)
T PRK12288        206 RISIFVGQSGVGKSSLINALLPEAEILVGDVSDNSGLGQHTTTAARLYHFP--H--GGDLIDSPGVREFGL  272 (347)
T ss_pred             CCEEEECCCCCCHHHHHHHhccccceeeccccCcCCCCcCceeeEEEEEec--C--CCEEEECCCCCcccC
Confidence            458999999999999999999877655443322    1  23344333332  2  235999999998765

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.00  E-value=7.5e-09  Score=80.02  Aligned_cols=121  Identities=21%  Similarity=0.305  Sum_probs=88.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCC-ccccC-------------CCCccceeeEEEEEEeeCCceEEEEeCCCCCCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRA-FKSRA-------------SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   82 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~-~~~~~-------------~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~   82 (173)
                      .+.++|+++.-.-.|||||+..|+...- |....             ...+.|...+.-.+.+ ++.++.++||||.-++
T Consensus         3 ~~iRNIAIIAHVDHGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTav~~-~~~~INIvDTPGHADF   81 (603)
T COG1217           3 EDIRNIAIIAHVDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTAVNY-NGTRINIVDTPGHADF   81 (603)
T ss_pred             cccceeEEEEEecCCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEeccceeec-CCeEEEEecCCCcCCc
Confidence            3457899999999999999999986432 21110             1236677777777777 8899999999999987


Q ss_pred             CCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCc
Q 043441           83 SAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNE  154 (173)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~  154 (173)
                      ...-+           ..+...|++++++|+.+..-+..+..++...+.   .  .+.++|+||.|+...+.
T Consensus        82 GGEVE-----------Rvl~MVDgvlLlVDA~EGpMPQTrFVlkKAl~~---g--L~PIVVvNKiDrp~Arp  137 (603)
T COG1217          82 GGEVE-----------RVLSMVDGVLLLVDASEGPMPQTRFVLKKALAL---G--LKPIVVINKIDRPDARP  137 (603)
T ss_pred             cchhh-----------hhhhhcceEEEEEEcccCCCCchhhhHHHHHHc---C--CCcEEEEeCCCCCCCCH
Confidence            54333           223356999999999877777777775444443   2  67899999999998753

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=99.00  E-value=1.3e-09  Score=69.85  Aligned_cols=104  Identities=19%  Similarity=0.225  Sum_probs=68.0

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      +++++||+.|+||||+.++|.|....-.           +-+.+++ +..  ..|||||-.-.       .+...+.+..
T Consensus         2 Kri~~vG~~gcGKTtL~q~L~G~~~lyk-----------KTQAve~-~d~--~~IDTPGEy~~-------~~~~Y~aL~t   60 (148)
T COG4917           2 KRIAFVGQVGCGKTTLFQSLYGNDTLYK-----------KTQAVEF-NDK--GDIDTPGEYFE-------HPRWYHALIT   60 (148)
T ss_pred             ceeEEecccccCchhHHHHhhcchhhhc-----------ccceeec-cCc--cccCCchhhhh-------hhHHHHHHHH
Confidence            5899999999999999999998653111           1122333 221  27999996631       3345555666


Q ss_pred             ccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...++++++++-.+++.-+.-...    +..    ....+++-|+||.|+.++
T Consensus        61 t~~dadvi~~v~~and~~s~f~p~----f~~----~~~k~vIgvVTK~DLaed  105 (148)
T COG4917          61 TLQDADVIIYVHAANDPESRFPPG----FLD----IGVKKVIGVVTKADLAED  105 (148)
T ss_pred             HhhccceeeeeecccCccccCCcc----ccc----ccccceEEEEecccccch
Confidence            777899999988887442222211    112    233569999999999954

>COG1162 Predicted GTPases [General function prediction only]

Probab=99.00  E-value=2.5e-09  Score=79.00  Aligned_cols=65  Identities=26%  Similarity=0.311  Sum_probs=42.5

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCC----CCccceeeEEEEEEeeCCceEEEEeCCCCCCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRAS----SSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~----~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~   84 (173)
                      .+.+.+++|++|+|||||+|+|.+......+..    ..+..+......+.+  .....++|||||.+...
T Consensus       163 ~~~~svl~GqSGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l--~~gG~iiDTPGf~~~~l  231 (301)
T COG1162         163 AGKITVLLGQSGVGKSTLINALLPELNQKTGEISEKLGRGRHTTTHVELFPL--PGGGWIIDTPGFRSLGL  231 (301)
T ss_pred             cCCeEEEECCCCCcHHHHHHhhCchhhhhhhhhcccCCCCCCccceEEEEEc--CCCCEEEeCCCCCccCc
Confidence            456899999999999999999997544333311    122222222233333  23457999999998764

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.99  E-value=3.4e-09  Score=78.79  Aligned_cols=64  Identities=27%  Similarity=0.335  Sum_probs=45.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAG   85 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~   85 (173)
                      ....+++++|.+|+||||++|+|.+......+. .++.|...+...  .  +..+.++||||+..+...
T Consensus       116 ~~~~~~~~vG~~nvGKSslin~l~~~~~~~~~~-~~g~T~~~~~~~--~--~~~~~l~DtPG~~~~~~~  179 (276)
T TIGR03596       116 NRPIRAMIVGIPNVGKSTLINRLAGKKVAKVGN-RPGVTKGQQWIK--L--SDGLELLDTPGILWPKFE  179 (276)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCccccCC-CCCeecceEEEE--e--CCCEEEEECCCcccCCCC
Confidence            456789999999999999999999877544432 344555544333  2  346899999999765443

Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.

>KOG0081 consensus GTPase Rab27, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.99  E-value=3e-10  Score=75.68  Aligned_cols=123  Identities=13%  Similarity=-0.018  Sum_probs=78.3

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee--------CCceEEEEeCCCCCCCCCCcHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK--------DGQVVNVIDTPGLFDFSAGSEFVGM   91 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~--------~~~~~~v~DtpG~~~~~~~~~~~~~   91 (173)
                      .+.+.+|.+|+|||+++-..+....-..-.+..+..-..+...+...        ....+++|||+|           .+
T Consensus        10 ikfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAG-----------QE   78 (219)
T KOG0081|consen   10 IKFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAG-----------QE   78 (219)
T ss_pred             HHHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeecccc-----------HH
Confidence            46788999999999999877765522111222222211111111110        123689999999           44


Q ss_pred             HHHHHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCCc
Q 043441           92 EIVKCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNE  154 (173)
Q Consensus        92 ~~~~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~  154 (173)
                      ++++....+++++-++++++|.++.-+-. ...|+..++...-- -..-+++..||+|+.+.+.
T Consensus        79 RFRSLTTAFfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYc-E~PDivlcGNK~DL~~~R~  141 (219)
T KOG0081|consen   79 RFRSLTTAFFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYC-ENPDIVLCGNKADLEDQRV  141 (219)
T ss_pred             HHHHHHHHHHHhhccceEEEeccchHHHHHHHHHHHHHHHhhcc-CCCCEEEEcCccchhhhhh
Confidence            77888888999999999999998554433 25666666553221 2256889999999887653

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=98.97  E-value=1.2e-08  Score=80.63  Aligned_cols=122  Identities=12%  Similarity=0.138  Sum_probs=71.9

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccC-CCCccceeeEEE-----------------EEE-------------
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA-SSSGVTSTCEMQ-----------------RTV-------------   64 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~-~~~~~t~~~~~~-----------------~~~-------------   64 (173)
                      ..+..+|.++|.-.+|||||+.+|++........ ...+.|....+.                 ...             
T Consensus        31 ~~~~~~ig~~GHVDhGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (460)
T PTZ00327         31 RQATINIGTIGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGCG  110 (460)
T ss_pred             CCCcEEEEEEccCCCCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCccccccccccc
Confidence            3566889999999999999999999854311110 001111111000                 000             


Q ss_pred             --eeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCC-CCHHHHHHHHHHHHHHcccccceEE
Q 043441           65 --LKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSR-FPQEEEAALHSWQTLFGKKVFDYMI  141 (173)
Q Consensus        65 --~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~~  141 (173)
                        ......+.++||||..           .+.+.+......+|.+++|+++.+. ........+. +.+.++-   .+++
T Consensus       111 ~~~~~~~~i~~IDtPGH~-----------~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~-i~~~lgi---~~iI  175 (460)
T PTZ00327        111 HKMTLKRHVSFVDCPGHD-----------ILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLA-AVEIMKL---KHII  175 (460)
T ss_pred             ccccccceEeeeeCCCHH-----------HHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHH-HHHHcCC---CcEE
Confidence              0012478999999953           2333333445577999999999853 2333233332 2333332   5789


Q ss_pred             EEEeCCCCCCC
Q 043441          142 VVFTGGDELED  152 (173)
Q Consensus       142 iv~tk~D~~~~  152 (173)
                      +++||+|+.+.
T Consensus       176 VvlNKiDlv~~  186 (460)
T PTZ00327        176 ILQNKIDLVKE  186 (460)
T ss_pred             EEEecccccCH
Confidence            99999998853

>cd01856 YlqF YlqF

Probab=98.97  E-value=2.7e-09  Score=73.83  Aligned_cols=60  Identities=25%  Similarity=0.340  Sum_probs=41.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF   80 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~   80 (173)
                      .+...+++++|.+|+||||++|.|++....... ...+.|......  .. . ..+.++||||+.
T Consensus       112 ~~~~~~~~~~G~~~vGKstlin~l~~~~~~~~~-~~~~~T~~~~~~--~~-~-~~~~~iDtpG~~  171 (171)
T cd01856         112 LPRGIRAMVVGIPNVGKSTLINRLRGKKVAKVG-NKPGVTKGIQWI--KI-S-PGIYLLDTPGIL  171 (171)
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHhCCCceeec-CCCCEEeeeEEE--Ee-c-CCEEEEECCCCC
Confidence            345578999999999999999999987643222 223344444333  33 2 568999999974

Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.

>PRK12289 GTPase RsgA; Reviewed

Probab=98.96  E-value=1.5e-09  Score=82.90  Aligned_cols=61  Identities=28%  Similarity=0.372  Sum_probs=41.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC----c--cceeeEEEEEEeeCCceEEEEeCCCCCCCCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSS----G--VTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~----~--~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~   84 (173)
                      ..++++|++|+|||||||+|++......+..+.    +  .|+.....  ..+.+  ..++||||+.....
T Consensus       173 ki~v~iG~SgVGKSSLIN~L~~~~~~~t~~vs~~~~rGrHTT~~~~l~--~l~~g--~~liDTPG~~~~~l  239 (352)
T PRK12289        173 KITVVAGPSGVGKSSLINRLIPDVELRVGKVSGKLGRGRHTTRHVELF--ELPNG--GLLADTPGFNQPDL  239 (352)
T ss_pred             ceEEEEeCCCCCHHHHHHHHcCccccccccccCCCCCCCCcCceeEEE--ECCCC--cEEEeCCCcccccc
Confidence            468999999999999999999876544442221    1  23333333  22122  37999999998765

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.95  E-value=3.2e-09  Score=80.43  Aligned_cols=65  Identities=25%  Similarity=0.335  Sum_probs=50.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGS   86 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~   86 (173)
                      ....+++++|.+++||||+||+|+++.....+ ..++.|...++...    ...+.++||||+.......
T Consensus       130 ~~~~~v~vvG~PNVGKSslIN~L~~k~~~~~s-~~PG~Tk~~q~i~~----~~~i~LlDtPGii~~~~~~  194 (322)
T COG1161         130 KRKIRVGVVGYPNVGKSTLINRLLGKKVAKTS-NRPGTTKGIQWIKL----DDGIYLLDTPGIIPPKFDD  194 (322)
T ss_pred             ccceEEEEEcCCCCcHHHHHHHHhcccceeeC-CCCceecceEEEEc----CCCeEEecCCCcCCCCccc
Confidence            34578999999999999999999998874444 34467777766654    3458999999999876544

>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]

Probab=98.94  E-value=5.5e-09  Score=74.98  Aligned_cols=96  Identities=19%  Similarity=0.251  Sum_probs=70.0

Q ss_pred             cCCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHH
Q 043441           12 LTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGM   91 (173)
Q Consensus        12 ~~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~   91 (173)
                      +....+..-|++++|-+.+|||||+..++....  ..++....|..+-...+.+ ++.++++.|.||+.+..+..+-.++
T Consensus        55 FeV~KsGdaRValIGfPSVGKStlLs~iT~T~S--eaA~yeFTTLtcIpGvi~y-~ga~IQllDLPGIieGAsqgkGRGR  131 (364)
T KOG1486|consen   55 FEVLKSGDARVALIGFPSVGKSTLLSKITSTHS--EAASYEFTTLTCIPGVIHY-NGANIQLLDLPGIIEGASQGKGRGR  131 (364)
T ss_pred             eeeeccCCeEEEEecCCCccHHHHHHHhhcchh--hhhceeeeEEEeecceEEe-cCceEEEecCcccccccccCCCCCc
Confidence            334455678999999999999999999998653  2223333444444445555 8899999999999987766655555


Q ss_pred             HHHHHHHhccCCceEEEEEeecC
Q 043441           92 EIVKCIGLAKDGIHAVLVGFSVR  114 (173)
Q Consensus        92 ~~~~~~~~~~~~~~~ii~v~~~~  114 (173)
                      +..    ...+.+|.++.|+|++
T Consensus       132 Qvi----avArtaDlilMvLDat  150 (364)
T KOG1486|consen  132 QVI----AVARTADLILMVLDAT  150 (364)
T ss_pred             eEE----EEeecccEEEEEecCC
Confidence            444    4566789999999997

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=98.94  E-value=1.2e-09  Score=77.03  Aligned_cols=73  Identities=21%  Similarity=0.087  Sum_probs=45.1

Q ss_pred             ceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCC
Q 043441           69 QVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGD  148 (173)
Q Consensus        69 ~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D  148 (173)
                      ..+++|||||....   ......++.++....  .++.+++|++++..  .++...+....+.+     ...-+++||.|
T Consensus        84 ~D~vlIDT~Gr~~~---d~~~~~el~~~~~~~--~~~~~~LVlsa~~~--~~~~~~~~~~~~~~-----~~~~lIlTKlD  151 (196)
T PF00448_consen   84 YDLVLIDTAGRSPR---DEELLEELKKLLEAL--NPDEVHLVLSATMG--QEDLEQALAFYEAF-----GIDGLILTKLD  151 (196)
T ss_dssp             SSEEEEEE-SSSST---HHHHHHHHHHHHHHH--SSSEEEEEEEGGGG--GHHHHHHHHHHHHS-----STCEEEEESTT
T ss_pred             CCEEEEecCCcchh---hHHHHHHHHHHhhhc--CCccceEEEecccC--hHHHHHHHHHhhcc-----cCceEEEEeec
Confidence            46999999998853   244455666555544  56778889999722  22323333333332     34578899999


Q ss_pred             CCCCC
Q 043441          149 ELEDN  153 (173)
Q Consensus       149 ~~~~~  153 (173)
                      +...-
T Consensus       152 et~~~  156 (196)
T PF00448_consen  152 ETARL  156 (196)
T ss_dssp             SSSTT
T ss_pred             CCCCc
Confidence            97653

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.92  E-value=2.9e-09  Score=77.79  Aligned_cols=61  Identities=30%  Similarity=0.347  Sum_probs=41.7

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCC----Cc--cceeeEEEEEEeeCCceEEEEeCCCCCCCCC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASS----SG--VTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~----~~--~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~   84 (173)
                      ...++++|++|+|||||+|+|++......+...    .+  .|+.......   .  ...++||||+.....
T Consensus       120 ~~~~~~~G~sgvGKStLiN~L~~~~~~~t~~i~~~~~~G~hTT~~~~l~~l---~--~~~liDtPG~~~~~l  186 (245)
T TIGR00157       120 NRISVFAGQSGVGKSSLINALDPSVKQQVNDISSKLGLGKHTTTHVELFHF---H--GGLIADTPGFNEFGL  186 (245)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhhhhhccccceeccCCCCCCcCCceEEEEc---C--CcEEEeCCCccccCC
Confidence            368999999999999999999986654433221    11  3444444333   2  248999999998653

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>PRK00098 GTPase RsgA; Reviewed

Probab=98.91  E-value=9.5e-09  Score=77.17  Aligned_cols=61  Identities=31%  Similarity=0.399  Sum_probs=41.2

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC----c--cceeeEEEEEEeeCCceEEEEeCCCCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSS----G--VTSTCEMQRTVLKDGQVVNVIDTPGLFDF   82 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~----~--~t~~~~~~~~~~~~~~~~~v~DtpG~~~~   82 (173)
                      .+..++++|++|+|||||+|+|++......+....    +  .|+..+..  ..  .....++||||+...
T Consensus       163 ~gk~~~~~G~sgvGKStlin~l~~~~~~~~g~v~~~~~~G~htT~~~~~~--~~--~~~~~~~DtpG~~~~  229 (298)
T PRK00098        163 AGKVTVLAGQSGVGKSTLLNALAPDLELKTGEISEALGRGKHTTTHVELY--DL--PGGGLLIDTPGFSSF  229 (298)
T ss_pred             cCceEEEECCCCCCHHHHHHHHhCCcCCCCcceeccCCCCCcccccEEEE--Ec--CCCcEEEECCCcCcc
Confidence            35689999999999999999999876554443221    1  23322222  22  223589999999964

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=98.89  E-value=8.2e-08  Score=74.91  Aligned_cols=124  Identities=17%  Similarity=0.200  Sum_probs=72.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHh------CCCCccccCCC-C----------ccceeeEEEEEEe--------------
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSIL------GRRAFKSRASS-S----------GVTSTCEMQRTVL--------------   65 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~------~~~~~~~~~~~-~----------~~t~~~~~~~~~~--------------   65 (173)
                      .++..++++|++|+||||++..|.      |..+..-...+ .          +............              
T Consensus        98 ~~~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~~~~~~dp~~i~~~~l~~  177 (429)
T TIGR01425        98 GKQNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLKQNATKARIPFYGSYTESDPVKIASEGVEK  177 (429)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHHHHhhccCCeEEeecCCCCHHHHHHHHHHH
Confidence            346789999999999999998886      32221100000 0          0001111111100              


Q ss_pred             --eCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEE
Q 043441           66 --KDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVV  143 (173)
Q Consensus        66 --~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv  143 (173)
                        ..+..++++||||...   ..+.+..++.......  .++.+++|+|+...  +......+.+.+..     .+..++
T Consensus       178 ~~~~~~DvViIDTaGr~~---~d~~lm~El~~i~~~~--~p~e~lLVlda~~G--q~a~~~a~~F~~~~-----~~~g~I  245 (429)
T TIGR01425       178 FKKENFDIIIVDTSGRHK---QEDSLFEEMLQVAEAI--QPDNIIFVMDGSIG--QAAEAQAKAFKDSV-----DVGSVI  245 (429)
T ss_pred             HHhCCCCEEEEECCCCCc---chHHHHHHHHHHhhhc--CCcEEEEEeccccC--hhHHHHHHHHHhcc-----CCcEEE
Confidence              0145789999999764   3345666666665433  57889999998622  22333334443321     568899


Q ss_pred             EeCCCCCCC
Q 043441          144 FTGGDELED  152 (173)
Q Consensus       144 ~tk~D~~~~  152 (173)
                      +||.|.-..
T Consensus       246 lTKlD~~ar  254 (429)
T TIGR01425       246 ITKLDGHAK  254 (429)
T ss_pred             EECccCCCC
Confidence            999998643

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=98.88  E-value=1.8e-08  Score=77.23  Aligned_cols=122  Identities=21%  Similarity=0.237  Sum_probs=74.2

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCc-cceee-EEEEE----------------------------EeeC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSG-VTSTC-EMQRT----------------------------VLKD   67 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~-~t~~~-~~~~~----------------------------~~~~   67 (173)
                      +...++||||+|+||||.+-.|........+....+ .|+++ +....                            .+ .
T Consensus       202 ~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l-~  280 (407)
T COG1419         202 QKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEAL-R  280 (407)
T ss_pred             cCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHh-h
Confidence            489999999999999999988876543222222111 11111 00000                            11 3


Q ss_pred             CceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCC
Q 043441           68 GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGG  147 (173)
Q Consensus        68 ~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~  147 (173)
                      +..++++||.|....   ......++...+... +..+ ..++++++ .    ...-++.+.+.|+.-  ..--+++||.
T Consensus       281 ~~d~ILVDTaGrs~~---D~~~i~el~~~~~~~-~~i~-~~Lvlsat-~----K~~dlkei~~~f~~~--~i~~~I~TKl  348 (407)
T COG1419         281 DCDVILVDTAGRSQY---DKEKIEELKELIDVS-HSIE-VYLVLSAT-T----KYEDLKEIIKQFSLF--PIDGLIFTKL  348 (407)
T ss_pred             cCCEEEEeCCCCCcc---CHHHHHHHHHHHhcc-ccce-EEEEEecC-c----chHHHHHHHHHhccC--CcceeEEEcc
Confidence            357999999998853   244555666666555 3444 46677776 2    234455556665543  5567889999


Q ss_pred             CCCCC
Q 043441          148 DELED  152 (173)
Q Consensus       148 D~~~~  152 (173)
                      |+-..
T Consensus       349 DET~s  353 (407)
T COG1419         349 DETTS  353 (407)
T ss_pred             cccCc
Confidence            98864

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.88  E-value=1.3e-08  Score=76.02  Aligned_cols=61  Identities=34%  Similarity=0.435  Sum_probs=41.1

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCC----Cc--cceeeEEEEEEeeCCceEEEEeCCCCCCCC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASS----SG--VTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   83 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~----~~--~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~   83 (173)
                      ..+++++|++|+|||||+|.|++......+...    .+  .|.....  +.. . ....++||||+.+..
T Consensus       161 ~k~~~~~G~sg~GKSTlin~l~~~~~~~~g~v~~~~~~g~~tT~~~~~--~~~-~-~~~~liDtPG~~~~~  227 (287)
T cd01854         161 GKTSVLVGQSGVGKSTLINALLPDLDLATGEISEKLGRGRHTTTHREL--FPL-P-GGGLLIDTPGFREFG  227 (287)
T ss_pred             cceEEEECCCCCCHHHHHHHHhchhhccccceeccCCCCCcccceEEE--EEc-C-CCCEEEECCCCCccC
Confidence            378999999999999999999997765544222    11  2333322  322 2 234799999997643

YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.85  E-value=1.3e-08  Score=79.16  Aligned_cols=123  Identities=17%  Similarity=0.178  Sum_probs=68.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCc-------------------cceeeEEEE-----------EEee
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSG-------------------VTSTCEMQR-----------TVLK   66 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~-------------------~t~~~~~~~-----------~~~~   66 (173)
                      +.+.+++++|++|+||||++..|.+......+....+                   .........           ... 
T Consensus       189 ~~g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~~v~~~~dl~~al~~l-  267 (420)
T PRK14721        189 EQGGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVRSIKDIADLQLMLHEL-  267 (420)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCceecCCCHHHHHHHHHHh-
Confidence            5678999999999999999998876421111100000                   000000000           011 


Q ss_pred             CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeC
Q 043441           67 DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTG  146 (173)
Q Consensus        67 ~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk  146 (173)
                      .+...+++||+|.....   ..+..++... .. ....+-.++|++++..     ...++.+...|..-  ..--+++||
T Consensus       268 ~~~d~VLIDTaGrsqrd---~~~~~~l~~l-~~-~~~~~~~~LVl~at~~-----~~~~~~~~~~f~~~--~~~~~I~TK  335 (420)
T PRK14721        268 RGKHMVLIDTVGMSQRD---QMLAEQIAML-SQ-CGTQVKHLLLLNATSS-----GDTLDEVISAYQGH--GIHGCIITK  335 (420)
T ss_pred             cCCCEEEecCCCCCcch---HHHHHHHHHH-hc-cCCCceEEEEEcCCCC-----HHHHHHHHHHhcCC--CCCEEEEEe
Confidence            34568999999988532   2233333332 11 2234567788888722     22333444444332  567789999


Q ss_pred             CCCCCC
Q 043441          147 GDELED  152 (173)
Q Consensus       147 ~D~~~~  152 (173)
                      .|+-..
T Consensus       336 lDEt~~  341 (420)
T PRK14721        336 VDEAAS  341 (420)
T ss_pred             eeCCCC
Confidence            999764

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.85  E-value=2.2e-08  Score=76.91  Aligned_cols=130  Identities=19%  Similarity=0.182  Sum_probs=68.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC-ccce------------------eeEEEEE-----------Eee
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSS-GVTS------------------TCEMQRT-----------VLK   66 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~-~~t~------------------~~~~~~~-----------~~~   66 (173)
                      .....++++|++|+||||++..|........+.... -.+.                  .......           .+ 
T Consensus       135 ~~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l-  213 (374)
T PRK14722        135 ERGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAEL-  213 (374)
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHh-
Confidence            457899999999999999999987542211110000 0000                  0001111           11 


Q ss_pred             CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc---ccceEEEE
Q 043441           67 DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK---VFDYMIVV  143 (173)
Q Consensus        67 ~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~~iv  143 (173)
                      .+..+++|||||.....   ....+++. .+.. ...+.-.++|++++.... .-.+.++.+....+..   .....-++
T Consensus       214 ~~~DlVLIDTaG~~~~d---~~l~e~La-~L~~-~~~~~~~lLVLsAts~~~-~l~evi~~f~~~~~~p~~~~~~~~~~I  287 (374)
T PRK14722        214 RNKHMVLIDTIGMSQRD---RTVSDQIA-MLHG-ADTPVQRLLLLNATSHGD-TLNEVVQAYRSAAGQPKAALPDLAGCI  287 (374)
T ss_pred             cCCCEEEEcCCCCCccc---HHHHHHHH-HHhc-cCCCCeEEEEecCccChH-HHHHHHHHHHHhhcccccccCCCCEEE
Confidence            34578999999988532   22333332 2222 223445678888873322 2223444444432211   01235688


Q ss_pred             EeCCCCCCCC
Q 043441          144 FTGGDELEDN  153 (173)
Q Consensus       144 ~tk~D~~~~~  153 (173)
                      +||.|+-..-
T Consensus       288 ~TKlDEt~~~  297 (374)
T PRK14722        288 LTKLDEASNL  297 (374)
T ss_pred             EeccccCCCc
Confidence            9999997643

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=98.84  E-value=4.8e-08  Score=68.02  Aligned_cols=128  Identities=15%  Similarity=0.110  Sum_probs=67.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEE--EEEeeCCceEEEEeCCCCCCCCCCcHHH----
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ--RTVLKDGQVVNVIDTPGLFDFSAGSEFV----   89 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~--~~~~~~~~~~~v~DtpG~~~~~~~~~~~----   89 (173)
                      -.++..++++|++|+|||||++.|.|...+..+.............  .... .....++.+.|.+.....-.+.+    
T Consensus        23 i~~G~~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~~~-~~~i~~~~q~~~~~~~~t~~~~l~~~l  101 (178)
T cd03229          23 IEAGEIVALLGPSGSGKSTLLRCIAGLEEPDSGSILIDGEDLTDLEDELPPL-RRRIGMVFQDFALFPHLTVLENIALGL  101 (178)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEEECCEEccccchhHHHH-hhcEEEEecCCccCCCCCHHHheeecC
Confidence            3577899999999999999999999976543332111111000000  0001 12233445555554321111111    


Q ss_pred             ---HHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHH-HHHHHHHcccccceEEEEEeCC
Q 043441           90 ---GMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAAL-HSWQTLFGKKVFDYMIVVFTGG  147 (173)
Q Consensus        90 ---~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~~iv~tk~  147 (173)
                         .++....+.....++..+++--+.. .++......+ +.+.+....  ....+++++|.
T Consensus       102 S~G~~qr~~la~al~~~p~llilDEP~~-~LD~~~~~~l~~~l~~~~~~--~~~tiii~sH~  160 (178)
T cd03229         102 SGGQQQRVALARALAMDPDVLLLDEPTS-ALDPITRREVRALLKSLQAQ--LGITVVLVTHD  160 (178)
T ss_pred             CHHHHHHHHHHHHHHCCCCEEEEeCCcc-cCCHHHHHHHHHHHHHHHHh--cCCEEEEEeCC
Confidence               2334445556777788766544444 7777754443 444443221  13577888874

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=98.84  E-value=3.1e-09  Score=77.19  Aligned_cols=78  Identities=14%  Similarity=-0.006  Sum_probs=36.5

Q ss_pred             eEEEEeCCCCCCCCCCcHHHHHHHHHHHHhcc-CCceEEEEEeecCCCCCHHHHHHHHHHHHHHc-ccccceEEEEEeCC
Q 043441           70 VVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAK-DGIHAVLVGFSVRSRFPQEEEAALHSWQTLFG-KKVFDYMIVVFTGG  147 (173)
Q Consensus        70 ~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~-~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~-~~~~~~~~iv~tk~  147 (173)
                      .+.++||||+.+.    -.........+.... ...-++++++|+. .+..-....-..+....- -+...|.+.|+||+
T Consensus        92 ~y~l~DtPGQiEl----f~~~~~~~~i~~~L~~~~~~~~v~LvD~~-~~~~~~~f~s~~L~s~s~~~~~~lP~vnvlsK~  166 (238)
T PF03029_consen   92 DYLLFDTPGQIEL----FTHSDSGRKIVERLQKNGRLVVVFLVDSS-FCSDPSKFVSSLLLSLSIMLRLELPHVNVLSKI  166 (238)
T ss_dssp             SEEEEE--SSHHH----HHHSHHHHHHHHTSSS----EEEEEE-GG-G-SSHHHHHHHHHHHHHHHHHHTSEEEEEE--G
T ss_pred             cEEEEeCCCCEEE----EEechhHHHHHHHHhhhcceEEEEEEecc-cccChhhHHHHHHHHHHHHhhCCCCEEEeeecc
Confidence            6899999998753    112222223333322 3345788889987 554433222222222111 12338999999999


Q ss_pred             CCCCC
Q 043441          148 DELED  152 (173)
Q Consensus       148 D~~~~  152 (173)
                      |++..
T Consensus       167 Dl~~~  171 (238)
T PF03029_consen  167 DLLSK  171 (238)
T ss_dssp             GGS-H
T ss_pred             Ccccc
Confidence            99974

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.84  E-value=1.3e-08  Score=78.31  Aligned_cols=60  Identities=27%  Similarity=0.284  Sum_probs=40.7

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCcc----ccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFK----SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   82 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~----~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~   82 (173)
                      +..++++|.+|+|||||+|+|++.....    .....++.|.....  +..  .....++||||+...
T Consensus       154 ~~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~~--~~~--~~~~~l~DtPG~~~~  217 (360)
T TIGR03597       154 KKDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLIE--IPL--DDGHSLYDTPGIINS  217 (360)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEEE--EEe--CCCCEEEECCCCCCh
Confidence            4689999999999999999999854211    22233344444332  322  344679999999875

This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.

>KOG0077 consensus Vesicle coat complex COPII, GTPase subunit SAR1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.83  E-value=3.1e-08  Score=66.62  Aligned_cols=117  Identities=11%  Similarity=0.038  Sum_probs=75.7

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ...+++++|--+||||||++.|-....   +.-.+  |.-........ .+..+..+|.-|..           +.++.+
T Consensus        19 K~gKllFlGLDNAGKTTLLHMLKdDrl---~qhvP--TlHPTSE~l~I-g~m~ftt~DLGGH~-----------qArr~w   81 (193)
T KOG0077|consen   19 KFGKLLFLGLDNAGKTTLLHMLKDDRL---GQHVP--TLHPTSEELSI-GGMTFTTFDLGGHL-----------QARRVW   81 (193)
T ss_pred             cCceEEEEeecCCchhhHHHHHccccc---cccCC--CcCCChHHhee-cCceEEEEccccHH-----------HHHHHH
Confidence            346899999999999999999966542   11111  21111122333 78999999988854           455566


Q ss_pred             HhccCCceEEEEEeecCCCCC-HHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFP-QEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +.++..+|++++.+|+-+.-. .+.+..++.+...- .-.+.|++|+.||+|....
T Consensus        82 kdyf~~v~~iv~lvda~d~er~~es~~eld~ll~~e-~la~vp~lilgnKId~p~a  136 (193)
T KOG0077|consen   82 KDYFPQVDAIVYLVDAYDQERFAESKKELDALLSDE-SLATVPFLILGNKIDIPYA  136 (193)
T ss_pred             HHHHhhhceeEeeeehhhHHHhHHHHHHHHHHHhHH-HHhcCcceeecccccCCCc
Confidence            678888999999999963221 11222222222220 0145899999999999876

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=98.83  E-value=6.1e-08  Score=73.28  Aligned_cols=126  Identities=17%  Similarity=0.186  Sum_probs=69.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc------CCC-C----------ccceeeEEEEEE---------------
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR------ASS-S----------GVTSTCEMQRTV---------------   64 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~------~~~-~----------~~t~~~~~~~~~---------------   64 (173)
                      .++..++++|++|+||||++..|.+.-.....      ... .          ............               
T Consensus       112 ~~~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~r~~a~eql~~~a~~~~i~~~~~~~~~dpa~~v~~~l~~  191 (318)
T PRK10416        112 KKPFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVWGERVGVPVIAQKEGADPASVAFDAIQA  191 (318)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecCccchhhHHHHHHHHHHcCceEEEeCCCCCHHHHHHHHHHH
Confidence            45789999999999999999888653211110      000 0          000001111100               


Q ss_pred             -eeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh----ccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccce
Q 043441           65 -LKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL----AKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDY  139 (173)
Q Consensus        65 -~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~----~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  139 (173)
                       ...+..++++||||.....   ..+..++..+...    ....++..++|++++..  .+.....+...+..     ..
T Consensus       192 ~~~~~~D~ViIDTaGr~~~~---~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g--~~~~~~a~~f~~~~-----~~  261 (318)
T PRK10416        192 AKARGIDVLIIDTAGRLHNK---TNLMEELKKIKRVIKKADPDAPHEVLLVLDATTG--QNALSQAKAFHEAV-----GL  261 (318)
T ss_pred             HHhCCCCEEEEeCCCCCcCC---HHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCC--hHHHHHHHHHHhhC-----CC
Confidence             0133478999999987543   3333444444332    12356788999999832  22222222222221     56


Q ss_pred             EEEEEeCCCCCCC
Q 043441          140 MIVVFTGGDELED  152 (173)
Q Consensus       140 ~~iv~tk~D~~~~  152 (173)
                      ..+++||.|....
T Consensus       262 ~giIlTKlD~t~~  274 (318)
T PRK10416        262 TGIILTKLDGTAK  274 (318)
T ss_pred             CEEEEECCCCCCC
Confidence            7899999997643

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.81  E-value=2.3e-08  Score=76.84  Aligned_cols=122  Identities=21%  Similarity=0.148  Sum_probs=68.4

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccC--------CCC----------ccceeeEEEEEE-----------ee--
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRA--------SSS----------GVTSTCEMQRTV-----------LK--   66 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~--------~~~----------~~t~~~~~~~~~-----------~~--   66 (173)
                      .+.+++++|++|+||||++..|...-. ..+.        ...          ............           ..  
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L~-~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~  318 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQFH-GKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEE  318 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHHH-HcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhc
Confidence            457899999999999999999864211 0000        000          000000000000           00  


Q ss_pred             CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeC
Q 043441           67 DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTG  146 (173)
Q Consensus        67 ~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk  146 (173)
                      .+..+++|||||....   ......++.+.+...  .++.+++|++++ .-.......    .+.|..  ...--+++||
T Consensus       319 ~~~DvVLIDTaGRs~k---d~~lm~EL~~~lk~~--~PdevlLVLsAT-tk~~d~~~i----~~~F~~--~~idglI~TK  386 (436)
T PRK11889        319 ARVDYILIDTAGKNYR---ASETVEEMIETMGQV--EPDYICLTLSAS-MKSKDMIEI----ITNFKD--IHIDGIVFTK  386 (436)
T ss_pred             cCCCEEEEeCccccCc---CHHHHHHHHHHHhhc--CCCeEEEEECCc-cChHHHHHH----HHHhcC--CCCCEEEEEc
Confidence            1347899999998652   234455566555543  456778888875 222222333    333333  2567799999


Q ss_pred             CCCCCC
Q 043441          147 GDELED  152 (173)
Q Consensus       147 ~D~~~~  152 (173)
                      .|.-..
T Consensus       387 LDET~k  392 (436)
T PRK11889        387 FDETAS  392 (436)
T ss_pred             ccCCCC
Confidence            998764

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.80  E-value=4.1e-08  Score=81.16  Aligned_cols=124  Identities=20%  Similarity=0.164  Sum_probs=68.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC-cccee------------------eEEEEE-----------EeeC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSS-GVTST------------------CEMQRT-----------VLKD   67 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~-~~t~~------------------~~~~~~-----------~~~~   67 (173)
                      .+..++++|++|+||||++..|.+......+.... -.+.+                  ......           .. .
T Consensus       184 ~g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~~~-~  262 (767)
T PRK14723        184 QGGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPVHAVKDAADLRFALAAL-G  262 (767)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHHHh-c
Confidence            45789999999999999999998754221111000 00000                  000000           11 3


Q ss_pred             CceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc-ccceEEEEEeC
Q 043441           68 GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK-VFDYMIVVFTG  146 (173)
Q Consensus        68 ~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~iv~tk  146 (173)
                      +..+++|||||.....   ....+++.....  ...++-.++|++++..     ...++.+.+.|... .....-+|+||
T Consensus       263 ~~D~VLIDTAGRs~~d---~~l~eel~~l~~--~~~p~e~~LVLsAt~~-----~~~l~~i~~~f~~~~~~~i~glIlTK  332 (767)
T PRK14723        263 DKHLVLIDTVGMSQRD---RNVSEQIAMLCG--VGRPVRRLLLLNAASH-----GDTLNEVVHAYRHGAGEDVDGCIITK  332 (767)
T ss_pred             CCCEEEEeCCCCCccC---HHHHHHHHHHhc--cCCCCeEEEEECCCCc-----HHHHHHHHHHHhhcccCCCCEEEEec
Confidence            3478999999977532   334444443332  2345667889988721     22333333333321 01345688999


Q ss_pred             CCCCCC
Q 043441          147 GDELED  152 (173)
Q Consensus       147 ~D~~~~  152 (173)
                      .|.-..
T Consensus       333 LDEt~~  338 (767)
T PRK14723        333 LDEATH  338 (767)
T ss_pred             cCCCCC
Confidence            998754

>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.80  E-value=2.2e-08  Score=85.78  Aligned_cols=135  Identities=16%  Similarity=0.213  Sum_probs=83.1

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCcccc---C--CCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHH----HH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSR---A--SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEF----VG   90 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~---~--~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~----~~   90 (173)
                      +=.+++|++|+||||++..- |.......   .  .....|..|.+     .-+...++|||.|-...+.+..+    ..
T Consensus       126 PWy~viG~pgsGKTtal~~s-gl~Fpl~~~~~~~~~~~~gT~~cdw-----wf~deaVlIDtaGry~~q~s~~~~~~~~W  199 (1188)
T COG3523         126 PWYMVIGPPGSGKTTALLNS-GLQFPLAEQMGALGLAGPGTRNCDW-----WFTDEAVLIDTAGRYITQDSADEVDRAEW  199 (1188)
T ss_pred             CceEEecCCCCCcchHHhcc-cccCcchhhhccccccCCCCcccCc-----ccccceEEEcCCcceecccCcchhhHHHH
Confidence            34689999999999988552 22111111   0  11112444432     23567789999998876642222    22


Q ss_pred             HHHHHHHHh--ccCCceEEEEEeecCCCCCHHH----------HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHH
Q 043441           91 MEIVKCIGL--AKDGIHAVLVGFSVRSRFPQEE----------EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLE  158 (173)
Q Consensus        91 ~~~~~~~~~--~~~~~~~ii~v~~~~~~~~~~~----------~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~  158 (173)
                      ..+...++.  ..+..++||+.+++.+-.+...          +..++++.+.++..  .|+++++||.|++.+    .+
T Consensus       200 ~~fL~lLkk~R~~~piNGiiltlsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL~~~--~PVYl~lTk~Dll~G----F~  273 (1188)
T COG3523         200 LGFLGLLKKYRRRRPLNGIILTLSVSDLLTADPAEREALARTLRARLQELRETLHAR--LPVYLVLTKADLLPG----FE  273 (1188)
T ss_pred             HHHHHHHHHhccCCCCceEEEEEEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhccC--CceEEEEeccccccc----HH
Confidence            233344444  4566799999999863333222          23456666666655  899999999999975    88


Q ss_pred             HHhcccCC
Q 043441          159 DYLGRECP  166 (173)
Q Consensus       159 ~~~~~~~~  166 (173)
                      +|+.....
T Consensus       274 efF~~l~~  281 (1188)
T COG3523         274 EFFGSLNK  281 (1188)
T ss_pred             HHHhccCH
Confidence            88877443

>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.80  E-value=1.1e-08  Score=69.24  Aligned_cols=121  Identities=12%  Similarity=-0.042  Sum_probs=76.4

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCcc-ccC--CCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFK-SRA--SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~-~~~--~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      ....++++|.-+||||||+-++-....-. .+.  +....|......++.. .+..+.+||--|..           ..+
T Consensus        16 e~y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig~i~v-~~~~l~fwdlgGQe-----------~lr   83 (197)
T KOG0076|consen   16 EDYSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIGTIEV-CNAPLSFWDLGGQE-----------SLR   83 (197)
T ss_pred             hhhhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeecceee-ccceeEEEEcCChH-----------HHH
Confidence            45679999999999999997753211100 122  2223344444555666 57789999988833           566


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHH-HHcccccceEEEEEeCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQT-LFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~-~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +.++.+|..+|++|+++|++++-.-. ....++.+.+ ..-  ...|++++.||-|+-..
T Consensus        84 Slw~~yY~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~l--eg~p~L~lankqd~q~~  141 (197)
T KOG0076|consen   84 SLWKKYYWLAHGIIYVIDATDRERFEESKTAFEKVVENEKL--EGAPVLVLANKQDLQNA  141 (197)
T ss_pred             HHHHHHHHHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHh--cCCchhhhcchhhhhhh
Confidence            66677888999999999998422111 1222222221 111  22699999999997754

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=98.79  E-value=3.5e-08  Score=69.51  Aligned_cols=127  Identities=17%  Similarity=0.109  Sum_probs=71.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHH------
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFV------   89 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~------   89 (173)
                      -..+..++++||+|||||||+.+|-+...+.+|........................|+.-..+++...-.+.+      
T Consensus        25 v~~Gevv~iiGpSGSGKSTlLRclN~LE~~~~G~I~i~g~~~~~~~~~~~~R~~vGmVFQ~fnLFPHlTvleNv~lap~~  104 (240)
T COG1126          25 VEKGEVVVIIGPSGSGKSTLLRCLNGLEEPDSGSITVDGEDVGDKKDILKLRRKVGMVFQQFNLFPHLTVLENVTLAPVK  104 (240)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHCCcCCCCceEEECCEeccchhhHHHHHHhcCeecccccccccchHHHHHHhhhHH
Confidence            35778999999999999999999999887666644332211100000000011122333333333321111110      


Q ss_pred             ------------------------------------HHHHHHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHH
Q 043441           90 ------------------------------------GMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLF  132 (173)
Q Consensus        90 ------------------------------------~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~  132 (173)
                                                          +++-.-++....-+++.++|--+.+ .++++. .+.++.++++.
T Consensus       105 v~~~~k~eA~~~A~~lL~~VGL~~ka~~yP~qLSGGQqQRVAIARALaM~P~vmLFDEPTS-ALDPElv~EVL~vm~~LA  183 (240)
T COG1126         105 VKKLSKAEAREKALELLEKVGLADKADAYPAQLSGGQQQRVAIARALAMDPKVMLFDEPTS-ALDPELVGEVLDVMKDLA  183 (240)
T ss_pred             HcCCCHHHHHHHHHHHHHHcCchhhhhhCccccCcHHHHHHHHHHHHcCCCCEEeecCCcc-cCCHHHHHHHHHHHHHHH
Confidence                                                3333344455666788777655555 777774 56667777764


Q ss_pred             cccccceEEEEEeC
Q 043441          133 GKKVFDYMIVVFTG  146 (173)
Q Consensus       133 ~~~~~~~~~iv~tk  146 (173)
                      ..   .-+++++||
T Consensus       184 ~e---GmTMivVTH  194 (240)
T COG1126         184 EE---GMTMIIVTH  194 (240)
T ss_pred             Hc---CCeEEEEec
Confidence            43   358899999

>cd01859 MJ1464 MJ1464

Probab=98.79  E-value=3.4e-08  Score=67.21  Aligned_cols=57  Identities=28%  Similarity=0.331  Sum_probs=38.5

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   79 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~   79 (173)
                      ...+++++|.+|+||||++|.+.+........ ..+.|...+  ...  .+..+.++||||+
T Consensus       100 ~~~~~~~ig~~~~Gkssl~~~l~~~~~~~~~~-~~~~t~~~~--~~~--~~~~~~~~DtpGi  156 (156)
T cd01859         100 KEGKVGVVGYPNVGKSSIINALKGRHSASTSP-SPGYTKGEQ--LVK--ITSKIYLLDTPGV  156 (156)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCccccCC-CCCeeeeeE--EEE--cCCCEEEEECcCC
Confidence            46788999999999999999999765432222 222333222  222  2347899999995

This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=98.76  E-value=2.1e-07  Score=64.51  Aligned_cols=126  Identities=12%  Similarity=0.046  Sum_probs=66.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHH-----H
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFV-----G   90 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~-----~   90 (173)
                      -.++..++++|++|+|||||++.|.|......+........... ..... .....++...|.+.....-.+.+     .
T Consensus        23 i~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~g~~~~~-~~~~~-~~~i~~~~q~~~~~~~~tv~~~~~LS~G~  100 (173)
T cd03230          23 VEKGEIYGLLGPNGAGKTTLIKIILGLLKPDSGEIKVLGKDIKK-EPEEV-KRRIGYLPEEPSLYENLTVRENLKLSGGM  100 (173)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECCEEccc-chHhh-hccEEEEecCCccccCCcHHHHhhcCHHH
Confidence            35778999999999999999999999764333321111100000 00011 12233444445554321111111     2


Q ss_pred             HHHHHHHHhccCCceEEEEEeecCCCCCHHHHH-HHHHHHHHHcccccceEEEEEeCC
Q 043441           91 MEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEA-ALHSWQTLFGKKVFDYMIVVFTGG  147 (173)
Q Consensus        91 ~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~~iv~tk~  147 (173)
                      .+....+.....+++.+++--+.. .++..... .++.+.+. ..+  ..+++++||.
T Consensus       101 ~qrv~laral~~~p~illlDEPt~-~LD~~~~~~l~~~l~~~-~~~--g~tiii~th~  154 (173)
T cd03230         101 KQRLALAQALLHDPELLILDEPTS-GLDPESRREFWELLREL-KKE--GKTILLSSHI  154 (173)
T ss_pred             HHHHHHHHHHHcCCCEEEEeCCcc-CCCHHHHHHHHHHHHHH-HHC--CCEEEEECCC
Confidence            233345555677888766544444 77777544 44444443 222  3577888874

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=98.76  E-value=3.9e-08  Score=74.47  Aligned_cols=89  Identities=18%  Similarity=0.128  Sum_probs=63.4

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-----------C------CceEEEEeCCCCCCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-----------D------GQVVNVIDTPGLFDF   82 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-----------~------~~~~~v~DtpG~~~~   82 (173)
                      .++.+||.+++|||||+|+++....  ....++-.|.+........+           +      ...+.++|.+|+...
T Consensus         3 l~~GIVGlPNVGKSTlFnAlT~~~a--~~aNYPF~TIePN~Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGLV~G   80 (372)
T COG0012           3 LKIGIVGLPNVGKSTLFNALTKAGA--EIANYPFCTIEPNVGVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIAGLVKG   80 (372)
T ss_pred             ceeEEecCCCCcHHHHHHHHHcCCc--cccCCCcccccCCeeEEecCchHHHHHHHhcCCCCcEEeeeeEEEEecccCCC
Confidence            6799999999999999999998764  22233334443333222111           1      135889999999998


Q ss_pred             CCCcHHHHHHHHHHHHhccCCceEEEEEeecC
Q 043441           83 SAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVR  114 (173)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~  114 (173)
                      .+.-+-++.++..    ..+.+|+|+-|++..
T Consensus        81 As~GeGLGNkFL~----~IRevdaI~hVVr~f  108 (372)
T COG0012          81 ASKGEGLGNKFLD----NIREVDAIIHVVRCF  108 (372)
T ss_pred             cccCCCcchHHHH----hhhhcCeEEEEEEec
Confidence            8887888888874    455669999999885

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=98.75  E-value=8.3e-08  Score=71.91  Aligned_cols=33  Identities=18%  Similarity=0.144  Sum_probs=27.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++++|++||||||+++.|+|.....+|
T Consensus        28 i~~Gei~gllG~NGAGKTTllk~l~gl~~p~~G   60 (293)
T COG1131          28 VEPGEIFGLLGPNGAGKTTLLKILAGLLKPTSG   60 (293)
T ss_pred             EcCCeEEEEECCCCCCHHHHHHHHhCCcCCCce
Confidence            456788999999999999999999997754444

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=98.74  E-value=2.6e-07  Score=64.18  Aligned_cols=108  Identities=14%  Similarity=0.054  Sum_probs=61.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceE-EEEeCCCCCCCCCCcHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVV-NVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~-~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      -+++..++++|++|+|||||++.|.|......+....              .+..+ .+.+.+.+       ..=.++..
T Consensus        22 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~--------------~g~~i~~~~q~~~L-------SgGq~qrv   80 (177)
T cd03222          22 VKEGEVIGIVGPNGTGKTTAVKILAGQLIPNGDNDEW--------------DGITPVYKPQYIDL-------SGGELQRV   80 (177)
T ss_pred             ECCCCEEEEECCCCChHHHHHHHHHcCCCCCCcEEEE--------------CCEEEEEEcccCCC-------CHHHHHHH
Confidence            3678899999999999999999999976433332111              11111 11111111       11233445


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHHH-HHHHHHHHHHcccccceEEEEEeCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEEE-AALHSWQTLFGKKVFDYMIVVFTGG  147 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~~iv~tk~  147 (173)
                      ..+.....+++.+++--+.+ .++.... ...+.+.+.....  ...+++++|.
T Consensus        81 ~laral~~~p~lllLDEPts-~LD~~~~~~l~~~l~~~~~~~--~~tiiivsH~  131 (177)
T cd03222          81 AIAAALLRNATFYLFDEPSA-YLDIEQRLNAARAIRRLSEEG--KKTALVVEHD  131 (177)
T ss_pred             HHHHHHhcCCCEEEEECCcc-cCCHHHHHHHHHHHHHHHHcC--CCEEEEEECC
Confidence            55566777888766544444 7776654 4444454442211  2578888884

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK13796 GTPase YqeH; Provisional

Probab=98.72  E-value=3.3e-08  Score=76.24  Aligned_cols=60  Identities=28%  Similarity=0.235  Sum_probs=39.0

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCC----ccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRA----FKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   82 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~----~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~   82 (173)
                      ...++++|.+|+|||||||+|++...    .......++.|......  .+  .....++||||+...
T Consensus       160 ~~~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~~~~~--~l--~~~~~l~DTPGi~~~  223 (365)
T PRK13796        160 GRDVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLDKIEI--PL--DDGSFLYDTPGIIHR  223 (365)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHhhccCccceEEecCCCCccceeEEE--Ec--CCCcEEEECCCcccc
Confidence            46899999999999999999986431    11112233445444333  22  223579999999753

>TIGR00092 GTP-binding protein YchF

Probab=98.72  E-value=1e-07  Score=72.91  Aligned_cols=89  Identities=15%  Similarity=0.034  Sum_probs=59.6

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCC-ccccCCCCccceeeEEEEEEeeC----------------CceEEEEeCCCCCCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRA-FKSRASSSGVTSTCEMQRTVLKD----------------GQVVNVIDTPGLFDF   82 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~-~~~~~~~~~~t~~~~~~~~~~~~----------------~~~~~v~DtpG~~~~   82 (173)
                      ..+.++|.+++|||||+|+|++... ...  .++..|.......+..++                ...+.++|.||+...
T Consensus         3 lk~GivGlPn~GKSTlfnaLT~~~~~~~a--~ypftTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~g   80 (368)
T TIGR00092         3 LSGGIVGLPNVGKSTLFAATTNLLGNEAA--NPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGG   80 (368)
T ss_pred             ceEEEECCCCCChHHHHHHHhCCCccccC--CCCCCCCCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEeccccccc
Confidence            6789999999999999999998764 211  122233333332232212                136899999999987


Q ss_pred             CCCcHHHHHHHHHHHHhccCCceEEEEEeecC
Q 043441           83 SAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVR  114 (173)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~  114 (173)
                      .+....++.++...++    .+|+++.|++..
T Consensus        81 As~g~Glgn~fL~~ir----~~d~l~hVvr~f  108 (368)
T TIGR00092        81 ASKGEGLGNQFLANIR----EVDIIQHVVRCF  108 (368)
T ss_pred             hhcccCcchHHHHHHH----hCCEEEEEEeCC
Confidence            6555556666665544    459999999884

This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=98.71  E-value=2.1e-07  Score=63.85  Aligned_cols=118  Identities=10%  Similarity=0.050  Sum_probs=61.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      -.++..++++|++|+|||||++.|.|......+.......................++.+   +..       =..+...
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G~v~~~g~~~~~~~~~~~~~~~i~~~~q---LS~-------G~~qrl~   92 (163)
T cd03216          23 VRRGEVHALLGENGAGKSTLMKILSGLYKPDSGEILVDGKEVSFASPRDARRAGIAMVYQ---LSV-------GERQMVE   92 (163)
T ss_pred             EeCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECCEECCcCCHHHHHhcCeEEEEe---cCH-------HHHHHHH
Confidence            467789999999999999999999997654333211111000000000000111122222   111       1234444


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHHHHH-HHHHHHHHcccccceEEEEEeCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEEEAA-LHSWQTLFGKKVFDYMIVVFTGG  147 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~iv~tk~  147 (173)
                      .+.....+++.+++--+.+ .++...... .+.+.+. ...  ..++|+.+|.
T Consensus        93 laral~~~p~illlDEP~~-~LD~~~~~~l~~~l~~~-~~~--~~tiii~sh~  141 (163)
T cd03216          93 IARALARNARLLILDEPTA-ALTPAEVERLFKVIRRL-RAQ--GVAVIFISHR  141 (163)
T ss_pred             HHHHHhcCCCEEEEECCCc-CCCHHHHHHHHHHHHHH-HHC--CCEEEEEeCC
Confidence            5556677888766543433 777765444 3444444 221  4577777775

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=98.71  E-value=1.5e-07  Score=65.23  Aligned_cols=126  Identities=16%  Similarity=0.091  Sum_probs=64.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHH----HHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEF----VGM   91 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~----~~~   91 (173)
                      -.++..++++|++|+|||||++.|.|......+................. .....++..-|.+... .-.+.    =..
T Consensus        25 i~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~-~~~i~~~~q~~~~~~~-tv~~~lLS~G~~  102 (173)
T cd03246          25 IEPGESLAIIGPSGSGKSTLARLILGLLRPTSGRVRLDGADISQWDPNEL-GDHVGYLPQDDELFSG-SIAENILSGGQR  102 (173)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHHhccCCCCCeEEECCEEcccCCHHHH-HhheEEECCCCccccC-cHHHHCcCHHHH
Confidence            35778999999999999999999999765444422111110000000000 1112223333333321 10010    122


Q ss_pred             HHHHHHHhccCCceEEEEEeecCCCCCHHHHHHH-HHHHHHHcccccceEEEEEeCC
Q 043441           92 EIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAAL-HSWQTLFGKKVFDYMIVVFTGG  147 (173)
Q Consensus        92 ~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~~iv~tk~  147 (173)
                      +....+.....+++.+++--+.. .++......+ +.+.+. ...  ..++++.||.
T Consensus       103 qrv~la~al~~~p~~lllDEPt~-~LD~~~~~~l~~~l~~~-~~~--~~tii~~sh~  155 (173)
T cd03246         103 QRLGLARALYGNPRILVLDEPNS-HLDVEGERALNQAIAAL-KAA--GATRIVIAHR  155 (173)
T ss_pred             HHHHHHHHHhcCCCEEEEECCcc-ccCHHHHHHHHHHHHHH-HhC--CCEEEEEeCC
Confidence            33344555777888766544444 7777765444 444443 222  4577888874

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.70  E-value=1e-07  Score=74.03  Aligned_cols=124  Identities=19%  Similarity=0.123  Sum_probs=67.9

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCC--------C----------ccceeeEEEEE----------EeeCCc
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASS--------S----------GVTSTCEMQRT----------VLKDGQ   69 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~--------~----------~~t~~~~~~~~----------~~~~~~   69 (173)
                      +...++++|++|+||||++..|........+...        .          ...........          .. .+.
T Consensus       222 ~~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~~~~~~~l~~~l~~-~~~  300 (432)
T PRK12724        222 QRKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTMGMPFYPVKDIKKFKETLAR-DGS  300 (432)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHHHHHHHhcCCCeeehHHHHHHHHHHHh-CCC
Confidence            3567999999999999999888642211011000        0          00000000000          00 245


Q ss_pred             eEEEEeCCCCCCCCCCcHHHHHHHHHHHHhcc-CCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCC
Q 043441           70 VVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAK-DGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGD  148 (173)
Q Consensus        70 ~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~-~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D  148 (173)
                      .+++|||||.....   .....++..++.... ..++-.++|++++.. .    ..+..+...|..-  ..--+++||.|
T Consensus       301 D~VLIDTaGr~~rd---~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~-~----~~~~~~~~~f~~~--~~~glIlTKLD  370 (432)
T PRK12724        301 ELILIDTAGYSHRN---LEQLERMQSFYSCFGEKDSVENLLVLSSTSS-Y----HHTLTVLKAYESL--NYRRILLTKLD  370 (432)
T ss_pred             CEEEEeCCCCCccC---HHHHHHHHHHHHhhcCCCCCeEEEEEeCCCC-H----HHHHHHHHHhcCC--CCCEEEEEccc
Confidence            78999999987432   234445555554432 224567788888722 1    2223333444322  56789999999


Q ss_pred             CCCC
Q 043441          149 ELED  152 (173)
Q Consensus       149 ~~~~  152 (173)
                      .-..
T Consensus       371 Et~~  374 (432)
T PRK12724        371 EADF  374 (432)
T ss_pred             CCCC
Confidence            8754

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=98.70  E-value=1.1e-07  Score=76.39  Aligned_cols=34  Identities=29%  Similarity=0.301  Sum_probs=29.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA   49 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~   49 (173)
                      -.++-+++|||.+|+|||||++.|.|......+.
T Consensus        26 ~~~G~riGLvG~NGaGKSTLLkilaG~~~~~~G~   59 (530)
T COG0488          26 LNPGERIGLVGRNGAGKSTLLKILAGELEPDSGE   59 (530)
T ss_pred             eCCCCEEEEECCCCCCHHHHHHHHcCCCcCCCCe
Confidence            4678899999999999999999999988655554

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=98.69  E-value=1.6e-07  Score=69.56  Aligned_cols=76  Identities=18%  Similarity=0.124  Sum_probs=46.3

Q ss_pred             CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh----ccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEE
Q 043441           67 DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL----AKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIV  142 (173)
Q Consensus        67 ~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~----~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i  142 (173)
                      .+..++++||||....   ...+..++..+...    ....+|.+++|++++ . ..........+.+..     ...-+
T Consensus       153 ~~~D~ViIDT~G~~~~---d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~-~-~~~~~~~~~~f~~~~-----~~~g~  222 (272)
T TIGR00064       153 RNIDVVLIDTAGRLQN---KVNLMDELKKIKRVIKKVDKDAPDEVLLVLDAT-T-GQNALEQAKVFNEAV-----GLTGI  222 (272)
T ss_pred             CCCCEEEEeCCCCCcc---hHHHHHHHHHHHHHHhcccCCCCceEEEEEECC-C-CHHHHHHHHHHHhhC-----CCCEE
Confidence            3457899999998763   23344444444332    223478899999997 2 233333333333322     45789


Q ss_pred             EEeCCCCCCC
Q 043441          143 VFTGGDELED  152 (173)
Q Consensus       143 v~tk~D~~~~  152 (173)
                      ++||.|.-..
T Consensus       223 IlTKlDe~~~  232 (272)
T TIGR00064       223 ILTKLDGTAK  232 (272)
T ss_pred             EEEccCCCCC
Confidence            9999998754

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>PRK14845 translation initiation factor IF-2; Provisional

Probab=98.69  E-value=2.5e-07  Score=79.15  Aligned_cols=103  Identities=15%  Similarity=0.102  Sum_probs=69.2

Q ss_pred             CHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeC-----------------CceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           31 GKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD-----------------GQVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        31 GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~-----------------~~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      +||||+.+|.+.+.....  ..+.|.......+....                 -..+.+|||||+...           
T Consensus       473 ~KTtLLD~iR~t~v~~~E--aGGITQ~IGa~~v~~~~~~~~~~~~~~~~~~~~~~p~i~fiDTPGhe~F-----------  539 (1049)
T PRK14845        473 HNTTLLDKIRKTRVAKKE--AGGITQHIGATEIPIDVIKKICGPLLKLLKAEIKIPGLLFIDTPGHEAF-----------  539 (1049)
T ss_pred             ccccHHHHHhCCCccccc--CCCceeccceEEEEecccccccccccccccccCCcCcEEEEECCCcHHH-----------
Confidence            399999999998874333  34455554444333311                 113899999995531           


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      .......+..+|++++|+++++.+.......++.+...     ..|+++++||+|+..
T Consensus       540 ~~lr~~g~~~aDivlLVVDa~~Gi~~qT~e~I~~lk~~-----~iPiIVViNKiDL~~  592 (1049)
T PRK14845        540 TSLRKRGGSLADLAVLVVDINEGFKPQTIEAINILRQY-----KTPFVVAANKIDLIP  592 (1049)
T ss_pred             HHHHHhhcccCCEEEEEEECcccCCHhHHHHHHHHHHc-----CCCEEEEEECCCCcc
Confidence            22222345678999999999877777776666655543     268999999999874

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=98.68  E-value=1.9e-07  Score=75.19  Aligned_cols=120  Identities=21%  Similarity=0.237  Sum_probs=78.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCC------C---------CccceeeEEEEEEee----CCceEEEEeC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRAS------S---------SGVTSTCEMQRTVLK----DGQVVNVIDT   76 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~------~---------~~~t~~~~~~~~~~~----~~~~~~v~Dt   76 (173)
                      +.....+.++|.=++|||+|+..|...........      .         .+.+...........    +..-+.++||
T Consensus       125 p~~irnV~l~GhLhhGKT~l~D~Lv~~tHp~~~~~~e~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~~~KS~l~nilDT  204 (971)
T KOG0468|consen  125 PERIRNVGLVGHLHHGKTALMDLLVEQTHPDFSKNTEADLRYTDTLFYEQERGCSIKSTPVTLVLSDSKGKSYLMNILDT  204 (971)
T ss_pred             cceEEEEEEeeccccChhHHHHhhceeccccccccccccccccccchhhHhcCceEeecceEEEEecCcCceeeeeeecC
Confidence            45678899999999999999999987654322110      0         122222221111110    2235789999


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           77 PGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        77 pG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      ||..++.       .+..    ..++-+|++++++|+.+...-+....++..-+   +.  .++++|+||+|++-
T Consensus       205 PGHVnF~-------DE~t----a~l~~sDgvVlvvDv~EGVmlntEr~ikhaiq---~~--~~i~vviNKiDRLi  263 (971)
T KOG0468|consen  205 PGHVNFS-------DETT----ASLRLSDGVVLVVDVAEGVMLNTERIIKHAIQ---NR--LPIVVVINKVDRLI  263 (971)
T ss_pred             CCcccch-------HHHH----HHhhhcceEEEEEEcccCceeeHHHHHHHHHh---cc--CcEEEEEehhHHHH
Confidence            9998742       2232    44556699999999987777776666554443   23  78999999999883

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.68  E-value=5.8e-07  Score=64.73  Aligned_cols=33  Identities=27%  Similarity=0.222  Sum_probs=28.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++-.+.++|++|+|||||+|.+.|......+
T Consensus        26 v~~GEfvsilGpSGcGKSTLLriiAGL~~p~~G   58 (248)
T COG1116          26 VEKGEFVAILGPSGCGKSTLLRLIAGLEKPTSG   58 (248)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            456789999999999999999999997765555

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=98.67  E-value=1.7e-07  Score=64.83  Aligned_cols=126  Identities=17%  Similarity=0.104  Sum_probs=64.9

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHH----HHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEF----VGM   91 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~----~~~   91 (173)
                      -.++..++++|++|+|||||++.|.|......+................. .....++.+.|.+.+. .-.+.    =.+
T Consensus        25 i~~G~~~~l~G~nGsGKstLl~~i~G~~~~~~G~i~~~g~~~~~~~~~~~-~~~i~~~~~~~~~~~~-t~~e~lLS~G~~  102 (171)
T cd03228          25 IKPGEKVAIVGPSGSGKSTLLKLLLRLYDPTSGEILIDGVDLRDLDLESL-RKNIAYVPQDPFLFSG-TIRENILSGGQR  102 (171)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHcCCCCCCCEEEECCEEhhhcCHHHH-HhhEEEEcCCchhccc-hHHHHhhCHHHH
Confidence            46788999999999999999999999765444422111100000000000 1112233334444321 11110    122


Q ss_pred             HHHHHHHhccCCceEEEEEeecCCCCCHHHHH-HHHHHHHHHcccccceEEEEEeCCC
Q 043441           92 EIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEA-ALHSWQTLFGKKVFDYMIVVFTGGD  148 (173)
Q Consensus        92 ~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~~iv~tk~D  148 (173)
                      +....+.....+++.+++--+.. .++..... ..+.+.+. ..   ..++++.||..
T Consensus       103 ~rl~la~al~~~p~llllDEP~~-gLD~~~~~~l~~~l~~~-~~---~~tii~~sh~~  155 (171)
T cd03228         103 QRIAIARALLRDPPILILDEATS-ALDPETEALILEALRAL-AK---GKTVIVIAHRL  155 (171)
T ss_pred             HHHHHHHHHhcCCCEEEEECCCc-CCCHHHHHHHHHHHHHh-cC---CCEEEEEecCH
Confidence            33344455677888766544444 77777644 34444443 22   35777777753

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=98.67  E-value=2.6e-07  Score=64.57  Aligned_cols=127  Identities=13%  Similarity=0.135  Sum_probs=64.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEE-EEEeeCCceEEEEeCC---CCCCCCCCcHHH--
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ-RTVLKDGQVVNVIDTP---GLFDFSAGSEFV--   89 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~v~Dtp---G~~~~~~~~~~~--   89 (173)
                      -.++..++++|++|+|||||++.|.|......+............. .... .....++.+-|   ++.....-.+.+  
T Consensus        23 i~~G~~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~~-~~~i~~~~q~~~~~~~~~~~t~~e~l~~  101 (182)
T cd03215          23 VRAGEIVGIAGLVGNGQTELAEALFGLRPPASGEITLDGKPVTRRSPRDAI-RAGIAYVPEDRKREGLVLDLSVAENIAL  101 (182)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCEECCccCHHHHH-hCCeEEecCCcccCcccCCCcHHHHHHH
Confidence            3567889999999999999999999976544442111110000000 0000 11122233322   233221111211  


Q ss_pred             -------HHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHH-HHHHHHHHcccccceEEEEEeCC
Q 043441           90 -------GMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAA-LHSWQTLFGKKVFDYMIVVFTGG  147 (173)
Q Consensus        90 -------~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~iv~tk~  147 (173)
                             .++....+.....+++.+++--+.+ .++...... .+.+.+. ...  ..++++.+|.
T Consensus       102 ~~~LS~G~~qrl~la~al~~~p~llllDEP~~-~LD~~~~~~l~~~l~~~-~~~--~~tiii~sh~  163 (182)
T cd03215         102 SSLLSGGNQQKVVLARWLARDPRVLILDEPTR-GVDVGAKAEIYRLIREL-ADA--GKAVLLISSE  163 (182)
T ss_pred             HhhcCHHHHHHHHHHHHHccCCCEEEECCCCc-CCCHHHHHHHHHHHHHH-HHC--CCEEEEEeCC
Confidence                   1133344555677888766543334 777775444 3444443 221  4577887775

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=98.66  E-value=4.5e-07  Score=71.97  Aligned_cols=135  Identities=17%  Similarity=0.209  Sum_probs=82.8

Q ss_pred             CCCCCCccEEEEEcCCCCCHHHHHHHHhC---CCC-----------cccc---------------CCCCccceeeEEEEE
Q 043441           13 TSPSNGVRTVVFVGRTGNGKSATGNSILG---RRA-----------FKSR---------------ASSSGVTSTCEMQRT   63 (173)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKStlin~l~~---~~~-----------~~~~---------------~~~~~~t~~~~~~~~   63 (173)
                      +..+.+-..++++|-..+||||++..|+-   ...           ...|               -+..++|.......+
T Consensus       171 q~~~k~~l~lvv~GhVdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerGvTm~v~~~~f  250 (603)
T KOG0458|consen  171 QSDPKDHLNLVVLGHVDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERGVTMDVKTTWF  250 (603)
T ss_pred             ccCCccceEEEEEeccccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcceeEEeeeEEE
Confidence            34455778899999999999999977642   111           0000               012355666655556


Q ss_pred             EeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecC-CCCCHH-----HHHHHHHHHHHHccccc
Q 043441           64 VLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVR-SRFPQE-----EEAALHSWQTLFGKKVF  137 (173)
Q Consensus        64 ~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~-~~~~~~-----~~~~~~~l~~~~~~~~~  137 (173)
                      +. ....++++|+||+.++       ..++.    ....-+|+.++|+|++ +.++..     .-.-.-.+...++   .
T Consensus       251 es-~~~~~tliDaPGhkdF-------i~nmi----~g~sqaD~avLvvd~s~~~FE~gfd~~gQtrEha~llr~Lg---i  315 (603)
T KOG0458|consen  251 ES-KSKIVTLIDAPGHKDF-------IPNMI----SGASQADVAVLVVDASTGEFESGFDPGGQTREHALLLRSLG---I  315 (603)
T ss_pred             ec-CceeEEEecCCCcccc-------chhhh----ccccccceEEEEEECCcchhhhccCCCCchHHHHHHHHHcC---c
Confidence            65 7789999999997764       12222    2334558889999985 122111     1112222333333   3


Q ss_pred             ceEEEEEeCCCCCCCCcccHHHHhc
Q 043441          138 DYMIVVFTGGDELEDNEETLEDYLG  162 (173)
Q Consensus       138 ~~~~iv~tk~D~~~~~~~~~~~~~~  162 (173)
                      .+.+|++||+|.+.=+...+++...
T Consensus       316 ~qlivaiNKmD~V~Wsq~RF~eIk~  340 (603)
T KOG0458|consen  316 SQLIVAINKMDLVSWSQDRFEEIKN  340 (603)
T ss_pred             ceEEEEeecccccCccHHHHHHHHH
Confidence            7899999999999876555555443

>KOG1491 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=98.66  E-value=1.4e-07  Score=70.52  Aligned_cols=93  Identities=19%  Similarity=0.142  Sum_probs=67.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeC-------------C---ceEEEEeCCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD-------------G---QVVNVIDTPGL   79 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~-------------~---~~~~v~DtpG~   79 (173)
                      ......+.+||.+++|||||+|+|+.....  ...++-.|.+.....+..+.             +   -.+.++|.+|+
T Consensus        17 ~~~~lkiGIVGlPNvGKST~fnalT~~~a~--~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGL   94 (391)
T KOG1491|consen   17 DGNNLKIGIVGLPNVGKSTFFNALTKSKAG--AANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGL   94 (391)
T ss_pred             CCCcceeeEeeCCCCchHHHHHHHhcCCCC--ccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeeccc
Confidence            445679999999999999999999987753  22344455555554443311             1   25899999999


Q ss_pred             CCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecC
Q 043441           80 FDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVR  114 (173)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~  114 (173)
                      ....+.-+-++..+.+-    .+.+|+|+-|+++.
T Consensus        95 vkGAs~G~GLGN~FLs~----iR~vDaifhVVr~f  125 (391)
T KOG1491|consen   95 VKGASAGEGLGNKFLSH----IRHVDAIFHVVRAF  125 (391)
T ss_pred             ccCcccCcCchHHHHHh----hhhccceeEEEEec
Confidence            99888888888777754    44558888888774

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=98.66  E-value=1.5e-07  Score=67.36  Aligned_cols=34  Identities=29%  Similarity=0.245  Sum_probs=28.2

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .-+++..++++|++|||||||+|.+-+...+.++
T Consensus        27 ~i~~Ge~vaI~GpSGSGKSTLLniig~ld~pt~G   60 (226)
T COG1136          27 EIEAGEFVAIVGPSGSGKSTLLNLLGGLDKPTSG   60 (226)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhcccCCCCc
Confidence            3467789999999999999999999887765444

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.65  E-value=5.4e-07  Score=69.48  Aligned_cols=116  Identities=20%  Similarity=0.266  Sum_probs=86.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCc-cccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAF-KSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~-~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .|+..|.--.|||||+.+++|..-- .......+.|.+..++.... ....+.++|.||..+           +.+.+-.
T Consensus         2 ii~t~GhidHgkT~L~~altg~~~d~l~EekKRG~TiDlg~~y~~~-~d~~~~fIDvpgh~~-----------~i~~mia   69 (447)
T COG3276           2 IIGTAGHIDHGKTTLLKALTGGVTDRLPEEKKRGITIDLGFYYRKL-EDGVMGFIDVPGHPD-----------FISNLLA   69 (447)
T ss_pred             eEEEeeeeeccchhhhhhhcccccccchhhhhcCceEeeeeEeccC-CCCceEEeeCCCcHH-----------HHHHHHh
Confidence            4677888889999999999985421 12234567888888888887 566999999999774           3444445


Q ss_pred             ccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .....|..++|+++.+.+.....+.+.-+ +.++.   .+.++|+||+|..++
T Consensus        70 g~~~~d~alLvV~~deGl~~qtgEhL~iL-dllgi---~~giivltk~D~~d~  118 (447)
T COG3276          70 GLGGIDYALLVVAADEGLMAQTGEHLLIL-DLLGI---KNGIIVLTKADRVDE  118 (447)
T ss_pred             hhcCCceEEEEEeCccCcchhhHHHHHHH-HhcCC---CceEEEEeccccccH
Confidence            56678999999999778877765555444 34444   678999999999976

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=98.64  E-value=7.6e-07  Score=63.16  Aligned_cols=33  Identities=15%  Similarity=0.153  Sum_probs=27.9

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++.+++|+|++|+|||||++.|.|......+
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   55 (201)
T cd03231          23 LAAGEALQVTGPNGSGKTTLLRILAGLSPPLAG   55 (201)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            467889999999999999999999997654444

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=98.64  E-value=1.7e-07  Score=74.27  Aligned_cols=122  Identities=20%  Similarity=0.212  Sum_probs=64.2

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCc-cceee------------------EEEE-----------EEeeC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSG-VTSTC------------------EMQR-----------TVLKD   67 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~-~t~~~------------------~~~~-----------~~~~~   67 (173)
                      .+..++++|++|+||||++..|.+......+..... .+.+.                  ....           ... .
T Consensus       255 ~g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVpv~~~~~~~Dl~~aL~~L-~  333 (484)
T PRK06995        255 RGGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILGVPVHAVKDAADLRLALSEL-R  333 (484)
T ss_pred             CCcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHHhCCCeeccCCchhHHHHHHhc-c
Confidence            457899999999999999999876432211110000 00000                  0000           011 2


Q ss_pred             CceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCC
Q 043441           68 GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGG  147 (173)
Q Consensus        68 ~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~  147 (173)
                      +...++|||+|.....   .... +....+..... ++-.++|++++..     ...+..+...|...  ...-+++||.
T Consensus       334 d~d~VLIDTaGr~~~d---~~~~-e~~~~l~~~~~-p~e~~LVLdAt~~-----~~~l~~i~~~f~~~--~~~g~IlTKl  401 (484)
T PRK06995        334 NKHIVLIDTIGMSQRD---RMVS-EQIAMLHGAGA-PVKRLLLLNATSH-----GDTLNEVVQAYRGP--GLAGCILTKL  401 (484)
T ss_pred             CCCeEEeCCCCcChhh---HHHH-HHHHHHhccCC-CCeeEEEEeCCCc-----HHHHHHHHHHhccC--CCCEEEEeCC
Confidence            3468999999977521   1112 22222222221 3346778888622     13333334443332  4567889999


Q ss_pred             CCCCC
Q 043441          148 DELED  152 (173)
Q Consensus       148 D~~~~  152 (173)
                      |.-..
T Consensus       402 Det~~  406 (484)
T PRK06995        402 DEAAS  406 (484)
T ss_pred             CCccc
Confidence            98754

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.64  E-value=2.4e-07  Score=73.78  Aligned_cols=25  Identities=28%  Similarity=0.388  Sum_probs=22.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..+..++|+|++|+||||++..|..
T Consensus       348 ~~G~vIaLVGPtGvGKTTtaakLAa  372 (559)
T PRK12727        348 ERGGVIALVGPTGAGKTTTIAKLAQ  372 (559)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999988864

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.64  E-value=1.4e-07  Score=72.28  Aligned_cols=123  Identities=17%  Similarity=0.094  Sum_probs=66.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccC--------CCC----------ccceeeEEEEEE-----------e--
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA--------SSS----------GVTSTCEMQRTV-----------L--   65 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~--------~~~----------~~t~~~~~~~~~-----------~--   65 (173)
                      .++..++++|++|+||||++..|..... ..+.        ...          +...........           .  
T Consensus       204 ~~~~ii~lvGptGvGKTTt~akLA~~l~-~~g~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~l~~  282 (407)
T PRK12726        204 SNHRIISLIGQTGVGKTTTLVKLGWQLL-KQNRTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQYMTY  282 (407)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHHHH-HcCCeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHHHHh
Confidence            4678899999999999999988753210 0000        000          000000000000           0  


Q ss_pred             eCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEe
Q 043441           66 KDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFT  145 (173)
Q Consensus        66 ~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~t  145 (173)
                      ..+..+++|||||....   ...+..++.......  .++.+++|++++    ....+..+ +...|..  ...--+++|
T Consensus       283 ~~~~D~VLIDTAGr~~~---d~~~l~EL~~l~~~~--~p~~~~LVLsag----~~~~d~~~-i~~~f~~--l~i~glI~T  350 (407)
T PRK12726        283 VNCVDHILIDTVGRNYL---AEESVSEISAYTDVV--HPDLTCFTFSSG----MKSADVMT-ILPKLAE--IPIDGFIIT  350 (407)
T ss_pred             cCCCCEEEEECCCCCcc---CHHHHHHHHHHhhcc--CCceEEEECCCc----ccHHHHHH-HHHhcCc--CCCCEEEEE
Confidence            02357899999998752   244455555554433  456667777664    11222322 2222332  156778999


Q ss_pred             CCCCCCC
Q 043441          146 GGDELED  152 (173)
Q Consensus       146 k~D~~~~  152 (173)
                      |.|.-..
T Consensus       351 KLDET~~  357 (407)
T PRK12726        351 KMDETTR  357 (407)
T ss_pred             cccCCCC
Confidence            9998754

>COG4988 CydD ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]

Probab=98.64  E-value=2.4e-07  Score=73.64  Aligned_cols=34  Identities=29%  Similarity=0.299  Sum_probs=28.6

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .-+++..+++||++|+||||+++.|.|......|
T Consensus       343 t~~~g~~talvG~SGaGKSTLl~lL~G~~~~~~G  376 (559)
T COG4988         343 TIKAGQLTALVGASGAGKSTLLNLLLGFLAPTQG  376 (559)
T ss_pred             EecCCcEEEEECCCCCCHHHHHHHHhCcCCCCCc
Confidence            3468889999999999999999999997764444

>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=98.63  E-value=1.5e-07  Score=66.90  Aligned_cols=124  Identities=17%  Similarity=0.213  Sum_probs=77.2

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH-HH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK-CI   97 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~-~~   97 (173)
                      .++|+++|.+|||||++=..+...... -.....+.|.+..-.+..+..+..+.+||.-|...       ..+.... .-
T Consensus         4 ~kKvlLMGrsGsGKsSmrsiiF~ny~a-~D~~rlg~tidveHsh~RflGnl~LnlwDcGgqe~-------fmen~~~~q~   75 (295)
T KOG3886|consen    4 KKKVLLMGRSGSGKSSMRSIIFANYIA-RDTRRLGATIDVEHSHVRFLGNLVLNLWDCGGQEE-------FMENYLSSQE   75 (295)
T ss_pred             cceEEEeccCCCCccccchhhhhhhhh-hhhhccCCcceeeehhhhhhhhheeehhccCCcHH-------HHHHHHhhcc
Confidence            478999999999999976665532211 12233456666655555553567889999988553       1222222 22


Q ss_pred             HhccCCceEEEEEeecCCC-CCHHH---HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSR-FPQEE---EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~-~~~~~---~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ...++..+++++++|+..+ +...-   ...++.+...   -....+.+++.|+|++..+
T Consensus        76 d~iF~nV~vli~vFDves~e~~~D~~~yqk~Le~ll~~---SP~AkiF~l~hKmDLv~~d  132 (295)
T KOG3886|consen   76 DNIFRNVQVLIYVFDVESREMEKDFHYYQKCLEALLQN---SPEAKIFCLLHKMDLVQED  132 (295)
T ss_pred             hhhheeheeeeeeeeccchhhhhhHHHHHHHHHHHHhc---CCcceEEEEEeechhcccc
Confidence            2367788999999999632 22222   2333334333   2236889999999999764

>PTZ00099 rab6; Provisional

Probab=98.63  E-value=6.5e-07  Score=62.25  Aligned_cols=72  Identities=17%  Similarity=0.026  Sum_probs=48.8

Q ss_pred             CceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeC
Q 043441           68 GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTG  146 (173)
Q Consensus        68 ~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk  146 (173)
                      ...+.+|||||...           +......+++++|++|+|+|++++.+-.. ..++..+....+.  ..|+++|.||
T Consensus        28 ~v~l~iwDt~G~e~-----------~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~~~--~~piilVgNK   94 (176)
T PTZ00099         28 PVRLQLWDTAGQER-----------FRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGK--DVIIALVGNK   94 (176)
T ss_pred             EEEEEEEECCChHH-----------hhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCC--CCeEEEEEEC
Confidence            35789999999653           33334456789999999999985433222 3455555443222  3688999999


Q ss_pred             CCCCCC
Q 043441          147 GDELED  152 (173)
Q Consensus       147 ~D~~~~  152 (173)
                      +|+...
T Consensus        95 ~DL~~~  100 (176)
T PTZ00099         95 TDLGDL  100 (176)
T ss_pred             cccccc
Confidence            998653

>cd00066 G-alpha G protein alpha subunit

Probab=98.63  E-value=3.8e-07  Score=69.13  Aligned_cols=81  Identities=10%  Similarity=0.131  Sum_probs=53.1

Q ss_pred             EEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCC--------CCHHHHHHHHHHHHH
Q 043441           60 MQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSR--------FPQEEEAALHSWQTL  131 (173)
Q Consensus        60 ~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~--------~~~~~~~~~~~l~~~  131 (173)
                      ...... ++..+.++|+.|...           .++.+..++.++++++||++.++.        ....-.+.++.+.++
T Consensus       153 ~~~f~~-~~~~~~~~DvgGq~~-----------~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i  220 (317)
T cd00066         153 ETKFTI-KNLKFRMFDVGGQRS-----------ERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSI  220 (317)
T ss_pred             EEEEEe-cceEEEEECCCCCcc-----------cchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHH
Confidence            333444 567789999999653           223333567899999999999832        112234555555555


Q ss_pred             Hccc--ccceEEEEEeCCCCCCC
Q 043441          132 FGKK--VFDYMIVVFTGGDELED  152 (173)
Q Consensus       132 ~~~~--~~~~~~iv~tk~D~~~~  152 (173)
                      +...  ...|+++++||.|.+..
T Consensus       221 ~~~~~~~~~pill~~NK~D~f~~  243 (317)
T cd00066         221 CNSRWFANTSIILFLNKKDLFEE  243 (317)
T ss_pred             HhCccccCCCEEEEccChHHHHH
Confidence            5443  23699999999998754

The alpha subunit of G proteins contains the guanine nucleotide binding site. The heterotrimeric GNP-binding proteins are signal transducers that communicate signals from many hormones, neurotransmitters, chemokines, and autocrine and paracrine factors. Extracellular signals are received by receptors, which activate the G proteins, which in turn route the signals to several distinct intracellular signaling pathways. The alpha subunit of G proteins is a weak GTPase. In the resting state, heterotrimeric G proteins are associated at the cytosolic face of the plasma membrane and the alpha subunit binds to GDP. Upon activation by a receptor GDP is replaced with GTP, and the G-alpha/GTP complex dissociates from the beta and gamma subunits. This results in activation of downstream signaling pathways, such as cAMP synthesis by adenylyl cyclase, which is terminated when GTP is hydrolized and the heterotrimers reconstitute.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=98.63  E-value=1.2e-07  Score=74.36  Aligned_cols=123  Identities=22%  Similarity=0.158  Sum_probs=65.2

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCC-ccccCCCCccceee------------------EEEEE-----------EeeC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRA-FKSRASSSGVTSTC------------------EMQRT-----------VLKD   67 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~-~~~~~~~~~~t~~~------------------~~~~~-----------~~~~   67 (173)
                      +...++++|++|+||||++..|..... ...+....-.+.+.                  .....           .. .
T Consensus       220 ~~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~~-~  298 (424)
T PRK05703        220 QGGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQL-R  298 (424)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHHh-C
Confidence            356899999999999999987754321 11110000000000                  00000           01 2


Q ss_pred             CceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCC
Q 043441           68 GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGG  147 (173)
Q Consensus        68 ~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~  147 (173)
                      +..+++|||||....   ......++..++.... .....++|++++ .-    ...++.+.+.|..-  ..--+++||.
T Consensus       299 ~~DlVlIDt~G~~~~---d~~~~~~L~~ll~~~~-~~~~~~LVl~a~-~~----~~~l~~~~~~f~~~--~~~~vI~TKl  367 (424)
T PRK05703        299 DCDVILIDTAGRSQR---DKRLIEELKALIEFSG-EPIDVYLVLSAT-TK----YEDLKDIYKHFSRL--PLDGLIFTKL  367 (424)
T ss_pred             CCCEEEEeCCCCCCC---CHHHHHHHHHHHhccC-CCCeEEEEEECC-CC----HHHHHHHHHHhCCC--CCCEEEEecc
Confidence            357899999998653   2333445555544222 234556777776 21    12233334444331  3346999999


Q ss_pred             CCCCC
Q 043441          148 DELED  152 (173)
Q Consensus       148 D~~~~  152 (173)
                      |+-..
T Consensus       368 Det~~  372 (424)
T PRK05703        368 DETSS  372 (424)
T ss_pred             ccccc
Confidence            99654

>PRK14974 cell division protein FtsY; Provisional

Probab=98.62  E-value=1.6e-07  Score=71.36  Aligned_cols=73  Identities=16%  Similarity=0.094  Sum_probs=44.8

Q ss_pred             CceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCC
Q 043441           68 GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGG  147 (173)
Q Consensus        68 ~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~  147 (173)
                      +..++++||+|....   ...+..++.......  .+|.+++|+++...  +......+.+.+..     ..-.+++||.
T Consensus       222 ~~DvVLIDTaGr~~~---~~~lm~eL~~i~~~~--~pd~~iLVl~a~~g--~d~~~~a~~f~~~~-----~~~giIlTKl  289 (336)
T PRK14974        222 GIDVVLIDTAGRMHT---DANLMDELKKIVRVT--KPDLVIFVGDALAG--NDAVEQAREFNEAV-----GIDGVILTKV  289 (336)
T ss_pred             CCCEEEEECCCccCC---cHHHHHHHHHHHHhh--CCceEEEeeccccc--hhHHHHHHHHHhcC-----CCCEEEEeee
Confidence            346899999998852   244455555554433  46788899998632  22222223333321     4578999999


Q ss_pred             CCCCC
Q 043441          148 DELED  152 (173)
Q Consensus       148 D~~~~  152 (173)
                      |....
T Consensus       290 D~~~~  294 (336)
T PRK14974        290 DADAK  294 (336)
T ss_pred             cCCCC
Confidence            98653

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=98.62  E-value=1.3e-06  Score=58.67  Aligned_cols=102  Identities=16%  Similarity=0.128  Sum_probs=58.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC-ceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG-QVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      -.++..++++|++|+|||||++.|.|......+...             + ++ ..+.++.  .+..       =..+..
T Consensus        23 ~~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~-------------~-~~~~~i~~~~--~lS~-------G~~~rv   79 (144)
T cd03221          23 INPGDRIGLVGRNGAGKSTLLKLIAGELEPDEGIVT-------------W-GSTVKIGYFE--QLSG-------GEKMRL   79 (144)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHcCCCCCCceEEE-------------E-CCeEEEEEEc--cCCH-------HHHHHH
Confidence            357789999999999999999999997643333111             1 11 1111111  1221       122334


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHHHHHH-HHHHHHHcccccceEEEEEeCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEEEAAL-HSWQTLFGKKVFDYMIVVFTGG  147 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~~iv~tk~  147 (173)
                      ..+.....+++.+++--+.. .++......+ +.+++.      ...+++.+|.
T Consensus        80 ~laral~~~p~illlDEP~~-~LD~~~~~~l~~~l~~~------~~til~~th~  126 (144)
T cd03221          80 ALAKLLLENPNLLLLDEPTN-HLDLESIEALEEALKEY------PGTVILVSHD  126 (144)
T ss_pred             HHHHHHhcCCCEEEEeCCcc-CCCHHHHHHHHHHHHHc------CCEEEEEECC
Confidence            44556677888766544444 6766654443 344433      3477888875

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.61  E-value=8.4e-07  Score=63.07  Aligned_cols=33  Identities=21%  Similarity=0.187  Sum_probs=27.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|+|......|
T Consensus        24 i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~p~~G   56 (204)
T PRK13538         24 LNAGELVQIEGPNGAGKTSLLRILAGLARPDAG   56 (204)
T ss_pred             ECCCcEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            457789999999999999999999997654444

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=98.61  E-value=1.8e-07  Score=75.63  Aligned_cols=33  Identities=21%  Similarity=0.151  Sum_probs=28.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA   49 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~   49 (173)
                      +++.+++++|++||||||+++.|+|...+.+|.
T Consensus       359 ~~G~~vaIvG~SGsGKSTLl~lL~g~~~p~~G~  391 (529)
T TIGR02868       359 PPGERVAILGPSGSGKSTLLMLLTGLLDPLQGE  391 (529)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCCCCcE
Confidence            578899999999999999999999977655553

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>cd03112 CobW_like The function of this protein family is unkown

Probab=98.61  E-value=8.1e-07  Score=60.67  Aligned_cols=72  Identities=15%  Similarity=0.007  Sum_probs=39.9

Q ss_pred             CceEEEEeCCCCCCCCCCcHHHHHHH-HHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeC
Q 043441           68 GQVVNVIDTPGLFDFSAGSEFVGMEI-VKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTG  146 (173)
Q Consensus        68 ~~~~~v~DtpG~~~~~~~~~~~~~~~-~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk  146 (173)
                      ....+++||||+.++.    .....+ ........-.++.+++++|+. .+...... .+.+.+.    ...-=+|++||
T Consensus        86 ~~d~I~IEt~G~~~p~----~~~~~~~~~~~~~~~~~~d~vv~vvDa~-~~~~~~~~-~~~~~~Q----i~~ad~ivlnk  155 (158)
T cd03112          86 AFDRIVIETTGLADPG----PVAQTFFMDEELAERYLLDGVITLVDAK-HANQHLDQ-QTEAQSQ----IAFADRILLNK  155 (158)
T ss_pred             CCCEEEEECCCcCCHH----HHHHHHhhchhhhcceeeccEEEEEEhh-HhHHHhhc-cHHHHHH----HHHCCEEEEec
Confidence            3467899999998642    222221 111223444678999999986 43332211 1222222    11335679999


Q ss_pred             CCC
Q 043441          147 GDE  149 (173)
Q Consensus       147 ~D~  149 (173)
                      +|+
T Consensus       156 ~dl  158 (158)
T cd03112         156 TDL  158 (158)
T ss_pred             ccC
Confidence            995

The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=98.61  E-value=4.9e-07  Score=64.81  Aligned_cols=33  Identities=30%  Similarity=0.305  Sum_probs=27.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++++|++|||||||++.|.|......|
T Consensus        26 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   58 (216)
T TIGR00960        26 ITKGEMVFLVGHSGAGKSTFLKLILGIEKPTRG   58 (216)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            367789999999999999999999997644333

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.61  E-value=1.2e-06  Score=62.70  Aligned_cols=33  Identities=18%  Similarity=0.261  Sum_probs=27.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......|
T Consensus        34 i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G   66 (214)
T PRK13543         34 VDAGEALLVQGDNGAGKTTLLRVLAGLLHVESG   66 (214)
T ss_pred             ECCCCEEEEEcCCCCCHHHHHHHHhCCCCCCCe
Confidence            357789999999999999999999997654444

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=98.60  E-value=6.2e-07  Score=64.94  Aligned_cols=33  Identities=27%  Similarity=0.242  Sum_probs=27.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|.|...+..|
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G   55 (232)
T cd03218          23 VKQGEIVGLLGPNGAGKTTTFYMIVGLVKPDSG   55 (232)
T ss_pred             ecCCcEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            457789999999999999999999997654444

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=98.60  E-value=1.2e-06  Score=62.91  Aligned_cols=33  Identities=30%  Similarity=0.252  Sum_probs=27.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|.|......|
T Consensus        27 i~~G~~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   59 (220)
T cd03293          27 VEEGEFVALVGPSGCGKSTLLRIIAGLERPTSG   59 (220)
T ss_pred             EeCCcEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            357788999999999999999999997644333

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=98.60  E-value=2.3e-06  Score=58.93  Aligned_cols=115  Identities=12%  Similarity=0.047  Sum_probs=61.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCC----------CCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD----------FSAG   85 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~----------~~~~   85 (173)
                      -.++..++++|++|+|||||++.|+|......+.........            ..++...|.+..          ....
T Consensus        24 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~~~------------i~~~~q~~~~~~~tv~~nl~~~~~~~   91 (166)
T cd03223          24 IKPGDRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGED------------LLFLPQRPYLPLGTLREQLIYPWDDV   91 (166)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCCce------------EEEECCCCccccccHHHHhhccCCCC
Confidence            357889999999999999999999997654444221111000            001111111110          0000


Q ss_pred             cHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCC
Q 043441           86 SEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGD  148 (173)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D  148 (173)
                      ...=.++....+.....+++.+++--+.+ .++......+..+...+     ...++++||..
T Consensus        92 LS~G~~~rv~laral~~~p~~lllDEPt~-~LD~~~~~~l~~~l~~~-----~~tiiivsh~~  148 (166)
T cd03223          92 LSGGEQQRLAFARLLLHKPKFVFLDEATS-ALDEESEDRLYQLLKEL-----GITVISVGHRP  148 (166)
T ss_pred             CCHHHHHHHHHHHHHHcCCCEEEEECCcc-ccCHHHHHHHHHHHHHh-----CCEEEEEeCCh
Confidence            11112334445556677888776654444 77766554443333222     35788888864

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=98.60  E-value=9.7e-07  Score=62.32  Aligned_cols=124  Identities=14%  Similarity=0.011  Sum_probs=64.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCC--CccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHH-----
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRR--AFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEF-----   88 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~--~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~-----   88 (173)
                      -.++..++|+|++|+|||||++.|.|..  ....+...........   ... .....++.+.|.+.....-.+.     
T Consensus        32 i~~Ge~~~l~G~nGsGKStLl~~i~Gl~~~~~~~G~i~~~g~~~~~---~~~-~~~i~~~~q~~~~~~~~t~~~~i~~~~  107 (194)
T cd03213          32 AKPGELTAIMGPSGAGKSTLLNALAGRRTGLGVSGEVLINGRPLDK---RSF-RKIIGYVPQDDILHPTLTVRETLMFAA  107 (194)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCCceEEEECCEeCch---Hhh-hheEEEccCcccCCCCCcHHHHHHHHH
Confidence            4678899999999999999999999976  4333321111100000   011 1222334444544432111111     


Q ss_pred             -------HHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHH-HHHHHHHcccccceEEEEEeCC
Q 043441           89 -------VGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAAL-HSWQTLFGKKVFDYMIVVFTGG  147 (173)
Q Consensus        89 -------~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~~iv~tk~  147 (173)
                             =..+....+.....+++.+++--+. +.++......+ +.+.+. ...  ..++|+++|.
T Consensus       108 ~~~~LS~G~~qrv~laral~~~p~illlDEP~-~~LD~~~~~~l~~~l~~~-~~~--~~tiii~sh~  170 (194)
T cd03213         108 KLRGLSGGERKRVSIALELVSNPSLLFLDEPT-SGLDSSSALQVMSLLRRL-ADT--GRTIICSIHQ  170 (194)
T ss_pred             HhccCCHHHHHHHHHHHHHHcCCCEEEEeCCC-cCCCHHHHHHHHHHHHHH-HhC--CCEEEEEecC
Confidence                   0122233445566777765554333 47777764443 444443 222  4578888885

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=98.59  E-value=4e-07  Score=68.60  Aligned_cols=34  Identities=21%  Similarity=0.147  Sum_probs=28.2

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .-.++..++++|++|||||||++.|+|...+.+|
T Consensus        15 ~i~~Ge~~~l~G~NGaGKSTLl~~l~Gl~~p~~G   48 (302)
T TIGR01188        15 KVREGEVFGFLGPNGAGKTTTIRMLTTLLRPTSG   48 (302)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            3467789999999999999999999997654444

This model describes daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. In eukaryotes proteins of similar function include p-gyco proteins, multidrug resistance protein etc.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=98.59  E-value=6.8e-07  Score=63.97  Aligned_cols=33  Identities=15%  Similarity=0.173  Sum_probs=27.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|.|......|
T Consensus        25 i~~G~~~~l~G~nGsGKSTLl~~i~Gl~~~~~G   57 (214)
T TIGR02673        25 IRKGEFLFLTGPSGAGKTTLLKLLYGALTPSRG   57 (214)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            367789999999999999999999997644444

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>PRK13536 nodulation factor exporter subunit NodI; Provisional

Probab=98.59  E-value=7.6e-07  Score=68.13  Aligned_cols=33  Identities=24%  Similarity=0.313  Sum_probs=28.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|+|...+..|
T Consensus        64 i~~Gei~gLlGpNGaGKSTLl~~L~Gl~~p~~G   96 (340)
T PRK13536         64 VASGECFGLLGPNGAGKSTIARMILGMTSPDAG   96 (340)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHcCCCCCce
Confidence            357889999999999999999999997654444

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=98.59  E-value=8.9e-07  Score=63.52  Aligned_cols=33  Identities=30%  Similarity=0.242  Sum_probs=27.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -+++..++|+|++|+|||||++.|+|......|
T Consensus        27 i~~G~~~~l~G~nGsGKSTLl~~i~Gl~~~~~G   59 (218)
T cd03255          27 IEKGEFVAIVGPSGSGKSTLLNILGGLDRPTSG   59 (218)
T ss_pred             EcCCCEEEEEcCCCCCHHHHHHHHhCCcCCCce
Confidence            457789999999999999999999997654444

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=98.58  E-value=1e-06  Score=64.14  Aligned_cols=34  Identities=26%  Similarity=0.291  Sum_probs=27.7

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .-+.+..+.|+||+|||||||+++++|.-....+
T Consensus        26 ~v~~G~~~~iiGPNGaGKSTLlK~iLGll~p~~G   59 (254)
T COG1121          26 SVEKGEITALIGPNGAGKSTLLKAILGLLKPSSG   59 (254)
T ss_pred             EEcCCcEEEEECCCCCCHHHHHHHHhCCCcCCcc
Confidence            3456689999999999999999999995544444

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=98.58  E-value=7.8e-07  Score=63.82  Aligned_cols=33  Identities=18%  Similarity=0.182  Sum_probs=27.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|.....+|
T Consensus        28 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   60 (218)
T cd03266          28 VKPGEVTGLLGPNGAGKTTTLRMLAGLLEPDAG   60 (218)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCcCCCCc
Confidence            357789999999999999999999997654343

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>KOG3859 consensus Septins (P-loop GTPases) [Cell cycle control, cell division, chromosome partitioning]

Probab=98.58  E-value=3.1e-07  Score=67.00  Aligned_cols=127  Identities=19%  Similarity=0.186  Sum_probs=74.7

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCC-CCccceeeEEEEEEe---eCCceEEEEeCCCCCCCCCCcHHH----
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRAS-SSGVTSTCEMQRTVL---KDGQVVNVIDTPGLFDFSAGSEFV----   89 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~-~~~~t~~~~~~~~~~---~~~~~~~v~DtpG~~~~~~~~~~~----   89 (173)
                      =..+|+-||.+|-||||||+.|++... ....+ ..-.+...+...+++   .-...+.++||.|+.+.-. .+..    
T Consensus        41 F~FNilCvGETg~GKsTLmdtLFNt~f-~~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvGfGDQin-K~~Syk~i  118 (406)
T KOG3859|consen   41 FCFNILCVGETGLGKSTLMDTLFNTKF-ESEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVGFGDQIN-KEDSYKPI  118 (406)
T ss_pred             ceEEEEEeccCCccHHHHHHHHhcccc-CCCCCccCCCCceeecchhhhhhcCeeEEEEEEeecccccccC-cccccchH
Confidence            456899999999999999999998763 33322 111222222222222   1224789999999997522 1111    


Q ss_pred             ------------HHH--HHHHH-HhccCCceEEEEEeecC-CCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           90 ------------GME--IVKCI-GLAKDGIHAVLVGFSVR-SRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        90 ------------~~~--~~~~~-~~~~~~~~~ii~v~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                                  .++  +++.+ ...-.+.|++++.+..+ ..+...+.-.++.+.+.      .+++-|+-|.|....
T Consensus       119 VdyidaQFEaYLQEELKi~Rsl~~~hDsRiH~CLYFI~PTGH~LKslDLvtmk~Ldsk------VNIIPvIAKaDtisK  191 (406)
T KOG3859|consen  119 VDYIDAQFEAYLQEELKIRRSLFTYHDSRIHVCLYFISPTGHSLKSLDLVTMKKLDSK------VNIIPVIAKADTISK  191 (406)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhccCceEEEEEEecCCCcchhHHHHHHHHHHhhh------hhhHHHHHHhhhhhH
Confidence                        111  11111 12345678888877664 34444455555544443      678888889998865

>PRK10908 cell division protein FtsE; Provisional

Probab=98.57  E-value=9.1e-07  Score=63.69  Aligned_cols=33  Identities=21%  Similarity=0.199  Sum_probs=27.9

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......+
T Consensus        25 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   57 (222)
T PRK10908         25 MRPGEMAFLTGHSGAGKSTLLKLICGIERPSAG   57 (222)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            367889999999999999999999997654444

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=98.57  E-value=8.4e-07  Score=66.98  Aligned_cols=32  Identities=22%  Similarity=0.265  Sum_probs=27.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .++..++++|++|||||||++.|+|...+..|
T Consensus        31 ~~Gei~gllGpNGaGKSTLl~~l~Gl~~p~~G   62 (306)
T PRK13537         31 QRGECFGLLGPNGAGKTTTLRMLLGLTHPDAG   62 (306)
T ss_pred             eCCcEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            56788999999999999999999997654444

>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.57  E-value=1.1e-07  Score=62.50  Aligned_cols=118  Identities=13%  Similarity=0.007  Sum_probs=76.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      ++...+++++|--|+||+|+.-.+--.+     ....-+|.......+.+ ++-.+.+||.-|..+           ++.
T Consensus        15 ~e~e~rililgldGaGkttIlyrlqvge-----vvttkPtigfnve~v~y-KNLk~~vwdLggqtS-----------irP   77 (182)
T KOG0072|consen   15 PEREMRILILGLDGAGKTTILYRLQVGE-----VVTTKPTIGFNVETVPY-KNLKFQVWDLGGQTS-----------IRP   77 (182)
T ss_pred             CccceEEEEeeccCCCeeEEEEEcccCc-----ccccCCCCCcCcccccc-ccccceeeEccCccc-----------ccH
Confidence            3477899999999999999765543211     11222333334444555 788999999888653           556


Q ss_pred             HHHhccCCceEEEEEeecCCCCC--HHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFP--QEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .+..++.+.+++|+|+|.+++..  .....+.-.+.+---  .....+++.||.|....
T Consensus        78 yWRcYy~dt~avIyVVDssd~dris~a~~el~~mL~E~eL--q~a~llv~anKqD~~~~  134 (182)
T KOG0072|consen   78 YWRCYYADTDAVIYVVDSSDRDRISIAGVELYSMLQEEEL--QHAKLLVFANKQDYSGA  134 (182)
T ss_pred             HHHHHhcccceEEEEEeccchhhhhhhHHHHHHHhccHhh--cCceEEEEeccccchhh
Confidence            66678889999999999985433  333344333443211  12568899999997644

>smart00275 G_alpha G protein alpha subunit

Probab=98.56  E-value=1.3e-06  Score=66.81  Aligned_cols=82  Identities=11%  Similarity=0.130  Sum_probs=53.6

Q ss_pred             EEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCC--------CHHHHHHHHHHHH
Q 043441           59 EMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRF--------PQEEEAALHSWQT  130 (173)
Q Consensus        59 ~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~--------~~~~~~~~~~l~~  130 (173)
                      ....... .+..+.++|..|...           .++.+..++.++++++||++.++.-        .......+..+.+
T Consensus       175 ~~~~f~~-~~~~~~~~DvgGqr~-----------~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~  242 (342)
T smart00275      175 QETAFIV-KKLFFRMFDVGGQRS-----------ERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFES  242 (342)
T ss_pred             EEEEEEE-CCeEEEEEecCCchh-----------hhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHH
Confidence            3333444 566788999988542           2333345778999999999998321        1223455555666


Q ss_pred             HHccc--ccceEEEEEeCCCCCCC
Q 043441          131 LFGKK--VFDYMIVVFTGGDELED  152 (173)
Q Consensus       131 ~~~~~--~~~~~~iv~tk~D~~~~  152 (173)
                      ++..+  ...|+++++||.|.+..
T Consensus       243 l~~~~~~~~~piil~~NK~D~~~~  266 (342)
T smart00275      243 ICNSRWFANTSIILFLNKIDLFEE  266 (342)
T ss_pred             HHcCccccCCcEEEEEecHHhHHH
Confidence            65543  33699999999998853

Subunit of G proteins that contains the guanine nucleotide binding site

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=98.56  E-value=9.3e-07  Score=63.18  Aligned_cols=33  Identities=27%  Similarity=0.218  Sum_probs=27.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++++|++|+|||||++.|+|......|
T Consensus        23 i~~G~~~~l~G~nGsGKSTLl~~l~G~~~~~~G   55 (213)
T cd03262          23 VKKGEVVVIIGPSGSGKSTLLRCINLLEEPDSG   55 (213)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            467889999999999999999999997654444

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=98.56  E-value=7.5e-07  Score=63.62  Aligned_cols=31  Identities=16%  Similarity=0.092  Sum_probs=25.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .++ .++++|++|+|||||++.|.|......|
T Consensus        24 ~~g-~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   54 (211)
T cd03264          24 GPG-MYGLLGPNGAGKTTLMRILATLTPPSSG   54 (211)
T ss_pred             cCC-cEEEECCCCCCHHHHHHHHhCCCCCCcc
Confidence            346 9999999999999999999997654444

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=98.56  E-value=1.7e-06  Score=61.20  Aligned_cols=33  Identities=21%  Similarity=0.165  Sum_probs=27.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|+|......+
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   55 (198)
T TIGR01189        23 LNAGEALQVTGPNGIGKTTLLRILAGLLRPDSG   55 (198)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCcc
Confidence            457889999999999999999999997644443

This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=98.55  E-value=1.2e-06  Score=62.57  Aligned_cols=33  Identities=27%  Similarity=0.241  Sum_probs=27.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......+
T Consensus        23 i~~G~~~~i~G~nGsGKSTLl~~l~G~~~~~~G   55 (210)
T cd03269          23 VEKGEIFGLLGPNGAGKTTTIRMILGIILPDSG   55 (210)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            357788999999999999999999997644333

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=98.55  E-value=1.1e-06  Score=62.68  Aligned_cols=33  Identities=30%  Similarity=0.300  Sum_probs=27.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|.....+|
T Consensus        23 i~~G~~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   55 (208)
T cd03268          23 VKKGEIYGFLGPNGAGKTTTMKIILGLIKPDSG   55 (208)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCcCCCce
Confidence            357789999999999999999999997654444

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=98.55  E-value=6e-07  Score=67.97  Aligned_cols=35  Identities=29%  Similarity=0.247  Sum_probs=29.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRAS   50 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~   50 (173)
                      -..+..++++||+||||||+++.|.|.....+|..
T Consensus        26 i~~Gef~vllGPSGcGKSTlLr~IAGLe~~~~G~I   60 (338)
T COG3839          26 IEDGEFVVLLGPSGCGKSTLLRMIAGLEEPTSGEI   60 (338)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCceE
Confidence            45677899999999999999999999887666543

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=98.55  E-value=1.9e-06  Score=61.85  Aligned_cols=34  Identities=26%  Similarity=0.307  Sum_probs=29.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA   49 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~   49 (173)
                      -.++..+.++|++|+||||+.+.|.|...+..|.
T Consensus        30 i~~Ge~lgivGeSGsGKSTL~r~l~Gl~~p~~G~   63 (252)
T COG1124          30 IERGETLGIVGESGSGKSTLARLLAGLEKPSSGS   63 (252)
T ss_pred             ecCCCEEEEEcCCCCCHHHHHHHHhcccCCCCce
Confidence            4678899999999999999999999988766654

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=98.54  E-value=1.6e-06  Score=61.94  Aligned_cols=33  Identities=21%  Similarity=0.206  Sum_probs=27.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|.|...+..|
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~p~~G   55 (213)
T cd03259          23 VEPGEFLALLGPSGCGKTTLLRLIAGLERPDSG   55 (213)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCe
Confidence            457789999999999999999999997654444

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=98.54  E-value=2.1e-06  Score=61.33  Aligned_cols=33  Identities=30%  Similarity=0.300  Sum_probs=27.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|...+.++
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G   55 (213)
T cd03301          23 IADGEFVVLLGPSGCGKTTTLRMIAGLEEPTSG   55 (213)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            357788999999999999999999997654444

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=98.54  E-value=5.7e-07  Score=66.44  Aligned_cols=123  Identities=20%  Similarity=0.118  Sum_probs=69.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCc---cccC----CC----------CccceeeEEEEEE-----------ee--C
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAF---KSRA----SS----------SGVTSTCEMQRTV-----------LK--D   67 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~---~~~~----~~----------~~~t~~~~~~~~~-----------~~--~   67 (173)
                      +..+++++|++|+||||++..|.+.-..   ..+.    ..          .............           ..  .
T Consensus        74 ~~~~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~  153 (270)
T PRK06731         74 EVQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEA  153 (270)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHhcC
Confidence            5589999999999999999887653210   0000    00          0000001111000           00  2


Q ss_pred             CceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCC
Q 043441           68 GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGG  147 (173)
Q Consensus        68 ~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~  147 (173)
                      +..++++||||....   ......++...+...  .++.+++|++++ .-.......++    .|..  ...--+++||.
T Consensus       154 ~~D~ViIDt~Gr~~~---~~~~l~el~~~~~~~--~~~~~~LVl~a~-~~~~d~~~~~~----~f~~--~~~~~~I~TKl  221 (270)
T PRK06731        154 RVDYILIDTAGKNYR---ASETVEEMIETMGQV--EPDYICLTLSAS-MKSKDMIEIIT----NFKD--IHIDGIVFTKF  221 (270)
T ss_pred             CCCEEEEECCCCCcC---CHHHHHHHHHHHhhh--CCCeEEEEEcCc-cCHHHHHHHHH----HhCC--CCCCEEEEEee
Confidence            457899999998742   234455566555433  456678899886 22222223333    3333  26678999999


Q ss_pred             CCCCC
Q 043441          148 DELED  152 (173)
Q Consensus       148 D~~~~  152 (173)
                      |+-..
T Consensus       222 Det~~  226 (270)
T PRK06731        222 DETAS  226 (270)
T ss_pred             cCCCC
Confidence            99864

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=98.54  E-value=1.3e-06  Score=62.80  Aligned_cols=33  Identities=21%  Similarity=0.206  Sum_probs=27.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|.|.....+|
T Consensus        25 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   57 (220)
T cd03263          25 VYKGEIFGLLGHNGAGKTTTLKMLTGELRPTSG   57 (220)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            357789999999999999999999997654444

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=98.54  E-value=9.3e-07  Score=68.23  Aligned_cols=126  Identities=16%  Similarity=0.216  Sum_probs=84.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHh--CCCCccccC------------------CCCccceeeEEEEEEeeCCceEEEEeC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSIL--GRRAFKSRA------------------SSSGVTSTCEMQRTVLKDGQVVNVIDT   76 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~--~~~~~~~~~------------------~~~~~t~~~~~~~~~~~~~~~~~v~Dt   76 (173)
                      ...++.+++.-+-|||||+--.|+  |......|.                  ...+.+....+....+ .+..+.+.||
T Consensus        10 ~rRRTFAIISHPDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqRGISVtsSVMqF~Y-~~~~iNLLDT   88 (528)
T COG4108          10 ARRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSSVMQFDY-ADCLVNLLDT   88 (528)
T ss_pred             hhhcceeEEecCCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhcCceEEeeEEEecc-CCeEEeccCC
Confidence            456789999999999999996654  221111111                  1135666677777777 8889999999


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCccc
Q 043441           77 PGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEET  156 (173)
Q Consensus        77 pG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~  156 (173)
                      ||..+++.+.-       +    .+-.+|..+.|+|+...+......+++.-+-.   +  .|++-.+||+|+-.-+...
T Consensus        89 PGHeDFSEDTY-------R----tLtAvDsAvMVIDaAKGiE~qT~KLfeVcrlR---~--iPI~TFiNKlDR~~rdP~E  152 (528)
T COG4108          89 PGHEDFSEDTY-------R----TLTAVDSAVMVIDAAKGIEPQTLKLFEVCRLR---D--IPIFTFINKLDREGRDPLE  152 (528)
T ss_pred             CCccccchhHH-------H----HHHhhheeeEEEecccCccHHHHHHHHHHhhc---C--CceEEEeeccccccCChHH
Confidence            99998753322       1    22245888999999867766655544332221   2  7999999999988665433


Q ss_pred             HHH
Q 043441          157 LED  159 (173)
Q Consensus       157 ~~~  159 (173)
                      +-+
T Consensus       153 LLd  155 (528)
T COG4108         153 LLD  155 (528)
T ss_pred             HHH
Confidence            333

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=98.54  E-value=1.1e-06  Score=62.32  Aligned_cols=28  Identities=25%  Similarity=0.461  Sum_probs=25.4

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .-.++..++++|++|+|||||++.|.|.
T Consensus        22 ~i~~Ge~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          22 TIKKGEVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             EECCCcEEEEECCCCCCHHHHHHHHhCC
Confidence            3467889999999999999999999997

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=98.54  E-value=2e-06  Score=63.34  Aligned_cols=33  Identities=27%  Similarity=0.273  Sum_probs=27.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......|
T Consensus        35 i~~Ge~~~I~G~NGsGKSTLlk~l~Gl~~p~~G   67 (257)
T PRK11247         35 IPAGQFVAVVGRSGCGKSTLLRLLAGLETPSAG   67 (257)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCe
Confidence            357789999999999999999999997654444

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=98.53  E-value=5.1e-07  Score=73.58  Aligned_cols=117  Identities=17%  Similarity=0.159  Sum_probs=79.2

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeE--EEEE----------------EeeCCceEEEEeCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCE--MQRT----------------VLKDGQVVNVIDTP   77 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~--~~~~----------------~~~~~~~~~v~Dtp   77 (173)
                      .-+.+.|+++|-...|||-|+..|-+.++..+.+  .+.|....  +...                .+ +-..+.+||||
T Consensus       472 ~lRSPIcCilGHVDTGKTKlld~ir~tNVqegea--ggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~-kvPg~lvIdtp  548 (1064)
T KOG1144|consen  472 NLRSPICCILGHVDTGKTKLLDKIRGTNVQEGEA--GGITQQIGATYFPAENIREKTKELKKDAKKRL-KVPGLLVIDTP  548 (1064)
T ss_pred             hcCCceEEEeecccccchHHHHHhhccccccccc--cceeeeccccccchHHHHHHHHHHHhhhhhhc-CCCeeEEecCC
Confidence            3466899999999999999999998877643332  22222111  1111                01 22358899999


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           78 GLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        78 G~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      |...+           .+.-.....-+|..|+|+|+...+.+.....++.|+..     ..|++|++||+|++-
T Consensus       549 ghEsF-----------tnlRsrgsslC~~aIlvvdImhGlepqtiESi~lLR~r-----ktpFivALNKiDRLY  606 (1064)
T KOG1144|consen  549 GHESF-----------TNLRSRGSSLCDLAILVVDIMHGLEPQTIESINLLRMR-----KTPFIVALNKIDRLY  606 (1064)
T ss_pred             Cchhh-----------hhhhhccccccceEEEEeehhccCCcchhHHHHHHHhc-----CCCeEEeehhhhhhc
Confidence            96643           11112344557999999999877777777777777664     279999999999994

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=98.53  E-value=9.3e-07  Score=63.58  Aligned_cols=33  Identities=27%  Similarity=0.376  Sum_probs=27.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|.|......|
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   55 (222)
T cd03224          23 VPEGEIVALLGRNGAGKTTLLKTIMGLLPPRSG   55 (222)
T ss_pred             EcCCeEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            457889999999999999999999997654443

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=98.53  E-value=4.8e-07  Score=74.07  Aligned_cols=31  Identities=26%  Similarity=0.352  Sum_probs=27.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++.+++++|++|+||||+++.|+|.. ..+|
T Consensus       374 ~~G~~vaIvG~SGsGKSTL~~lL~g~~-p~~G  404 (588)
T PRK11174        374 PAGQRIALVGPSGAGKTSLLNALLGFL-PYQG  404 (588)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCC-CCCc
Confidence            578899999999999999999999976 4444

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.53  E-value=4.5e-07  Score=70.23  Aligned_cols=123  Identities=17%  Similarity=0.134  Sum_probs=67.1

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCcc---ccCC-------C-C----------ccceeeEEEEE-----------Ee
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFK---SRAS-------S-S----------GVTSTCEMQRT-----------VL   65 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~---~~~~-------~-~----------~~t~~~~~~~~-----------~~   65 (173)
                      .+..++++|++|+||||++..|.......   .+..       . .          +..........           ..
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~  252 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQS  252 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHh
Confidence            45789999999999999998876421100   0000       0 0          00000000000           11


Q ss_pred             eCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEe
Q 043441           66 KDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFT  145 (173)
Q Consensus        66 ~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~t  145 (173)
                       .+..++++||||....  +.. ...++...+..... .+-.++|++++..  .   ..+..+...|..-  ..--+++|
T Consensus       253 -~~~DlVLIDTaGr~~~--~~~-~l~el~~~l~~~~~-~~e~~LVlsat~~--~---~~~~~~~~~~~~~--~~~~~I~T  320 (388)
T PRK12723        253 -KDFDLVLVDTIGKSPK--DFM-KLAEMKELLNACGR-DAEFHLAVSSTTK--T---SDVKEIFHQFSPF--SYKTVIFT  320 (388)
T ss_pred             -CCCCEEEEcCCCCCcc--CHH-HHHHHHHHHHhcCC-CCeEEEEEcCCCC--H---HHHHHHHHHhcCC--CCCEEEEE
Confidence             3457999999998752  222 24455555554432 2356788888733  1   1122233333221  45779999


Q ss_pred             CCCCCCC
Q 043441          146 GGDELED  152 (173)
Q Consensus       146 k~D~~~~  152 (173)
                      |.|.-..
T Consensus       321 KlDet~~  327 (388)
T PRK12723        321 KLDETTC  327 (388)
T ss_pred             eccCCCc
Confidence            9998754

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=98.53  E-value=2.2e-07  Score=61.95  Aligned_cols=134  Identities=16%  Similarity=0.082  Sum_probs=82.1

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      +..-..+|.++|.+..|||||+-...+...-.......+.....+-..+.. ....+.+||.-|..           ++.
T Consensus        16 ~n~Vslkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~-t~IsfSIwdlgG~~-----------~~~   83 (205)
T KOG1673|consen   16 SNLVSLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRG-TDISFSIWDLGGQR-----------EFI   83 (205)
T ss_pred             ccceEEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEecc-eEEEEEEEecCCcH-----------hhh
Confidence            344567899999999999999988888664222222233333333333322 34578899988843           455


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHHHhcc
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGR  163 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~  163 (173)
                      +.+.....++-+|+|++|.+.+.+.++ ..|.   ++..+.....--++|.||.|+.-.....+++-+.+
T Consensus        84 n~lPiac~dsvaIlFmFDLt~r~TLnSi~~WY---~QAr~~NktAiPilvGTKyD~fi~lp~e~Q~~I~~  150 (205)
T KOG1673|consen   84 NMLPIACKDSVAILFMFDLTRRSTLNSIKEWY---RQARGLNKTAIPILVGTKYDLFIDLPPELQETISR  150 (205)
T ss_pred             ccCceeecCcEEEEEEEecCchHHHHHHHHHH---HHHhccCCccceEEeccchHhhhcCCHHHHHHHHH
Confidence            555556667889999999984444333 3333   33333222234567899999886544455554444

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=98.53  E-value=1.3e-06  Score=59.55  Aligned_cols=28  Identities=32%  Similarity=0.398  Sum_probs=25.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRA   44 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~   44 (173)
                      .++..++++|++|+|||||++.|.|...
T Consensus        23 ~~g~~~~i~G~nGsGKStll~~l~g~~~   50 (157)
T cd00267          23 KAGEIVALVGPNGSGKSTLLRAIAGLLK   50 (157)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCC
Confidence            5668999999999999999999998654

The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=98.53  E-value=1e-06  Score=63.06  Aligned_cols=33  Identities=27%  Similarity=0.229  Sum_probs=27.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......|
T Consensus        24 i~~G~~~~i~G~nGsGKSTLl~~l~G~~~~~~G   56 (214)
T cd03292          24 ISAGEFVFLVGPSGAGKSTLLKLIYKEELPTSG   56 (214)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            357789999999999999999999997644333

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=98.52  E-value=3e-06  Score=60.66  Aligned_cols=33  Identities=30%  Similarity=0.247  Sum_probs=28.1

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|+|......|
T Consensus        21 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   53 (213)
T TIGR01277        21 VADGEIVAIMGPSGAGKSTLLNLIAGFIEPASG   53 (213)
T ss_pred             EeCCcEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            357889999999999999999999997654444

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=98.51  E-value=2.4e-07  Score=72.53  Aligned_cols=62  Identities=37%  Similarity=0.386  Sum_probs=45.8

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAG   85 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~   85 (173)
                      ..+|.+||.+++||||+||+|.|.... +-.+.++-|.-.+-..    -...+.+.|+||+.-++..
T Consensus       314 ~vtVG~VGYPNVGKSSTINaLvG~KkV-sVS~TPGkTKHFQTi~----ls~~v~LCDCPGLVfPSf~  375 (562)
T KOG1424|consen  314 VVTVGFVGYPNVGKSSTINALVGRKKV-SVSSTPGKTKHFQTIF----LSPSVCLCDCPGLVFPSFS  375 (562)
T ss_pred             eeEEEeecCCCCchhHHHHHHhcCcee-eeecCCCCcceeEEEE----cCCCceecCCCCccccCCC
Confidence            789999999999999999999998753 2234455665554333    2456789999999865543

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=98.51  E-value=9.9e-07  Score=62.72  Aligned_cols=32  Identities=28%  Similarity=0.296  Sum_probs=27.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .++..++|+|++|+|||||++.|.|...+..|
T Consensus        22 ~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   53 (206)
T TIGR03608        22 EKGKMYAIIGESGSGKSTLLNIIGLLEKFDSG   53 (206)
T ss_pred             eCCcEEEEECCCCCCHHHHHHHHhcCCCCCCe
Confidence            56789999999999999999999997654444

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>cd03298 ABC_ThiQ_thiamine_transporter ABC-type thiamine tranport system; part of the binding-protein-dependent transport system tbpA-thiPQ for thiamine and TPP

Probab=98.51  E-value=2.5e-06  Score=60.89  Aligned_cols=34  Identities=29%  Similarity=0.261  Sum_probs=28.4

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .-.++..++++|++|||||||++.|+|......|
T Consensus        20 ~i~~Ge~~~l~G~nGsGKSTLl~~l~gl~~~~~G   53 (211)
T cd03298          20 TFAQGEITAIVGPSGSGKSTLLNLIAGFETPQSG   53 (211)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            3467889999999999999999999997654444

Probably responsible for the translocation of thiamine across the membrane. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=98.51  E-value=1.6e-06  Score=62.98  Aligned_cols=33  Identities=24%  Similarity=0.263  Sum_probs=27.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|.|......|
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~p~~G   55 (235)
T cd03261          23 VRRGEILAIIGPSGSGKSTLLRLIVGLLRPDSG   55 (235)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            457789999999999999999999997654444

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI

Probab=98.51  E-value=1.6e-06  Score=65.32  Aligned_cols=33  Identities=21%  Similarity=0.243  Sum_probs=27.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|+|.....+|
T Consensus        27 i~~Ge~~~l~G~NGaGKSTLl~~l~Gl~~p~~G   59 (303)
T TIGR01288        27 IARGECFGLLGPNGAGKSTIARMLLGMISPDRG   59 (303)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            357789999999999999999999997654343

This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=98.51  E-value=5.2e-07  Score=74.76  Aligned_cols=35  Identities=29%  Similarity=0.301  Sum_probs=29.9

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA   49 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~   49 (173)
                      ..+++.+|+++|++|||||||.+.|+|...+..|.
T Consensus       495 ~I~~Ge~vaIvG~SGsGKSTL~KLL~gly~p~~G~  529 (709)
T COG2274         495 EIPPGEKVAIVGRSGSGKSTLLKLLLGLYKPQQGR  529 (709)
T ss_pred             EeCCCCEEEEECCCCCCHHHHHHHHhcCCCCCCce
Confidence            34688999999999999999999999987665554

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=98.51  E-value=3.9e-06  Score=61.77  Aligned_cols=33  Identities=24%  Similarity=0.324  Sum_probs=27.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|+|......|
T Consensus        24 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   56 (255)
T PRK11248         24 LESGELLVVLGPSGCGKTTLLNLIAGFVPYQHG   56 (255)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            457789999999999999999999997654444

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=98.51  E-value=1.3e-06  Score=62.34  Aligned_cols=33  Identities=27%  Similarity=0.216  Sum_probs=27.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|+|......|
T Consensus        24 i~~G~~~~l~G~nGsGKSTLl~~l~G~~~~~~G   56 (211)
T cd03225          24 IKKGEFVLIVGPNGSGKSTLLRLLNGLLGPTSG   56 (211)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            357789999999999999999999997654444

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=98.50  E-value=5.9e-07  Score=73.59  Aligned_cols=32  Identities=34%  Similarity=0.256  Sum_probs=27.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++.+++++|++|+|||||++.|+|...+.+|
T Consensus       359 ~~G~~v~IvG~sGsGKSTLl~lL~gl~~p~~G  390 (588)
T PRK13657        359 KPGQTVAIVGPTGAGKSTLINLLQRVFDPQSG  390 (588)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCcCCCCC
Confidence            47788999999999999999999997765444

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=98.50  E-value=8.2e-07  Score=61.79  Aligned_cols=125  Identities=15%  Similarity=0.107  Sum_probs=63.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCC------CCcHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS------AGSEFV   89 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~------~~~~~~   89 (173)
                      -.++..++++|++|+|||||++.|.|......+............ .... .....++.+.|.+....      .....=
T Consensus        25 i~~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~g~~~~~~-~~~~-~~~i~~~~q~~~~~~~tv~~~i~~~LS~G  102 (178)
T cd03247          25 LKQGEKIALLGRSGSGKSTLLQLLTGDLKPQQGEITLDGVPVSDL-EKAL-SSLISVLNQRPYLFDTTLRNNLGRRFSGG  102 (178)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhccCCCCCCEEEECCEEHHHH-HHHH-HhhEEEEccCCeeecccHHHhhcccCCHH
Confidence            457789999999999999999999997654443211111000000 0000 01111222222222100      000111


Q ss_pred             HHHHHHHHHhccCCceEEEEEeecCCCCCHHHH-HHHHHHHHHHcccccceEEEEEeCC
Q 043441           90 GMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEE-AALHSWQTLFGKKVFDYMIVVFTGG  147 (173)
Q Consensus        90 ~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~~iv~tk~  147 (173)
                      ..+....+.....+++.+++--+.+ .++.... ..++.+.+. ..   ..+++++||.
T Consensus       103 ~~qrv~laral~~~p~~lllDEP~~-~LD~~~~~~l~~~l~~~-~~---~~tii~~sh~  156 (178)
T cd03247         103 ERQRLALARILLQDAPIVLLDEPTV-GLDPITERQLLSLIFEV-LK---DKTLIWITHH  156 (178)
T ss_pred             HHHHHHHHHHHhcCCCEEEEECCcc-cCCHHHHHHHHHHHHHH-cC---CCEEEEEecC
Confidence            2334445556777888766544444 7777654 444445444 22   4577777774

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.50  E-value=1.7e-06  Score=61.38  Aligned_cols=33  Identities=18%  Similarity=0.116  Sum_probs=28.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......|
T Consensus        24 i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G   56 (200)
T PRK13540         24 LPAGGLLHLKGSNGAGKTTLLKLIAGLLNPEKG   56 (200)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCe
Confidence            357889999999999999999999997654444

>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional

Probab=98.50  E-value=3.3e-06  Score=61.18  Aligned_cols=33  Identities=30%  Similarity=0.262  Sum_probs=27.9

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......|
T Consensus        22 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G   54 (232)
T PRK10771         22 VERGERVAILGPSGAGKSTLLNLIAGFLTPASG   54 (232)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            357889999999999999999999997654444

>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit

Probab=98.50  E-value=6.8e-07  Score=72.33  Aligned_cols=33  Identities=30%  Similarity=0.282  Sum_probs=28.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -+++.+++++|++|+|||||++.|+|...+..|
T Consensus       345 i~~G~~~~ivG~sGsGKSTL~~ll~g~~~~~~G  377 (529)
T TIGR02857       345 VPPGERVALVGPSGAGKSTLLNLLLGFVDPTEG  377 (529)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            357889999999999999999999997765544

Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=98.49  E-value=9e-07  Score=68.35  Aligned_cols=123  Identities=15%  Similarity=0.115  Sum_probs=72.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCC---cccc------CCC--------CccceeeEEEEEEe-------------
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRA---FKSR------ASS--------SGVTSTCEMQRTVL-------------   65 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~---~~~~------~~~--------~~~t~~~~~~~~~~-------------   65 (173)
                      ..++..|+++|-.||||||..-.|...-.   ....      ..+        .+......++....             
T Consensus        97 ~~~P~vImmvGLQGsGKTTt~~KLA~~lkk~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~~~~~~Pv~Iak~al~  176 (451)
T COG0541          97 KKPPTVILMVGLQGSGKTTTAGKLAKYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSGTEKDPVEIAKAALE  176 (451)
T ss_pred             CCCCeEEEEEeccCCChHhHHHHHHHHHHHcCCceEEEecccCChHHHHHHHHHHHHcCCceecCCCCCCHHHHHHHHHH
Confidence            56788999999999999999876643110   0000      000        00011111111100             


Q ss_pred             ---eCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEE
Q 043441           66 ---KDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIV  142 (173)
Q Consensus        66 ---~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i  142 (173)
                         ..+..++++||.|-..   ..+.+..++..+....  .||-+++|+|+...  +.-....+.+.+.+     .-.-+
T Consensus       177 ~ak~~~~DvvIvDTAGRl~---ide~Lm~El~~Ik~~~--~P~E~llVvDam~G--QdA~~~A~aF~e~l-----~itGv  244 (451)
T COG0541         177 KAKEEGYDVVIVDTAGRLH---IDEELMDELKEIKEVI--NPDETLLVVDAMIG--QDAVNTAKAFNEAL-----GITGV  244 (451)
T ss_pred             HHHHcCCCEEEEeCCCccc---ccHHHHHHHHHHHhhc--CCCeEEEEEecccc--hHHHHHHHHHhhhc-----CCceE
Confidence               0223689999999774   3466777777665544  77999999999622  33334444444443     34778


Q ss_pred             EEeCCCCC
Q 043441          143 VFTGGDEL  150 (173)
Q Consensus       143 v~tk~D~~  150 (173)
                      ++||.|--
T Consensus       245 IlTKlDGd  252 (451)
T COG0541         245 ILTKLDGD  252 (451)
T ss_pred             EEEcccCC
Confidence            99999854

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=98.49  E-value=2.1e-06  Score=61.77  Aligned_cols=33  Identities=18%  Similarity=0.106  Sum_probs=27.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|.|.....++
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G   55 (220)
T cd03265          23 VRRGEIFGLLGPNGAGKTTTIKMLTTLLKPTSG   55 (220)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            357789999999999999999999997544333

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=98.48  E-value=3.2e-06  Score=62.71  Aligned_cols=33  Identities=24%  Similarity=0.151  Sum_probs=27.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|+|...+..|
T Consensus        47 i~~Ge~~~l~G~nGsGKSTLl~~L~Gl~~p~~G   79 (269)
T cd03294          47 VREGEIFVIMGLSGSGKSTLLRCINRLIEPTSG   79 (269)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCe
Confidence            467889999999999999999999997654444

This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=98.48  E-value=1.7e-06  Score=65.26  Aligned_cols=33  Identities=36%  Similarity=0.375  Sum_probs=27.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++++|++|+|||||++.|+|...+..|
T Consensus        25 i~~Gei~~l~G~NGaGKTTLl~~l~Gl~~~~~G   57 (301)
T TIGR03522        25 AQKGRIVGFLGPNGAGKSTTMKIITGYLPPDSG   57 (301)
T ss_pred             EeCCeEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            357789999999999999999999997654444

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=98.48  E-value=2.1e-06  Score=66.02  Aligned_cols=33  Identities=18%  Similarity=0.210  Sum_probs=28.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|...+..|
T Consensus        29 i~~Ge~~~llGpsGsGKSTLLr~IaGl~~p~~G   61 (351)
T PRK11432         29 IKQGTMVTLLGPSGCGKTTVLRLVAGLEKPTEG   61 (351)
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHHCCCCCCce
Confidence            356789999999999999999999998765555

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=98.48  E-value=2.7e-06  Score=59.89  Aligned_cols=27  Identities=22%  Similarity=0.444  Sum_probs=24.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      .++..++|+|++|+|||||++.|.|..
T Consensus        31 ~~Ge~~~l~G~nGsGKSTLl~~l~G~~   57 (192)
T cd03232          31 KPGTLTALMGESGAGKTTLLDVLAGRK   57 (192)
T ss_pred             eCCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            577899999999999999999999854

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=98.48  E-value=1.9e-06  Score=61.91  Aligned_cols=33  Identities=27%  Similarity=0.234  Sum_probs=27.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......+
T Consensus        28 i~~G~~~~i~G~nGsGKSTLl~~i~G~~~~~~G   60 (221)
T TIGR02211        28 IGKGEIVAIVGSSGSGKSTLLHLLGGLDNPTSG   60 (221)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            367889999999999999999999997654444

This model represents LolD, a member of the ABC transporter family (pfam00005). LolD is involved in localization of lipoproteins in some bacteria. It works with a transmembrane protein LolC, which in some species is a paralogous pair LolC and LolE. Depending on whether the residue immediately following the new, modified N-terminal Cys residue, the nascent lipoprotein may be carried further by LolA and LolB to the outer membrane, or remain at the inner membrane. The top scoring proteins excluded by this model include homologs from the archaeal genus Methanosarcina.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=98.47  E-value=2.5e-06  Score=60.64  Aligned_cols=33  Identities=18%  Similarity=0.259  Sum_probs=27.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|.|......|
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   55 (205)
T cd03226          23 LYAGEIIALTGKNGAGKTTLAKILAGLIKESSG   55 (205)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            357789999999999999999999997654444

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>COG1135 AbcC ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.47  E-value=7.2e-07  Score=66.13  Aligned_cols=129  Identities=13%  Similarity=0.047  Sum_probs=70.5

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee--CCceEEEEeCCCCCCCCC--------
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK--DGQVVNVIDTPGLFDFSA--------   84 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~~v~DtpG~~~~~~--------   84 (173)
                      .-+.+-++.++|++|||||||+..+-+...+.+|........-.........  .+....++.-+.+.....        
T Consensus        28 ~I~~GeI~GIIG~SGAGKSTLiR~iN~Le~PtsG~v~v~G~di~~l~~~~Lr~~R~~IGMIFQhFnLLssrTV~~NvA~P  107 (339)
T COG1135          28 EIPKGEIFGIIGYSGAGKSTLLRLINLLERPTSGSVFVDGQDLTALSEAELRQLRQKIGMIFQHFNLLSSRTVFENVAFP  107 (339)
T ss_pred             EEcCCcEEEEEcCCCCcHHHHHHHHhccCCCCCceEEEcCEecccCChHHHHHHHhhccEEeccccccccchHHhhhhhh
Confidence            3467889999999999999999999887766555433222111110000000  011122222233322110        


Q ss_pred             ------CcHHH---------------------------HHHHHHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHH
Q 043441           85 ------GSEFV---------------------------GMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQT  130 (173)
Q Consensus        85 ------~~~~~---------------------------~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~  130 (173)
                            ...+.                           +++...++......|+. ++|-.+++.+++.. ...++.+++
T Consensus       108 Leiag~~k~ei~~RV~elLelVgL~dk~~~yP~qLSGGQKQRVaIARALa~~P~i-LL~DEaTSALDP~TT~sIL~LL~~  186 (339)
T COG1135         108 LELAGVPKAEIKQRVAELLELVGLSDKADRYPAQLSGGQKQRVAIARALANNPKI-LLCDEATSALDPETTQSILELLKD  186 (339)
T ss_pred             HhhcCCCHHHHHHHHHHHHHHcCChhhhccCchhcCcchhhHHHHHHHHhcCCCE-EEecCccccCChHHHHHHHHHHHH
Confidence                  00110                           44445555566666664 66777776777774 455555665


Q ss_pred             HHcccccceEEEEEeC
Q 043441          131 LFGKKVFDYMIVVFTG  146 (173)
Q Consensus       131 ~~~~~~~~~~~iv~tk  146 (173)
                      +-..-  .-+++++||
T Consensus       187 In~~l--glTIvlITH  200 (339)
T COG1135         187 INREL--GLTIVLITH  200 (339)
T ss_pred             HHHHc--CCEEEEEec
Confidence            53332  568999999

>cd03295 ABC_OpuCA_Osmoprotection OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment

Probab=98.47  E-value=2.3e-06  Score=62.46  Aligned_cols=33  Identities=24%  Similarity=0.203  Sum_probs=27.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......|
T Consensus        24 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   56 (242)
T cd03295          24 IAKGEFLVLIGPSGSGKTTTMKMINRLIEPTSG   56 (242)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            357788999999999999999999997654443

ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition, to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake

Probab=98.47  E-value=4.8e-06  Score=60.57  Aligned_cols=33  Identities=27%  Similarity=0.268  Sum_probs=27.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......|
T Consensus        44 i~~Ge~~~i~G~NGsGKSTLl~~i~Gl~~p~~G   76 (236)
T cd03267          44 IEKGEIVGFIGPNGAGKTTTLKILSGLLQPTSG   76 (236)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCcCCCce
Confidence            357789999999999999999999997644444

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.

>PRK11650 ugpC glycerol-3-phosphate transporter ATP-binding subunit; Provisional

Probab=98.47  E-value=2.4e-06  Score=65.80  Aligned_cols=33  Identities=27%  Similarity=0.323  Sum_probs=27.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......|
T Consensus        27 i~~Ge~~~llG~sGsGKSTLLr~iaGl~~p~~G   59 (356)
T PRK11650         27 VADGEFIVLVGPSGCGKSTLLRMVAGLERITSG   59 (356)
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHHCCCCCCce
Confidence            346778999999999999999999997655444

>PRK11000 maltose/maltodextrin transporter ATP-binding protein; Provisional

Probab=98.47  E-value=2.7e-06  Score=65.88  Aligned_cols=33  Identities=36%  Similarity=0.386  Sum_probs=27.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|.|......|
T Consensus        26 i~~Ge~~~l~G~nGsGKSTLL~~iaGl~~p~~G   58 (369)
T PRK11000         26 IHEGEFVVFVGPSGCGKSTLLRMIAGLEDITSG   58 (369)
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhCCCCCCce
Confidence            356788999999999999999999997654444

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=98.47  E-value=1.3e-06  Score=63.83  Aligned_cols=34  Identities=24%  Similarity=0.179  Sum_probs=28.3

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +-+.+..++++|++|||||||+++|.|.-....|
T Consensus        24 ~i~~G~i~~iiGpNG~GKSTLLk~l~g~l~p~~G   57 (258)
T COG1120          24 SIPKGEITGILGPNGSGKSTLLKCLAGLLKPKSG   57 (258)
T ss_pred             EecCCcEEEEECCCCCCHHHHHHHHhccCCCCCC
Confidence            4567889999999999999999999996654444

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.47  E-value=3.3e-06  Score=60.16  Aligned_cols=33  Identities=21%  Similarity=0.227  Sum_probs=27.9

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++++|++|+|||||++.|.|......|
T Consensus        25 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   57 (207)
T PRK13539         25 LAAGEALVLTGPNGSGKTTLLRLIAGLLPPAAG   57 (207)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            367889999999999999999999997654444

>TIGR03797 NHPM_micro_ABC2 NHPM bacteriocin system ABC transporter, ATP-binding protein

Probab=98.46  E-value=9e-07  Score=73.76  Aligned_cols=34  Identities=29%  Similarity=0.305  Sum_probs=28.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA   49 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~   49 (173)
                      -+++.+++++|++|||||||++.|+|...+..|.
T Consensus       476 i~~Ge~vaIvG~sGsGKSTLlklL~gl~~p~~G~  509 (686)
T TIGR03797       476 IEPGEFVAIVGPSGSGKSTLLRLLLGFETPESGS  509 (686)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCE
Confidence            3578899999999999999999999977655553

Members of this protein family are ABC transporter ATP-binding subunits, part of a three-gene putative bacteriocin transport operon. The other subunits include another ATP-binding subunit (TIGR03796), which has an N-terminal propeptide cleavage domain, and an HlyD homolog (TIGR03794). In a number of genomes, a conserved propeptide sequence with a classic Gly-Gly motif

>TIGR00750 lao LAO/AO transport system ATPase

Probab=98.46  E-value=2e-06  Score=64.77  Aligned_cols=26  Identities=23%  Similarity=0.265  Sum_probs=22.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ......++++|++|+|||||++.+..
T Consensus        31 ~~~~~~i~i~G~~G~GKttl~~~l~~   56 (300)
T TIGR00750        31 TGNAHRVGITGTPGAGKSTLLEALGM   56 (300)
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHHH
Confidence            45678999999999999999999764

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=98.46  E-value=7.2e-06  Score=60.06  Aligned_cols=33  Identities=15%  Similarity=0.148  Sum_probs=27.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......+
T Consensus        22 i~~Ge~~~i~G~NGsGKSTLlk~L~G~~~p~~G   54 (246)
T cd03237          22 ISESEVIGILGPNGIGKTTFIKMLAGVLKPDEG   54 (246)
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhCCCcCCCC
Confidence            357789999999999999999999997654444

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. RLI's are not transport proteins and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.46  E-value=4.1e-06  Score=59.14  Aligned_cols=33  Identities=24%  Similarity=0.091  Sum_probs=27.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -+++..++|+|++|+|||||++.|.|......|
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G   55 (195)
T PRK13541         23 FLPSAITYIKGANGCGKSSLLRMIAGIMQPSSG   55 (195)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            357789999999999999999999997654444

>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]

Probab=98.45  E-value=8.7e-07  Score=65.59  Aligned_cols=70  Identities=26%  Similarity=0.252  Sum_probs=47.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCC-----ccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRA-----FKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSE   87 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~-----~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~   87 (173)
                      .+....++++|-+|+|||||||++.....     ...+ ..++.|......-.-. ....++++||||...++....
T Consensus       140 ~~~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG-~~pGVT~~V~~~iri~-~rp~vy~iDTPGil~P~I~~~  214 (335)
T KOG2485|consen  140 LNSEYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVG-AEPGVTRRVSERIRIS-HRPPVYLIDTPGILVPSIVDV  214 (335)
T ss_pred             cCCceeEEEEcCCCCChHHHHHHHHHHHhhhccceecc-CCCCceeeehhheEec-cCCceEEecCCCcCCCCCCCH
Confidence            35678999999999999999999854221     1122 2345565555422222 567899999999998765444

>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=98.45  E-value=8.5e-07  Score=72.71  Aligned_cols=33  Identities=27%  Similarity=0.407  Sum_probs=28.2

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -+++.+++++|++|+|||||++.|+|...+.+|
T Consensus       364 i~~Ge~iaIvG~SGsGKSTLl~lL~gl~~p~~G  396 (592)
T PRK10790        364 VPSRGFVALVGHTGSGKSTLASLLMGYYPLTEG  396 (592)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcccCCCCc
Confidence            357789999999999999999999997765544

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=98.45  E-value=1.7e-06  Score=63.12  Aligned_cols=33  Identities=24%  Similarity=0.277  Sum_probs=27.9

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......|
T Consensus        26 i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G   58 (241)
T PRK10895         26 VNSGEIVGLLGPNGAGKTTTFYMVVGIVPRDAG   58 (241)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            367889999999999999999999997654444

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=98.45  E-value=5.1e-06  Score=60.20  Aligned_cols=32  Identities=28%  Similarity=0.282  Sum_probs=27.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .++..++|+|++|+|||||++.|.|......|
T Consensus         9 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   40 (230)
T TIGR01184         9 QQGEFISLIGHSGCGKSTLLNLISGLAQPTSG   40 (230)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            46789999999999999999999997654444

This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=98.45  E-value=1.1e-06  Score=70.57  Aligned_cols=49  Identities=22%  Similarity=0.194  Sum_probs=34.8

Q ss_pred             cCCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEE
Q 043441           12 LTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM   60 (173)
Q Consensus        12 ~~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~   60 (173)
                      ....-.++-+|+++|++|+|||||++.|.|.....++....+.+....+
T Consensus       341 ~s~~i~~g~riaiiG~NG~GKSTLlk~l~g~~~~~~G~v~~g~~v~igy  389 (530)
T COG0488         341 LSFRIDRGDRIAIVGPNGAGKSTLLKLLAGELGPLSGTVKVGETVKIGY  389 (530)
T ss_pred             ceEEecCCCEEEEECCCCCCHHHHHHHHhhhcccCCceEEeCCceEEEE
Confidence            3344568889999999999999999999886655555444444443333

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=98.44  E-value=3.6e-06  Score=61.18  Aligned_cols=33  Identities=18%  Similarity=0.126  Sum_probs=27.9

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|+|...+.+|
T Consensus        24 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~p~~G   56 (236)
T TIGR03864        24 VRPGEFVALLGPNGAGKSTLFSLLTRLYVAQEG   56 (236)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCcCCCce
Confidence            357889999999999999999999997654444

Members of this protein family are the ATP-binding subunit of an ABC transporter system that is associated with PQQ biosynthesis and PQQ-dependent alcohol dehydrogenases. While this family shows homology to several efflux ABC transporter subunits, the presence of a periplasmic substrate-binding protein and association with systems for catabolism of alcohols suggests a role in import rather than detoxification.

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=98.44  E-value=1.3e-06  Score=60.21  Aligned_cols=33  Identities=30%  Similarity=0.281  Sum_probs=28.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -+.+.++.++|++|||||||+|.+.|...+.++
T Consensus        22 v~~ge~vAi~GpSGaGKSTLLnLIAGF~~P~~G   54 (231)
T COG3840          22 VPAGEIVAILGPSGAGKSTLLNLIAGFETPASG   54 (231)
T ss_pred             ecCCcEEEEECCCCccHHHHHHHHHhccCCCCc
Confidence            356789999999999999999999997765544

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=98.44  E-value=2e-06  Score=62.23  Aligned_cols=33  Identities=24%  Similarity=0.338  Sum_probs=28.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......|
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G   55 (230)
T TIGR03410        23 VPKGEVTCVLGRNGVGKTTLLKTLMGLLPVKSG   55 (230)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhCCCCCCCC
Confidence            467889999999999999999999997654444

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=98.44  E-value=2.4e-06  Score=59.37  Aligned_cols=27  Identities=33%  Similarity=0.197  Sum_probs=23.9

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .-.++.+++|+|++|+|||||++.+++
T Consensus        17 ~i~~G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          17 SIPLNVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhh
Confidence            456788999999999999999999874

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=98.44  E-value=1.2e-06  Score=71.59  Aligned_cols=121  Identities=23%  Similarity=0.311  Sum_probs=80.4

Q ss_pred             CCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc--------------CCCCccceeeEEEEEEeeCCceEEEEeCCC
Q 043441           13 TSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR--------------ASSSGVTSTCEMQRTVLKDGQVVNVIDTPG   78 (173)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~--------------~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG   78 (173)
                      +..+...++++++.-...|||||..+|+..+...+.              -...+.|-......... +.-.+.+||+||
T Consensus         3 ~~~~~~irn~~~vahvdhgktsladsl~asngvis~rlagkirfld~redeq~rgitmkss~is~~~-~~~~~nlidspg   81 (887)
T KOG0467|consen    3 QKGSEGIRNICLVAHVDHGKTSLADSLVASNGVISSRLAGKIRFLDTREDEQTRGITMKSSAISLLH-KDYLINLIDSPG   81 (887)
T ss_pred             CCCCCceeEEEEEEEecCCccchHHHHHhhccEechhhccceeeccccchhhhhceeeecccccccc-CceEEEEecCCC
Confidence            345667789999999999999999999765432111              12234555554444444 566889999999


Q ss_pred             CCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCC
Q 043441           79 LFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDEL  150 (173)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~  150 (173)
                      ..++..       +..    ...+-+|..++++|+...........   +++.+-+.  ..+++|+||+|++
T Consensus        82 hvdf~s-------evs----sas~l~d~alvlvdvvegv~~qt~~v---lrq~~~~~--~~~~lvinkidrl  137 (887)
T KOG0467|consen   82 HVDFSS-------EVS----SASRLSDGALVLVDVVEGVCSQTYAV---LRQAWIEG--LKPILVINKIDRL  137 (887)
T ss_pred             ccchhh-------hhh----hhhhhcCCcEEEEeeccccchhHHHH---HHHHHHcc--CceEEEEehhhhH
Confidence            998632       222    23334488888899876666555444   44443333  6799999999954

>TIGR03265 PhnT2 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein

Probab=98.43  E-value=2.8e-06  Score=65.34  Aligned_cols=32  Identities=22%  Similarity=0.242  Sum_probs=27.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .++..++|+|++|+|||||++.|.|......|
T Consensus        28 ~~Ge~~~l~GpsGsGKSTLLr~iaGl~~p~~G   59 (353)
T TIGR03265        28 KKGEFVCLLGPSGCGKTTLLRIIAGLERQTAG   59 (353)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHCCCCCCce
Confidence            56789999999999999999999998755444

This ABC transporter ATP-binding protein is found in a number of genomes in operon-like contexts strongly suggesting a substrate specificity for 2-aminoethylphosphonate (2-AEP). The characterized PhnSTUV system is absent in the genomes in which this system is found. These genomes encode systems for the catabolism of 2-AEP, making the need for a 2-AEP-specific transporter likely.

>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=98.42  E-value=7.2e-07  Score=64.55  Aligned_cols=36  Identities=22%  Similarity=0.176  Sum_probs=28.4

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRAS   50 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~   50 (173)
                      .-+.+..++++|++||||||+++.+-+.....++..
T Consensus        23 ~I~~gef~vliGpSGsGKTTtLkMINrLiept~G~I   58 (309)
T COG1125          23 TIEEGEFLVLIGPSGSGKTTTLKMINRLIEPTSGEI   58 (309)
T ss_pred             EecCCeEEEEECCCCCcHHHHHHHHhcccCCCCceE
Confidence            446778899999999999999999877665545543

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=98.42  E-value=7e-06  Score=59.77  Aligned_cols=33  Identities=24%  Similarity=0.252  Sum_probs=27.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......|
T Consensus        25 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   57 (239)
T cd03296          25 IPSGELVALLGPSGSGKTTLLRLIAGLERPDSG   57 (239)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            357789999999999999999999997654444

Responsible for energy coupling to the transport system. The complex is composed of two ATP-binding proteins (cysA), two transmembrane proteins (cysT and cysW), and a solute-binding protein (cysP). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR00958 3a01208 Conjugate Transporter-2 (CT2) Family protein

Probab=98.42  E-value=8e-07  Score=74.33  Aligned_cols=32  Identities=22%  Similarity=0.253  Sum_probs=28.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++.+++++|++|+||||+++.|+|.....+|
T Consensus       505 ~~Ge~vaIvG~SGsGKSTLl~lL~gl~~p~~G  536 (711)
T TIGR00958       505 HPGEVVALVGPSGSGKSTVAALLQNLYQPTGG  536 (711)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhccCCCCC
Confidence            57889999999999999999999997765544

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=98.42  E-value=1.5e-06  Score=67.85  Aligned_cols=128  Identities=21%  Similarity=0.257  Sum_probs=83.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc-------------CCCCccceeeEEEEEEeeC----CceEEEEeCCCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR-------------ASSSGVTSTCEMQRTVLKD----GQVVNVIDTPGL   79 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~-------------~~~~~~t~~~~~~~~~~~~----~~~~~v~DtpG~   79 (173)
                      .+.++..++.---.|||||...|+....-.+.             -...+.|...+.....+..    .-.+.+|||||+
T Consensus         7 ~~IRNFsIIAHIDHGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERERGITIKaq~v~l~Yk~~~g~~Y~lnlIDTPGH   86 (603)
T COG0481           7 KNIRNFSIIAHIDHGKSTLADRLLELTGGLSEREMRAQVLDSMDIERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGH   86 (603)
T ss_pred             hhccceEEEEEecCCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhcCceEEeeEEEEEEEeCCCCEEEEEEcCCCCc
Confidence            45678899999999999999998753321111             0123666666655555422    136889999999


Q ss_pred             CCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHH
Q 043441           80 FDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLED  159 (173)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~  159 (173)
                      .++.-       +..+.    +..+.+.++++|++....   .+++....-.+..+  .-++-|+||.|+...+.+...+
T Consensus        87 VDFsY-------EVSRS----LAACEGalLvVDAsQGve---AQTlAN~YlAle~~--LeIiPViNKIDLP~Adpervk~  150 (603)
T COG0481          87 VDFSY-------EVSRS----LAACEGALLVVDASQGVE---AQTLANVYLALENN--LEIIPVLNKIDLPAADPERVKQ  150 (603)
T ss_pred             cceEE-------Eehhh----HhhCCCcEEEEECccchH---HHHHHHHHHHHHcC--cEEEEeeecccCCCCCHHHHHH
Confidence            98632       33333    334478899999985543   34555555555444  7799999999999876544433


Q ss_pred             H
Q 043441          160 Y  160 (173)
Q Consensus       160 ~  160 (173)
                      -
T Consensus       151 e  151 (603)
T COG0481         151 E  151 (603)
T ss_pred             H
Confidence            3

>PRK11144 modC molybdate transporter ATP-binding protein; Provisional

Probab=98.42  E-value=5e-06  Score=63.98  Aligned_cols=32  Identities=25%  Similarity=0.320  Sum_probs=27.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .++..++|+|++|+|||||++.|.|.....+|
T Consensus        22 ~~Ge~~~l~G~nGsGKSTLl~~iaGl~~p~~G   53 (352)
T PRK11144         22 PAQGITAIFGRSGAGKTSLINAISGLTRPQKG   53 (352)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            56789999999999999999999997654444

>TIGR03375 type_I_sec_LssB type I secretion system ATPase, LssB family

Probab=98.42  E-value=8.6e-07  Score=73.97  Aligned_cols=32  Identities=28%  Similarity=0.335  Sum_probs=27.8

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++.+++++|++|+|||||++.|+|.....+|
T Consensus       489 ~~G~~iaIvG~sGsGKSTLlklL~gl~~p~~G  520 (694)
T TIGR03375       489 RPGEKVAIIGRIGSGKSTLLKLLLGLYQPTEG  520 (694)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            56889999999999999999999997765554

Type I protein secretion is a system in some Gram-negative bacteria to export proteins (often proteases) across both inner and outer membranes to the extracellular medium. This is one of three proteins of the type I secretion apparatus. Targeted proteins are not cleaved at the N-terminus, but rather carry signals located toward the extreme C-terminus to direct type I secretion. This model is related to models TIGR01842 and TIGR01846, and to bacteriocin ABC transporters that cleave their substrates during export.

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=98.41  E-value=3.1e-06  Score=61.62  Aligned_cols=33  Identities=27%  Similarity=0.303  Sum_probs=27.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++++|++|+|||||++.|+|......|
T Consensus        24 i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G   56 (240)
T PRK09493         24 IDQGEVVVIIGPSGSGKSTLLRCINKLEEITSG   56 (240)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            357789999999999999999999997654444

>cd03258 ABC_MetN_methionine_transporter MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport

Probab=98.41  E-value=3.1e-06  Score=61.33  Aligned_cols=33  Identities=27%  Similarity=0.238  Sum_probs=27.9

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......|
T Consensus        28 i~~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G   60 (233)
T cd03258          28 VPKGEIFGIIGRSGAGKSTLIRCINGLERPTSG   60 (233)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            367889999999999999999999997654444

Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK09452 potA putrescine/spermidine ABC transporter ATPase protein; Reviewed

Probab=98.41  E-value=4.2e-06  Score=64.84  Aligned_cols=32  Identities=25%  Similarity=0.288  Sum_probs=27.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      ..+..++|+|++|+|||||++.|.|......|
T Consensus        38 ~~Ge~~~LlGpsGsGKSTLLr~IaGl~~p~~G   69 (375)
T PRK09452         38 NNGEFLTLLGPSGCGKTTVLRLIAGFETPDSG   69 (375)
T ss_pred             eCCCEEEEECCCCCcHHHHHHHHhCCCCCCce
Confidence            46778999999999999999999997765444

>TIGR02204 MsbA_rel ABC transporter, permease/ATP-binding protein

Probab=98.41  E-value=8.6e-07  Score=72.41  Aligned_cols=33  Identities=30%  Similarity=0.242  Sum_probs=28.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -+++.+++++|++|+|||||++.|+|...+..|
T Consensus       363 i~~Ge~i~IvG~sGsGKSTLlklL~gl~~p~~G  395 (576)
T TIGR02204       363 VRPGETVALVGPSGAGKSTLFQLLLRFYDPQSG  395 (576)
T ss_pred             ecCCCEEEEECCCCCCHHHHHHHHHhccCCCCC
Confidence            357889999999999999999999997755444

This protein is related to a Proteobacterial ATP transporter that exports lipid A and to eukaryotic P-glycoproteins.

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=98.41  E-value=8.1e-06  Score=58.81  Aligned_cols=33  Identities=24%  Similarity=0.148  Sum_probs=27.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......|
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   55 (223)
T TIGR03740        23 VPKNSVYGLLGPNGAGKSTLLKMITGILRPTSG   55 (223)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            357789999999999999999999997644444

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.

>TIGR02203 MsbA_lipidA lipid A export permease/ATP-binding protein MsbA

Probab=98.41  E-value=8.9e-07  Score=72.26  Aligned_cols=33  Identities=36%  Similarity=0.301  Sum_probs=28.2

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -+++.+++++|++|+|||||++.|+|.....+|
T Consensus       355 i~~G~~v~IvG~sGsGKSTLl~lL~gl~~~~~G  387 (571)
T TIGR02203       355 IEPGETVALVGRSGSGKSTLVNLIPRFYEPDSG  387 (571)
T ss_pred             ecCCCEEEEECCCCCCHHHHHHHHHhccCCCCC
Confidence            357889999999999999999999997765544

This family consists of a single polypeptide chain transporter in the ATP-binding cassette (ABC) transporter family, MsbA, which exports lipid A. It may also act in multidrug resistance. Lipid A, a part of lipopolysaccharide, is found in the outer leaflet of the outer membrane of most Gram-negative bacteria. Members of this family are restricted to the Proteobacteria (although lipid A is more broadly distributed) and often are clustered with lipid A biosynthesis genes.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=98.41  E-value=4.8e-06  Score=63.28  Aligned_cols=26  Identities=19%  Similarity=0.165  Sum_probs=22.1

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ......|.+.|++|||||||++.|..
T Consensus        53 ~~~~~~igi~G~~GaGKSTl~~~l~~   78 (332)
T PRK09435         53 TGNALRIGITGVPGVGKSTFIEALGM   78 (332)
T ss_pred             CCCcEEEEEECCCCCCHHHHHHHHHH
Confidence            35678999999999999999998643

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=98.40  E-value=3.7e-06  Score=60.97  Aligned_cols=33  Identities=24%  Similarity=0.228  Sum_probs=27.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|.|......|
T Consensus        32 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G   64 (233)
T PRK11629         32 IGEGEMMAIVGSSGSGKSTLLHLLGGLDTPTSG   64 (233)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            457789999999999999999999997644333

>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional

Probab=98.40  E-value=4.6e-06  Score=61.46  Aligned_cols=33  Identities=24%  Similarity=0.257  Sum_probs=27.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......|
T Consensus        25 i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~p~~G   57 (258)
T PRK13548         25 LRPGEVVAILGPNGAGKSTLLRALSGELSPDSG   57 (258)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCC
Confidence            357789999999999999999999997654444

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=98.40  E-value=5.6e-06  Score=60.65  Aligned_cols=33  Identities=18%  Similarity=0.167  Sum_probs=27.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......+
T Consensus        26 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   58 (250)
T PRK11264         26 VKPGEVVAIIGPSGSGKTTLLRCINLLEQPEAG   58 (250)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCe
Confidence            467788999999999999999999997654333

>TIGR01186 proV glycine betaine/L-proline transport ATP binding subunit

Probab=98.40  E-value=3.3e-06  Score=65.13  Aligned_cols=34  Identities=21%  Similarity=0.143  Sum_probs=28.6

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .-..+..++|+|++|+|||||++.|.|......|
T Consensus        15 ~i~~Gei~~l~G~sGsGKSTLLr~L~Gl~~p~~G   48 (363)
T TIGR01186        15 AIAKGEIFVIMGLSGSGKSTTVRMLNRLIEPTAG   48 (363)
T ss_pred             EEcCCCEEEEECCCCChHHHHHHHHhCCCCCCce
Confidence            3467889999999999999999999997754444

This model describes the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. Functionally, this transport system is involved in osmoregulation. Under conditions of stress, the organism recruits these transport system to accumulate glycine betaine and other solutes which offer osmo-protection. It has been demonstrated that glycine betaine uptake is accompanied by symport with sodium ions. The locus has been named variously as proU or opuA. A gene library from L.lact

>PRK11607 potG putrescine transporter ATP-binding subunit; Provisional

Probab=98.40  E-value=4.4e-06  Score=64.80  Aligned_cols=32  Identities=19%  Similarity=0.186  Sum_probs=27.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .++..++|+|++|+|||||++.|.|......|
T Consensus        43 ~~Ge~~~llGpsGsGKSTLLr~IaGl~~p~~G   74 (377)
T PRK11607         43 YKGEIFALLGASGCGKSTLLRMLAGFEQPTAG   74 (377)
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCCCCCce
Confidence            46778999999999999999999998765444

>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=98.40  E-value=4.1e-06  Score=63.63  Aligned_cols=88  Identities=17%  Similarity=0.193  Sum_probs=57.6

Q ss_pred             ccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCC--------CCCHHHHHH
Q 043441           53 GVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRS--------RFPQEEEAA  124 (173)
Q Consensus        53 ~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~--------~~~~~~~~~  124 (173)
                      ..|+......... ++..+.++|.+|...          +.++++ .++.+++++|||+..++        ..+..-.+.
T Consensus       180 ~~T~GI~e~~F~~-k~~~f~~~DvGGQRs----------eRrKWi-hcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS  247 (354)
T KOG0082|consen  180 VPTTGIVEVEFTI-KGLKFRMFDVGGQRS----------ERKKWI-HCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHES  247 (354)
T ss_pred             cCcCCeeEEEEEe-CCCceEEEeCCCcHH----------HhhhHH-HhhcCCCEEEEEEehhhhhhhcccccchhHHHHH
Confidence            3455666666677 788999999999442          222222 48889999999999872        111112344


Q ss_pred             HHHHHHHHccc--ccceEEEEEeCCCCCCC
Q 043441          125 LHSWQTLFGKK--VFDYMIVVFTGGDELED  152 (173)
Q Consensus       125 ~~~l~~~~~~~--~~~~~~iv~tk~D~~~~  152 (173)
                      ++.+..+...+  ...++++.+||.|+.++
T Consensus       248 ~~LF~sI~n~~~F~~tsiiLFLNK~DLFeE  277 (354)
T KOG0082|consen  248 LKLFESICNNKWFANTSIILFLNKKDLFEE  277 (354)
T ss_pred             HHHHHHHhcCcccccCcEEEEeecHHHHHH
Confidence            44445444443  23589999999999864

>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.40  E-value=2.7e-06  Score=63.06  Aligned_cols=32  Identities=28%  Similarity=0.382  Sum_probs=27.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .++..++|+|++|+|||||++.|+|...+..|
T Consensus        33 ~~Ge~~~I~G~nGsGKSTLl~~i~Gl~~~~~G   64 (269)
T PRK13648         33 PKGQWTSIVGHNGSGKSTIAKLMIGIEKVKSG   64 (269)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            57889999999999999999999997654444

>TIGR02142 modC_ABC molybdenum ABC transporter, ATP-binding protein

Probab=98.40  E-value=6.8e-06  Score=63.32  Aligned_cols=32  Identities=25%  Similarity=0.328  Sum_probs=27.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .++..++|+|++|||||||++.|.|......|
T Consensus        21 ~~Gei~~l~G~nGsGKSTLl~~iaGl~~p~~G   52 (354)
T TIGR02142        21 PGQGVTAIFGRSGSGKTTLIRLIAGLTRPDEG   52 (354)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            56789999999999999999999997654444

This model represents the ATP-binding cassette (ABC) protein of the three subunit molybdate ABC transporter. The three proteins of this complex are homologous to proteins of the sulfate ABC transporter. Molybdenum may be used in nitrogenases of nitrogen-fixing bacteria and in molybdopterin cofactors. In some cases, molybdate may be transported by a sulfate transporter rather than by a specific molybdate transporter.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=98.40  E-value=5.8e-06  Score=58.10  Aligned_cols=33  Identities=21%  Similarity=0.210  Sum_probs=27.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|.|......|
T Consensus        15 i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G   47 (190)
T TIGR01166        15 AERGEVLALLGANGAGKSTLLLHLNGLLRPQSG   47 (190)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            456789999999999999999999997654444

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=98.39  E-value=1e-06  Score=72.10  Aligned_cols=32  Identities=31%  Similarity=0.426  Sum_probs=27.8

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++.+++++|++|+|||||++.|+|...+..|
T Consensus       367 ~~G~~~aIvG~sGsGKSTLl~ll~gl~~p~~G  398 (582)
T PRK11176        367 PAGKTVALVGRSGSGKSTIANLLTRFYDIDEG  398 (582)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhccCCCCc
Confidence            57788999999999999999999997765544

>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein

Probab=98.39  E-value=8.2e-07  Score=74.26  Aligned_cols=32  Identities=28%  Similarity=0.314  Sum_probs=27.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++.+++++|++|||||||++.|+|...+.+|
T Consensus       503 ~~Ge~vaIvG~sGsGKSTLlklL~gl~~p~~G  534 (710)
T TIGR03796       503 QPGQRVALVGGSGSGKSTIAKLVAGLYQPWSG  534 (710)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            57889999999999999999999997765544

This protein describes an multidomain ABC transporter subunit that is one of three protein families associated with some regularity with a distinctive family of putative bacteriocins. It includes a bacteriocin-processing peptidase domain at the N-terminus. Model TIGR03793 describes a conserved propeptide region for this bacteriocin family, unusual because it shows obvious homology a region of the enzyme nitrile hydratase up to the classic Gly-Gly cleavage motif. This family is therefore predicted to be a subunit of a bacteriocin processing and export system characteristic to this system that we designate NHPM, Nitrile Hydratase Propeptide Microcin.

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=98.39  E-value=5e-06  Score=60.08  Aligned_cols=33  Identities=24%  Similarity=0.295  Sum_probs=27.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......|
T Consensus        33 i~~Ge~~~i~G~nGsGKSTLl~~i~Gl~~p~~G   65 (228)
T PRK10584         33 VKRGETIALIGESGSGKSTLLAILAGLDDGSSG   65 (228)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHcCCCCCCe
Confidence            357789999999999999999999997654444

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=98.39  E-value=3.6e-06  Score=61.42  Aligned_cols=33  Identities=24%  Similarity=0.204  Sum_probs=27.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......|
T Consensus        25 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   57 (242)
T PRK11124         25 CPQGETLVLLGPSGAGKSSLLRVLNLLEMPRSG   57 (242)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            357789999999999999999999997654444

>PRK09536 btuD corrinoid ABC transporter ATPase; Reviewed

Probab=98.39  E-value=3.6e-06  Score=65.72  Aligned_cols=33  Identities=24%  Similarity=0.219  Sum_probs=27.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++++|++|+|||||++.|.|.....+|
T Consensus        26 i~~Geiv~liGpNGaGKSTLLk~LaGll~p~sG   58 (402)
T PRK09536         26 VREGSLVGLVGPNGAGKTTLLRAINGTLTPTAG   58 (402)
T ss_pred             ECCCCEEEEECCCCchHHHHHHHHhcCCCCCCc
Confidence            357789999999999999999999997654444

>TIGR02314 ABC_MetN D-methionine ABC transporter, ATP-binding protein

Probab=98.39  E-value=4.8e-06  Score=63.79  Aligned_cols=33  Identities=18%  Similarity=0.071  Sum_probs=28.1

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|.|...+.+|
T Consensus        28 i~~Gei~gIiG~sGaGKSTLlr~I~gl~~p~~G   60 (343)
T TIGR02314        28 VPAGQIYGVIGASGAGKSTLIRCVNLLERPTSG   60 (343)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            467788999999999999999999997765444

Members of this family are the ATP-binding protein of the D-methionine ABC transporter complex. Known members belong to the Proteobacteria.

>PRK10851 sulfate/thiosulfate transporter subunit; Provisional

Probab=98.38  E-value=6.4e-06  Score=63.41  Aligned_cols=32  Identities=25%  Similarity=0.307  Sum_probs=27.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .++..++|+|++|+|||||++.|.|...+..+
T Consensus        26 ~~Ge~~~llGpsGsGKSTLLr~IaGl~~p~~G   57 (353)
T PRK10851         26 PSGQMVALLGPSGSGKTTLLRIIAGLEHQTSG   57 (353)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            56789999999999999999999997655444

>KOG0096 consensus GTPase Ran/TC4/GSP1 (nuclear protein transport pathway), small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.38  E-value=4.2e-06  Score=57.71  Aligned_cols=118  Identities=17%  Similarity=0.064  Sum_probs=76.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee---CCceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK---DGQVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~---~~~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      .....++++|..|.||+|+++..+-... ...   ...|....++...+.   +..++.+|||.|..-...-.+      
T Consensus         8 ~~~fklvlvGdgg~gKtt~vkr~ltgeF-e~~---y~at~Gv~~~pl~f~tn~g~irf~~wdtagqEk~gglrd------   77 (216)
T KOG0096|consen    8 GLTFKLVLVGDGGTGKTTFVKRHLTGEF-EKT---YPATLGVEVHPLLFDTNRGQIRFNVWDTAGQEKKGGLRD------   77 (216)
T ss_pred             cceEEEEEecCCcccccchhhhhhcccc-eec---ccCcceeEEeeeeeecccCcEEEEeeecccceeeccccc------
Confidence            4578999999999999999988776553 222   223444444433321   235789999999764211111      


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                           -++-...+.+++++.+.+++-. ...|.+.+....++   .|+++..||.|--..
T Consensus        78 -----gyyI~~qcAiimFdVtsr~t~~n~~rwhrd~~rv~~N---iPiv~cGNKvDi~~r  129 (216)
T KOG0096|consen   78 -----GYYIQGQCAIIMFDVTSRFTYKNVPRWHRDLVRVREN---IPIVLCGNKVDIKAR  129 (216)
T ss_pred             -----ccEEecceeEEEeeeeehhhhhcchHHHHHHHHHhcC---CCeeeeccceecccc
Confidence                 1233345667788887677654 35666666666554   799999999996543

>cd03297 ABC_ModC_molybdenum_transporter ModC is an ABC-type transporter and the ATPase component of a molybdate transport system that also includes the periplasmic binding protein ModA and the membrane protein ModB

Probab=98.38  E-value=7.8e-06  Score=58.52  Aligned_cols=31  Identities=26%  Similarity=0.277  Sum_probs=26.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .+ ..++|+|++|+|||||++.|.|...+..|
T Consensus        22 ~~-e~~~i~G~nGsGKSTLl~~l~G~~~~~~G   52 (214)
T cd03297          22 NE-EVTGIFGASGAGKSTLLRCIAGLEKPDGG   52 (214)
T ss_pred             cc-eeEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            56 89999999999999999999997654444

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=98.38  E-value=2.2e-06  Score=67.48  Aligned_cols=71  Identities=18%  Similarity=0.100  Sum_probs=43.6

Q ss_pred             ceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCC
Q 043441           69 QVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGD  148 (173)
Q Consensus        69 ~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D  148 (173)
                      ..++++||||....   .+.+..++.......  .++.+++|+++...  .   ..++..+. |... ....-+|+||.|
T Consensus       176 ~DvVIIDTAGr~~~---d~~lm~El~~l~~~~--~pdevlLVvda~~g--q---~av~~a~~-F~~~-l~i~gvIlTKlD  243 (437)
T PRK00771        176 ADVIIVDTAGRHAL---EEDLIEEMKEIKEAV--KPDEVLLVIDATIG--Q---QAKNQAKA-FHEA-VGIGGIIITKLD  243 (437)
T ss_pred             CCEEEEECCCcccc---hHHHHHHHHHHHHHh--cccceeEEEecccc--H---HHHHHHHH-HHhc-CCCCEEEEeccc
Confidence            37899999997753   344555555554333  56888999998632  2   33333333 3321 134678899999


Q ss_pred             CCC
Q 043441          149 ELE  151 (173)
Q Consensus       149 ~~~  151 (173)
                      .-.
T Consensus       244 ~~a  246 (437)
T PRK00771        244 GTA  246 (437)
T ss_pred             CCC
Confidence            754

>PRK13644 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.38  E-value=4.2e-06  Score=62.24  Aligned_cols=33  Identities=18%  Similarity=0.215  Sum_probs=27.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|+|......|
T Consensus        25 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   57 (274)
T PRK13644         25 IKKGEYIGIIGKNGSGKSTLALHLNGLLRPQKG   57 (274)
T ss_pred             EeCCCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            357889999999999999999999997654444

>TIGR03258 PhnT 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT

Probab=98.37  E-value=4.8e-06  Score=64.25  Aligned_cols=31  Identities=19%  Similarity=0.312  Sum_probs=26.8

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKS   47 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~   47 (173)
                      .++..++|+|++|+|||||++.|.|......
T Consensus        29 ~~Ge~~~llGpsGsGKSTLLr~iaGl~~p~~   59 (362)
T TIGR03258        29 EAGELLALIGKSGCGKTTLLRAIAGFVKAAG   59 (362)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCCCC
Confidence            5677899999999999999999999765444

This ATP-binding component of an ABC transport system is found in Salmonella and Burkholderia lineages in the vicinity of enzymes for the breakdown of 2-aminoethylphosphonate.

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=98.37  E-value=3.2e-06  Score=68.21  Aligned_cols=32  Identities=25%  Similarity=0.242  Sum_probs=27.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .++..++|+|++|||||||++.|.|......|
T Consensus        35 ~~Ge~~~liG~NGsGKSTLl~~l~Gl~~p~~G   66 (510)
T PRK15439         35 HAGEVHALLGGNGAGKSTLMKIIAGIVPPDSG   66 (510)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            56788999999999999999999997654444

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=98.37  E-value=8.7e-06  Score=58.76  Aligned_cols=34  Identities=32%  Similarity=0.377  Sum_probs=28.4

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .-.++..++|+|++|+|||||++.|.|......+
T Consensus        27 ~i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   60 (228)
T cd03257          27 SIKKGETLGLVGESGSGKSTLARAILGLLKPTSG   60 (228)
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            3467889999999999999999999997654444

The NikABCDE system of E. coli belongs to this family and is composed of the periplasmic binding protein NikA, two integral membrane components (NikB and NikC), and two ATPase (NikD and NikE). The NikABCDE transporter is synthesized under anaerobic conditions to meet the increased demand for nickel resulting from hydrogenase synthesis. The molecular mechanism of nickel uptake in many bacteria and most archaea is not known. Many other members of this ABC family are also involved in the uptake of dipeptides and oligopeptides. The oligopeptide transport system (Opp) is a five-component ABC transport composed of a membrane-anchored substrate binding proteins (SRP), OppA, two transmembrane proteins, OppB and OppC, and two ATP-binding domains, OppD and OppF.

>PRK11153 metN DL-methionine transporter ATP-binding subunit; Provisional

Probab=98.36  E-value=4.7e-06  Score=63.94  Aligned_cols=33  Identities=21%  Similarity=0.073  Sum_probs=27.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|.|...+..|
T Consensus        28 i~~Gei~~iiG~nGsGKSTLlk~L~Gl~~p~~G   60 (343)
T PRK11153         28 IPAGEIFGVIGASGAGKSTLIRCINLLERPTSG   60 (343)
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhCCCCCCce
Confidence            357789999999999999999999997654444

>PRK13635 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.36  E-value=4.2e-06  Score=62.38  Aligned_cols=32  Identities=25%  Similarity=0.245  Sum_probs=27.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .++..++|+|++|+|||||++.|+|......|
T Consensus        31 ~~Ge~~~i~G~nGaGKSTLl~~i~G~~~p~~G   62 (279)
T PRK13635         31 YEGEWVAIVGHNGSGKSTLAKLLNGLLLPEAG   62 (279)
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCCCCCCc
Confidence            56788999999999999999999997654444

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.35  E-value=5.7e-06  Score=60.35  Aligned_cols=33  Identities=24%  Similarity=0.134  Sum_probs=27.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|+|......|
T Consensus        26 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   58 (241)
T PRK14250         26 FEGGAIYTIVGPSGAGKSTLIKLINRLIDPTEG   58 (241)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            356789999999999999999999997654444

>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=98.35  E-value=4.1e-06  Score=60.89  Aligned_cols=33  Identities=24%  Similarity=0.325  Sum_probs=27.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......|
T Consensus        28 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~p~~G   60 (237)
T PRK11614         28 INQGEIVTLIGANGAGKTTLLGTLCGDPRATSG   60 (237)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHcCCCCCCCc
Confidence            357789999999999999999999997654444

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=98.35  E-value=1.1e-05  Score=57.29  Aligned_cols=29  Identities=24%  Similarity=0.346  Sum_probs=26.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRA   44 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~   44 (173)
                      -.++..++|+|++|+|||||++.|.|...
T Consensus        30 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~   58 (202)
T cd03233          30 VKPGEMVLVLGRPGSGCSTLLKALANRTE   58 (202)
T ss_pred             ECCCcEEEEECCCCCCHHHHHHHhcccCC
Confidence            46778999999999999999999999764

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03300 ABC_PotA_N PotA is an ABC-type transporter and the ATPase component of the spermidine/putrescine-preferential uptake system consisting of PotA, -B, -C, and -D

Probab=98.35  E-value=1.1e-05  Score=58.60  Aligned_cols=33  Identities=21%  Similarity=0.185  Sum_probs=28.1

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|+|......|
T Consensus        23 i~~Ge~~~i~G~nGsGKSTLl~~l~g~~~~~~G   55 (232)
T cd03300          23 IKEGEFFTLLGPSGCGKTTLLRLIAGFETPTSG   55 (232)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            357889999999999999999999998755444

PotA has two domains with the N-terminal domain containing the ATPase activity and the residues required for homodimerization with PotA and heterdimerization with PotB. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.35  E-value=1.7e-06  Score=70.46  Aligned_cols=35  Identities=26%  Similarity=0.253  Sum_probs=29.7

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA   49 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~   49 (173)
                      .-+++..+++|||+|+||||+++.|.+...+.+|.
T Consensus       490 ti~pGe~vALVGPSGsGKSTiasLL~rfY~PtsG~  524 (716)
T KOG0058|consen  490 TIRPGEVVALVGPSGSGKSTIASLLLRFYDPTSGR  524 (716)
T ss_pred             eeCCCCEEEEECCCCCCHHHHHHHHHHhcCCCCCe
Confidence            44688899999999999999999999877665554

>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein

Probab=98.35  E-value=1e-05  Score=58.91  Aligned_cols=33  Identities=27%  Similarity=0.253  Sum_probs=27.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|+|......+
T Consensus        23 i~~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G   55 (237)
T TIGR00968        23 VPTGSLVALLGPSGSGKSTLLRIIAGLEQPDSG   55 (237)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            467889999999999999999999997543333

>PRK10070 glycine betaine transporter ATP-binding subunit; Provisional

Probab=98.34  E-value=6e-06  Score=64.48  Aligned_cols=33  Identities=18%  Similarity=0.108  Sum_probs=27.9

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|...+..|
T Consensus        51 i~~Gei~~LvG~NGsGKSTLLr~I~Gl~~p~sG   83 (400)
T PRK10070         51 IEEGEIFVIMGLSGSGKSTMVRLLNRLIEPTRG   83 (400)
T ss_pred             EcCCCEEEEECCCCchHHHHHHHHHcCCCCCCC
Confidence            457789999999999999999999997654444

>PRK11160 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=98.34  E-value=2.3e-06  Score=70.00  Aligned_cols=33  Identities=24%  Similarity=0.234  Sum_probs=28.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -+++.+++++|++|+|||||++.|+|...+.+|
T Consensus       363 i~~G~~~aivG~sGsGKSTL~~ll~g~~~p~~G  395 (574)
T PRK11160        363 IKAGEKVALLGRTGCGKSTLLQLLTRAWDPQQG  395 (574)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            367889999999999999999999997755555

>TIGR03873 F420-0_ABC_ATP proposed F420-0 ABC transporter, ATP-binding protein

Probab=98.34  E-value=6.2e-06  Score=60.70  Aligned_cols=33  Identities=18%  Similarity=0.151  Sum_probs=27.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......|
T Consensus        24 i~~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G   56 (256)
T TIGR03873        24 APPGSLTGLLGPNGSGKSTLLRLLAGALRPDAG   56 (256)
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHcCCCCCCCC
Confidence            357889999999999999999999997654444

This small clade of ABC-type transporter ATP-binding protein components is found as a three gene cassette along with a periplasmic substrate-binding protein (TIGR03868) and a permease (TIGR03869). The organisms containing this cassette are all Actinobacteria and all contain numerous genes requiring the coenzyme F420. This model was defined based on five such organisms, four of which are lacking all F420 biosynthetic capability save the final side-chain polyglutamate attachment step (via the gene cofE: TIGR01916). In Jonesia denitrificans DSM 20603 and marine actinobacterium PHSC20C1 this cassette is in an apparent operon with the cofE gene and, in PHSC20C1, also with a F420-dependent glucose-6-phosphate dehydrogenase (TIGR03554). Based on these observations we propose that this ATP-binding protein is a component of an F420-0 (that is, F420 lacking only the polyglutamate tail) transporter.

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=98.34  E-value=1.8e-06  Score=63.63  Aligned_cols=130  Identities=14%  Similarity=0.194  Sum_probs=82.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCC---------ccccC-----CCCccceeeEEEEEEeeCCceEEEEeCCCCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRA---------FKSRA-----SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   81 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~---------~~~~~-----~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~   81 (173)
                      ..+-.+|..+|--..|||||..+|+..-.         +....     ...+.|....-..++. .++.+-.+|+||.-+
T Consensus         9 ~kphVNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeEk~rGITIntahveyet-~~rhyahVDcPGHaD   87 (394)
T COG0050           9 TKPHVNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARGITINTAHVEYET-ANRHYAHVDCPGHAD   87 (394)
T ss_pred             CCCeeEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchHhhcCceeccceeEEec-CCceEEeccCCChHH
Confidence            45568899999999999999999865211         10010     1235666666566666 778999999999775


Q ss_pred             CCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHHHh
Q 043441           82 FSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYL  161 (173)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~  161 (173)
                             ..++|..-+.    -.|..|+|+.+.+..-+..++-+- +....+   ...+++++||+|+.++.  .+-+.+
T Consensus        88 -------YvKNMItgAa----qmDgAILVVsA~dGpmPqTrEHiL-larqvG---vp~ivvflnK~Dmvdd~--ellelV  150 (394)
T COG0050          88 -------YVKNMITGAA----QMDGAILVVAATDGPMPQTREHIL-LARQVG---VPYIVVFLNKVDMVDDE--ELLELV  150 (394)
T ss_pred             -------HHHHHhhhHH----hcCccEEEEEcCCCCCCcchhhhh-hhhhcC---CcEEEEEEecccccCcH--HHHHHH
Confidence                   2344443332    237888889887655444332221 222222   25789999999999852  555555


Q ss_pred             cc
Q 043441          162 GR  163 (173)
Q Consensus       162 ~~  163 (173)
                      +-
T Consensus       151 em  152 (394)
T COG0050         151 EM  152 (394)
T ss_pred             HH
Confidence            44

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=98.33  E-value=6.2e-06  Score=59.55  Aligned_cols=33  Identities=18%  Similarity=0.092  Sum_probs=27.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......|
T Consensus        30 i~~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   62 (225)
T PRK10247         30 LRAGEFKLITGPSGCGKSTLLKIVASLISPTSG   62 (225)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcccCCCCC
Confidence            357789999999999999999999997654444

>PRK10789 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=98.33  E-value=2.1e-06  Score=70.08  Aligned_cols=32  Identities=22%  Similarity=0.165  Sum_probs=27.8

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++..++++|++|+|||||++.|+|...+.+|
T Consensus       339 ~~G~~~~ivG~sGsGKSTLl~ll~g~~~p~~G  370 (569)
T PRK10789        339 KPGQMLGICGPTGSGKSTLLSLIQRHFDVSEG  370 (569)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcccCCCCC
Confidence            57889999999999999999999997765444

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=98.33  E-value=5.3e-06  Score=59.09  Aligned_cols=33  Identities=24%  Similarity=0.236  Sum_probs=27.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|+|......+
T Consensus        31 i~~G~~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   63 (207)
T cd03369          31 VKAGEKIGIVGRTGAGKSTLILALFRFLEAEEG   63 (207)
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcccCCCCC
Confidence            357789999999999999999999997654444

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=98.33  E-value=1.5e-05  Score=57.04  Aligned_cols=33  Identities=15%  Similarity=0.150  Sum_probs=27.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -+++..++|+|++|||||||++.|+|...+.+|
T Consensus        10 i~~Ge~~~l~G~NGsGKSTLlk~i~Gl~~~~sG   42 (213)
T PRK15177         10 MGYHEHIGILAAPGSGKTTLTRLLCGLDAPDEG   42 (213)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCCccCCCC
Confidence            356789999999999999999999997654444

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=98.32  E-value=6.4e-06  Score=60.96  Aligned_cols=33  Identities=15%  Similarity=0.152  Sum_probs=27.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......|
T Consensus        34 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   66 (265)
T PRK10575         34 FPAGKVTGLIGHNGSGKSTLLKMLGRHQPPSEG   66 (265)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHcCCCCCCCC
Confidence            357789999999999999999999997654333

>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.32  E-value=6.1e-06  Score=61.28  Aligned_cols=33  Identities=27%  Similarity=0.320  Sum_probs=27.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|+|......|
T Consensus        32 i~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G   64 (271)
T PRK13632         32 INEGEYVAILGHNGSGKSTISKILTGLLKPQSG   64 (271)
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            357789999999999999999999997654444

>PRK13647 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.32  E-value=4.5e-06  Score=62.07  Aligned_cols=33  Identities=18%  Similarity=0.110  Sum_probs=27.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|+|||||++.|.|......|
T Consensus        28 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   60 (274)
T PRK13647         28 IPEGSKTALLGPNGAGKSTLLLHLNGIYLPQRG   60 (274)
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhcCCCCCce
Confidence            367889999999999999999999997654444

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	173
3lxx_A	239	Crystal Structure Of Human Gtpase Imap Family Membe		2e-16
2xtm_A	234	Crystal Structure Of Gdp-Bound Human Gimap2, Amino		2e-11
2xto_A	240	Crystal Structure Of Gdp-Bound Human Gimap2, Amino		3e-11
3p1j_A	209	Crystal Structure Of Human Gtpase Imap Family Membe		3e-11
2xtp_A	260	Crystal Structure Of Nucleotide-Free Human Gimap2,		8e-11
3v70_A	247	Crystal Structure Of Human Gtpase Imap Family Membe		1e-10

>pdb|3LXX|A Chain A, Crystal Structure Of Human Gtpase Imap Family Member 4 Length = 239

Iteration: 1
 Score = 81.6 bits (200), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 43/114 (37%), Positives = 67/114 (58%), Gaps = 2/114 (1%)
Query: 32  KSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGM 91
           KSATGNSILGR+ F S  ++  +T  CE + +  K+ ++V V+DTPG+FD    +     
Sbjct: 42  KSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKETELV-VVDTPGIFDTEVPNAETSK 100
Query: 92  EIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFT 145
           EI++CI L   G HA+L+   +  R+ +EE  A       FG++   + I++FT
Sbjct: 101 EIIRCILLTSPGPHALLLVVPL-GRYTEEEHKATEKILKXFGERARSFXILIFT 153

>pdb|2XTM|A Chain A, Crystal Structure Of Gdp-Bound Human Gimap2, Amino Acid Residues 1-234 Length = 234

Iteration: 1
 Score = 65.1 bits (157), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 36/114 (31%), Positives = 64/114 (56%), Gaps = 2/114 (1%)
Query: 32  KSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGM 91
           KSA GNSIL ++AF+S+  S  +T TC   +    + ++V +IDTP +F +    E +  
Sbjct: 35  KSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGNREIV-IIDTPDMFSWKDHCEALYK 93
Query: 92  EIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFT 145
           E+ +C  L+  G H +L+  +   R+  +++ A    + +FG+    + IV+FT
Sbjct: 94  EVQRCYLLSAPGPHVLLL-VTQLGRYTSQDQQAAQRVKEIFGEDAMGHTIVLFT 146

>pdb|2XTO|A Chain A, Crystal Structure Of Gdp-Bound Human Gimap2, Amino Acid Residues 21-260 Length = 240

Iteration: 1
 Score = 64.7 bits (156), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 36/114 (31%), Positives = 64/114 (56%), Gaps = 2/114 (1%)
Query: 32  KSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGM 91
           KSA GNSIL ++AF+S+  S  +T TC   +    + ++V +IDTP +F +    E +  
Sbjct: 15  KSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGNREIV-IIDTPDMFSWKDHCEALYK 73
Query: 92  EIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFT 145
           E+ +C  L+  G H +L+  +   R+  +++ A    + +FG+    + IV+FT
Sbjct: 74  EVQRCYLLSAPGPHVLLL-VTQLGRYTSQDQQAAQRVKEIFGEDAMGHTIVLFT 126

>pdb|3P1J|A Chain A, Crystal Structure Of Human Gtpase Imap Family Member 2 In The Nucleotide-Free State Length = 209

Iteration: 1
 Score = 64.7 bits (156), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 36/114 (31%), Positives = 64/114 (56%), Gaps = 2/114 (1%)
Query: 32  KSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGM 91
           KSA GNSIL ++AF+S+  S  +T TC   +    + ++V +IDTP +F +    E +  
Sbjct: 18  KSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGNREIV-IIDTPDMFSWKDHCEALYK 76
Query: 92  EIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFT 145
           E+ +C  L+  G H +L+  +   R+  +++ A    + +FG+    + IV+FT
Sbjct: 77  EVQRCYLLSAPGPHVLLL-VTQLGRYTSQDQQAAQRVKEIFGEDAMGHTIVLFT 129

>pdb|2XTP|A Chain A, Crystal Structure Of Nucleotide-Free Human Gimap2, Amino Acid Residues 1-260 Length = 260

Iteration: 1
 Score = 62.8 bits (151), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 36/114 (31%), Positives = 63/114 (55%), Gaps = 2/114 (1%)
Query: 32  KSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGM 91
           KSA GNSIL ++AF+S+  S  +T TC   +    + ++V +IDTP  F +    E +  
Sbjct: 35  KSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGNREIV-IIDTPDXFSWKDHCEALYK 93
Query: 92  EIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFT 145
           E+ +C  L+  G H +L+  +   R+  +++ A    + +FG+    + IV+FT
Sbjct: 94  EVQRCYLLSAPGPHVLLL-VTQLGRYTSQDQQAAQRVKEIFGEDAXGHTIVLFT 146

>pdb|3V70|A Chain A, Crystal Structure Of Human Gtpase Imap Family Member 1 Length = 247

Iteration: 1
 Score = 62.4 bits (150), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 42/115 (36%), Positives = 62/115 (53%), Gaps = 3/115 (2%)
Query: 32  KSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGM 91
           KSATGNSILG+R F SR  ++ VT  C    +   D   V V+DTP +F         G 
Sbjct: 34  KSATGNSILGQRRFFSRLGATSVTRACTTG-SRRWDKCHVEVVDTPDIFSSQVSKTDPGC 92
Query: 92  EIV-KCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFT 145
           E    C  L+  G HA+L+   +  RF  +++ A+   + +FG+ V  +M++VFT
Sbjct: 93  EERGHCYLLSAPGPHALLLVTQL-GRFTAQDQQAVRQVRDMFGEDVLKWMVIVFT 146

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	173
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	1e-48
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	2e-46
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	2e-46
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	2e-45
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	1e-43
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	8e-10
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	2e-04

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A* Length = 262

 Score =  157 bits (398), Expect = 1e-48
 Identities = 33/160 (20%), Positives = 66/160 (41%), Gaps = 3/160 (1%)

Query: 11  ELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQV 70
           +L        TV+ +G+ G GKS+T NS++G +  +     +       + RT+   G  
Sbjct: 28  KLKQKDMNSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTM--GGFT 85

Query: 71  VNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQT 130
           +N+IDTPGL +    +      I   +      +   +    V     + ++  + +   
Sbjct: 86  INIIDTPGLVEAGYVNHQALELIKGFLVNRTIDVLLYVDRLDVY-AVDELDKQVVIAITQ 144

Query: 131 LFGKKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLK 170
            FGK+++   ++V T       +E + E +  +     LK
Sbjct: 145 TFGKEIWCKTLLVLTHAQFSPPDELSYETFSSKRSDSLLK 184

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A Length = 260

 Score =  151 bits (383), Expect = 2e-46
 Identities = 48/167 (28%), Positives = 83/167 (49%), Gaps = 4/167 (2%)

Query: 4   SAIDDDWELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRT 63
           S      +    S     ++ VG+TG GKSA GNSIL ++AF+S+  S  +T TC   + 
Sbjct: 7   SHWGPHAKGQCASRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQG 66

Query: 64  VLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEA 123
                + + +IDTP +F +    E +  E+ +C  L+  G H +L+   +  R+  +++ 
Sbjct: 67  SW-GNREIVIIDTPDMFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQL-GRYTSQDQQ 124

Query: 124 ALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLK 170
           A    + +FG+    + IV+FT  ++L     +L DY+     K L 
Sbjct: 125 AAQRVKEIFGEDAMGHTIVLFTHKEDLNG--GSLMDYMHDSDNKALS 169

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A* Length = 270

 Score =  151 bits (383), Expect = 2e-46
 Identities = 36/170 (21%), Positives = 65/170 (38%), Gaps = 5/170 (2%)

Query: 3   GSAIDDDWELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQR 62
              ++    L        T++ +G+ G GKS+T NSI+G R        S       + R
Sbjct: 23  TKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSR 82

Query: 63  TVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVL-VGFSVRSRFPQEE 121
           +    G  +N+IDTPGL +    ++     I   +      I  +L V      R    +
Sbjct: 83  SR--AGFTLNIIDTPGLIEGGYINDMALNIIKSFL--LDKTIDVLLYVDRLDAYRVDNLD 138

Query: 122 EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLKV 171
           +    +    FGK +++  IV  T       +    +++  +     L+V
Sbjct: 139 KLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPYDEFFSKRSEALLQV 188

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens} Length = 239

 Score =  148 bits (374), Expect = 2e-45
 Identities = 60/157 (38%), Positives = 89/157 (56%), Gaps = 5/157 (3%)

Query: 14  SPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNV 73
            P N    +V VG+TG GKSATGNSILGR+ F S  ++  +T  CE + +       + V
Sbjct: 24  EPRNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSW-KETELVV 82

Query: 74  IDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFG 133
           +DTPG+FD    +     EI++CI L   G HA+L+   +  R+ +EE  A      +FG
Sbjct: 83  VDTPGIFDTEVPNAETSKEIIRCILLTSPGPHALLLVVPL-GRYTEEEHKATEKILKMFG 141

Query: 134 KKVFDYMIVVFTGGDELEDNEETLEDYLGRECPKPLK 170
           ++   +MI++FT  D+L D    L DYL RE P+ ++
Sbjct: 142 ERARSFMILIFTRKDDLGD--TNLHDYL-REAPEDIQ 175

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A* Length = 413

 Score = 55.5 bits (133), Expect = 8e-10
 Identities = 31/153 (20%), Positives = 56/153 (36%), Gaps = 16/153 (10%)

Query: 4   SAIDDDWELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTC-EMQR 62
           SAI D   L    + V  V   G TG+GKS+  N++ G    +  A+ +GV     E   
Sbjct: 56  SAISD--ALKEIDSSVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHP 113

Query: 63  TVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEE 122
               +   V   D PG+      + F     ++ +   +      ++  + R    ++ +
Sbjct: 114 YKHPNIPNVVFWDLPGIGS----TNFPPDTYLEKMKFYE--YDFFIIISATR---FKKND 164

Query: 123 AALHSWQTLFGKKVFDYMIVVFTGGDELEDNEE 155
             +    ++  K+       V T  D    NE 
Sbjct: 165 IDIAKAISMMKKEF----YFVRTKVDSDITNEA 193

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens} Length = 427

 Score = 39.3 bits (91), Expect = 2e-04
 Identities = 13/64 (20%), Positives = 27/64 (42%), Gaps = 3/64 (4%)

Query: 21  TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQV---VNVIDTP 77
            ++ VG TG GKS   +++   +     A+ +      +     L++  V   + ++ T 
Sbjct: 44  NILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVSTV 103

Query: 78  GLFD 81
           G  D
Sbjct: 104 GFGD 107

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	173
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.93
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.92
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.89
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.86
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.86
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.82
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.82
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.81
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.78
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.78
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.78
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.78
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.77
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.76
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.76
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.76
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.76
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.75
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.75
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.75
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.75
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.75
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.75
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.74
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.74
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.74
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.74
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.74
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.74
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.74
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.74
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.74
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.74
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.74
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.74
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.73
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.73
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.73
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.72
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.72
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.72
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.72
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.72
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.72
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.72
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.72
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.72
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.72
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.72
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.72
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.72
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.72
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.72
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.72
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.71
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.71
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.71
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.71
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.71
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.71
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.71
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.71
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.71
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.71
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.71
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.71
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.7
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.7
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.7
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.7
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.7
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.7
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.7
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.7
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.7
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.7
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.7
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.7
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.7
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.7
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.7
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.7
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.7
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.69
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.69
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.69
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.69
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.69
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.69
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.69
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.69
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.69
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.69
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.69
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.69
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.68
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.68
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.68
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.68
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.68
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.68
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.68
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.68
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.68
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.68
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.67
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.67
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.67
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.67
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.67
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.67
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.66
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.66
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.66
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.66
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.66
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.66
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.66
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.66
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.65
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.65
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.65
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.65
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.65
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.65
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.65
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.65
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.65
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.64
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.63
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.63
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.63
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.63
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.62
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	99.62
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.62
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.62
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.62
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.61
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.61
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.61
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.61
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.6
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.6
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.58
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.36
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.57
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.57
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.56
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	99.56
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.56
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.55
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.55
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.55
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.55
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.55
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.53
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.53
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.53
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.52
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.52
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.51
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.51
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.5
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.5
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.5
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.49
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.49
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.49
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.49
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.49
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.48
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.48
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.47
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.46
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.45
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.45
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.44
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.43
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	99.4
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.4
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.39
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.39
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.38
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.38
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.38
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	99.38
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.35
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.33
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.3
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.26
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.24
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.22
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.22
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	99.2
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	99.19
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.19
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	99.19
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	99.18
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.15
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	99.11
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	99.09
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	99.08
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	99.06
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.04
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.02
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.02
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	99.0
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	98.97
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	98.95
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	98.94
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.87
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	98.82
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	98.81
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	98.73
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	98.73
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	98.72
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	98.69
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	98.67
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	98.66
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	98.65
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	98.65
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	98.63
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	98.62
2og2_A	359	Putative signal recognition particle receptor; nuc	98.62
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	98.61
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	98.6
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	98.57
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	98.57
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	98.57
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	98.57
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	98.56
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	98.53
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	98.53
1ji0_A	240	ABC transporter; ATP binding protein, structural g	98.52
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	98.52
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	98.51
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	98.5
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	98.5
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	98.49
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	98.48
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	98.48
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	98.47
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	98.47
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	98.45
1sgw_A	214	Putative ABC transporter; structural genomics, P p	98.44
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	98.43
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	98.41
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	98.41
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	98.4
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	98.38
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	98.37
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	98.36
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	98.35
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	98.34
2hf9_A	226	Probable hydrogenase nickel incorporation protein	98.33
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	98.33
2xxa_A	433	Signal recognition particle protein; protein trans	98.33
2ghi_A	260	Transport protein; multidrug resistance protein, M	98.31
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	98.29
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	98.25
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	98.25
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	98.2
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	98.16
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	98.16
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	98.15
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	98.12
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	98.1
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	98.07
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	98.07
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	98.06
1b0u_A	262	Histidine permease; ABC transporter, transport pro	98.06
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	98.06
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	98.05
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	98.04
1g6h_A	257	High-affinity branched-chain amino acid transport	98.04
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	98.04
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	98.03
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	98.03
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	98.02
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	98.0
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	98.0
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.99
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	97.99
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.98
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	97.97
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.97
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.96
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	97.95
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.95
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	97.93
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.93
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.92
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	97.92
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	97.91
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	97.9
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.89
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	97.89
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	97.88
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.87
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.87
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.87
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	97.86
2eyu_A	261	Twitching motility protein PILT; pilus retraction	97.83
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	97.82
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	97.81
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	97.79
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	97.78
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	97.78
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	97.74
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.74
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	97.73
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	97.71
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	97.69
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.68
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	97.67
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	97.67
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	97.65
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	97.63
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	97.63
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	97.63
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.61
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	97.61
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	97.61
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.61
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.6
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	97.59
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	97.59
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	97.59
2ewv_A	372	Twitching motility protein PILT; pilus retraction	97.56
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.53
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	97.51
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	97.49
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	97.49
1p9r_A	418	General secretion pathway protein E; bacterial typ	97.49
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.46
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	97.46
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	97.45
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	97.44
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	97.42
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.42
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.4
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	97.39
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	97.38
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	97.38
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	97.38
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.38
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	97.38
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.37
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	97.36
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	97.35
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	97.35
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	97.34
3kta_A	182	Chromosome segregation protein SMC; structural mai	97.34
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	97.32
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	97.31
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	97.3
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	97.3
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	97.29
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	97.28
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	97.28
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	97.27
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	97.26
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	97.26
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	97.25
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	97.23
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	97.23
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	97.23
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	97.23
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	97.2
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	97.2
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	97.19
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	97.18
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	97.16
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	97.16
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	97.15
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	97.14
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	97.14
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	97.14
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	97.13
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	97.12
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	97.11
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	97.11
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	97.1
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	97.1
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.08
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	97.08
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	97.07
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	97.07
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	97.05
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	97.05
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.04
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	97.02
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	97.02
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	97.02
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	97.0
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	97.0
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	97.0
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	97.0
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.99
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.98
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.98
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.98
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.97
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	96.97
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.96
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	96.95
1via_A	175	Shikimate kinase; structural genomics, transferase	96.95
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.95
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	96.95
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.95
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.95
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	96.94
2o8b_B	1022	DNA mismatch repair protein MSH6; DNA damage respo	96.94
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	96.93
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.93
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.93
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.92
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.89
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.89
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.89
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.88
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.88
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	96.87
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.87
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.86
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.86
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	96.86
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.85
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.85
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.83
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.83
4aby_A	415	DNA repair protein RECN; hydrolase, double strand	96.82
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	96.82
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.81
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	96.8
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.8
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	96.8
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.79
3qkt_A	339	DNA double-strand break repair RAD50 ATPase; RECA-	96.78
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	96.78
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.77
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	96.76
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	96.75
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	96.73
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.73
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.72
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	96.72
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	96.71
1w1w_A	430	Structural maintenance of chromosome 1; cohesin, c	96.7
1e69_A	322	Chromosome segregation SMC protein; structural mai	96.69
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	96.67
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.67
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	96.65
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	96.64
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	96.64
2o5v_A	359	DNA replication and repair protein RECF; ABC ATPas	96.63
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	96.6
1a7j_A	290	Phosphoribulokinase; transferase, calvin cycle; 2.	96.6
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.6
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.6
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	96.6
3bos_A	242	Putative DNA replication factor; P-loop containing	96.57
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	96.56
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	96.54
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.51
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	96.5
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	96.5
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	96.46
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	96.46
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	96.45
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	96.44
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	96.43
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	96.42
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	96.42
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	96.38
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	96.37
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	96.34
4ag6_A	392	VIRB4 ATPase, type IV secretory pathway VIRB4 comp	96.33
3auy_A	371	DNA double-strand break repair RAD50 ATPase; DNA r	96.33
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	96.31
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	96.28
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	96.27
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.26
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	96.25
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	96.25
3lv8_A	236	DTMP kinase, thymidylate kinase; structural genomi	96.24
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	96.24
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	96.23
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	96.21
3v9p_A	227	DTMP kinase, thymidylate kinase; ssgcid, STRU geno	96.2
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	96.2
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	96.18
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	96.11
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	96.1
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.09
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	96.08
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.08
2ius_A	512	DNA translocase FTSK; nucleotide-binding, chromoso	96.05
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	96.04

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=99.93  E-value=2.8e-25  Score=160.42  Aligned_cols=145  Identities=39%  Similarity=0.685  Sum_probs=103.9

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      ......+|+|+|.+|+|||||+|+|++...+..+......|..+......+ .+..+.+|||||+.+..........++.
T Consensus        25 ~~~~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~i~liDTpG~~~~~~~~~~~~~~~~  103 (239)
T 3lxx_A           25 PRNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSW-KETELVVVDTPGIFDTEVPNAETSKEII  103 (239)
T ss_dssp             ---CEEEEEEECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEE-TTEEEEEEECCSCC-----CHHHHHHHH
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEe-CCceEEEEECCCccCCCCCHHHHHHHHH
Confidence            345678999999999999999999999887655544335566666666666 7889999999999987777777788888


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHHHhcc
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGR  163 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~  163 (173)
                      +.+..+++++|++|+|++++ +++..+..+++.+.+.++.....|+++|+||+|++...  .++++++.
T Consensus       104 ~~~~~~~~~~~~~l~v~d~~-~~~~~~~~~l~~~~~~~~~~~~~~~iiv~nK~D~~~~~--~~~~~i~~  169 (239)
T 3lxx_A          104 RCILLTSPGPHALLLVVPLG-RYTEEEHKATEKILKMFGERARSFMILIFTRKDDLGDT--NLHDYLRE  169 (239)
T ss_dssp             HHHHHTTTCCSEEEEEEETT-CCSSHHHHHHHHHHHHHHHHHGGGEEEEEECGGGC-------------
T ss_pred             HHHHhcCCCCcEEEEEeeCC-CCCHHHHHHHHHHHHHhhhhccceEEEEEeCCccCCcc--cHHHHHHh
Confidence            88888889999999999998 78888889999999888776567999999999998763  56655554

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=99.89  E-value=3.3e-22  Score=145.94  Aligned_cols=142  Identities=32%  Similarity=0.547  Sum_probs=109.3

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      ......+|+|+|.+|+|||||+|+|++...+.....+.+.|.........+ .+..+.+|||||+.+.....+.....+.
T Consensus        18 ~~~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~~i~iiDTpG~~~~~~~~~~~~~~i~   96 (260)
T 2xtp_A           18 ASRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSW-GNREIVIIDTPDMFSWKDHCEALYKEVQ   96 (260)
T ss_dssp             ---CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEE-TTEEEEEEECCGGGGSSCCCHHHHHHHH
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEe-CCCEEEEEECcCCCCCCCCHHHHHHHHH
Confidence            345678999999999999999999999876655444433455555555555 7889999999999987766666666777


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEe-CCCCCCCCcccHHHHh
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFT-GGDELEDNEETLEDYL  161 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~t-k~D~~~~~~~~~~~~~  161 (173)
                      +.+..+++.+|++++|++++ ++...+..+++.+.+.++.....|.++|+| |+|+...   ...+++
T Consensus        97 ~~~~~~~~~~d~il~V~d~~-~~~~~~~~~~~~l~~~~~~~~~~~~i~vv~nK~Dl~~~---~~~~~i  160 (260)
T 2xtp_A           97 RCYLLSAPGPHVLLLVTQLG-RYTSQDQQAAQRVKEIFGEDAMGHTIVLFTHKEDLNGG---SLMDYM  160 (260)
T ss_dssp             HHHHHHTTCCSEEEEEEETT-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECGGGGTTC---CHHHHH
T ss_pred             HHHHhcCCCCcEEEEEEeCC-CCCHHHHHHHHHHHHHhCchhhccEEEEEEcccccCCc---cHHHHH
Confidence            77777889999999999998 688888888888999887655577888888 9999854   455543

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.86  E-value=1.6e-20  Score=137.28  Aligned_cols=143  Identities=21%  Similarity=0.270  Sum_probs=106.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+|+++|.+|+|||||+|+|++....... ...+.|.......... .+..+.+|||||+.+.....+...+.+.++
T Consensus        34 ~~~~~I~lvG~~g~GKSSLin~l~~~~~~~~~-~~~~~t~~~~~~~~~~-~~~~l~liDTpG~~~~~~~~~~~~~~i~~~  111 (262)
T 3def_A           34 MNSMTVLVLGKGGVGKSSTVNSLIGEQVVRVS-PFQAEGLRPVMVSRTM-GGFTINIIDTPGLVEAGYVNHQALELIKGF  111 (262)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHTSCCSCCC-SSCC-CCCCEEEEEEE-TTEEEEEEECCCSEETTEECHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCCCcccC-CCCCcceeeEEEEEEE-CCeeEEEEECCCCCCcccchHHHHHHHHHH
Confidence            45789999999999999999999997742222 2233444444555555 788999999999987765555555555554


Q ss_pred             HHhccCCceEEEEEeecCC-CCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHHHhcc
Q 043441           97 IGLAKDGIHAVLVGFSVRS-RFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGR  163 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~  163 (173)
                      +  ...++|++++|+++.. .++..+..+++.+.+.++.....|+++|+||+|+...+....+++++.
T Consensus       112 l--~~~~~~~il~V~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~~~~~~~e~~~~~  177 (262)
T 3def_A          112 L--VNRTIDVLLYVDRLDVYAVDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSPPDELSYETFSSK  177 (262)
T ss_dssp             T--TTCEECEEEEEEESSCSCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCCSTTCCHHHHHHH
T ss_pred             H--hcCCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCCCCCccHHHHHHh
Confidence            4  2457899999987742 566777899999999988776679999999999976555678887765

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.86  E-value=1.7e-20  Score=137.73  Aligned_cols=143  Identities=22%  Similarity=0.282  Sum_probs=101.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+|+++|.+|+|||||+|+|++........ ..+.|.......... .+..+.+|||||+.+.....+.....+..+
T Consensus        37 ~~~~~I~vvG~~g~GKSSLin~l~~~~~~~~~~-~~~~t~~~~~~~~~~-~~~~l~iiDTpG~~~~~~~~~~~~~~i~~~  114 (270)
T 1h65_A           37 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISP-FQSEGPRPVMVSRSR-AGFTLNIIDTPGLIEGGYINDMALNIIKSF  114 (270)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCS-SSCCCSSCEEEEEEE-TTEEEEEEECCCSEETTEECHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCcccccC-CCCcceeeEEEEEee-CCeEEEEEECCCCCCCccchHHHHHHHHHH
Confidence            356899999999999999999999877432221 223343333444444 778899999999987644334333333332


Q ss_pred             HHhccCCceEEEEEeecCC-CCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHHHhcc
Q 043441           97 IGLAKDGIHAVLVGFSVRS-RFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGR  163 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~  163 (173)
                      +  ..+++|++++|+++.. .++..+..+++.+.+.++...+.|+++|+||+|+...+..++++|+++
T Consensus       115 ~--~~~~~d~il~v~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~~~~~~~~~~~~~  180 (270)
T 1h65_A          115 L--LDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPYDEFFSK  180 (270)
T ss_dssp             T--TTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGGCCHHHHHHH
T ss_pred             h--hcCCCCEEEEEEeCCCCcCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCCcCCCCHHHHHHH
Confidence            2  3457899999987743 567777889999988887766679999999999886654466766543

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=99.82  E-value=2.1e-19  Score=134.16  Aligned_cols=130  Identities=19%  Similarity=0.266  Sum_probs=94.7

Q ss_pred             CCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeC-CceEEEEeCCCCCCCCCCcHHHHH
Q 043441           13 TSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD-GQVVNVIDTPGLFDFSAGSEFVGM   91 (173)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~v~DtpG~~~~~~~~~~~~~   91 (173)
                      .+.+++...|+++|.+|+|||||+|+|++....... .....|.......... . +..+.++||||+.+.. ....+.+
T Consensus         4 ~~~~~~~g~v~ivG~~nvGKSTLin~l~g~~~~i~s-~~~~tT~~~~~~~~~~-~~~~~i~lvDTPG~~~~~-~~~~l~~   80 (308)
T 3iev_A            4 HHHHMKVGYVAIVGKPNVGKSTLLNNLLGTKVSIIS-PKAGTTRMRVLGVKNI-PNEAQIIFLDTPGIYEPK-KSDVLGH   80 (308)
T ss_dssp             ---CCEEEEEEEECSTTSSHHHHHHHHHTSCCSCCC-SSSCCCCSCEEEEEEE-TTTEEEEEEECCCCCCCC-TTCHHHH
T ss_pred             CCCCCCCCEEEEECCCCCcHHHHHHHHhCCCccccC-CCCCceeeEEEEEEec-CCCCeEEEEECcCCCccc-cchhHHH
Confidence            345677899999999999999999999998753222 2223343333333344 5 7899999999998754 2345667


Q ss_pred             HHHHHHHhccCCceEEEEEeecCCCCCHHHHHH-HHHHHHHHcccccceEEEEEeCCCCC
Q 043441           92 EIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAA-LHSWQTLFGKKVFDYMIVVFTGGDEL  150 (173)
Q Consensus        92 ~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~-~~~l~~~~~~~~~~~~~iv~tk~D~~  150 (173)
                      .+...+..++..+|++++|+|+++..+..+... ++.+..     ...|+++|+||+|+.
T Consensus        81 ~~~~~~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~-----~~~pvilV~NK~Dl~  135 (308)
T 3iev_A           81 SMVEIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKP-----LNKPVIVVINKIDKI  135 (308)
T ss_dssp             HHHHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGG-----GCCCEEEEEECGGGS
T ss_pred             HHHHHHHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHh-----cCCCEEEEEECccCC
Confidence            777777778889999999999997777776554 555444     237999999999998

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=99.82  E-value=5.6e-19  Score=131.46  Aligned_cols=127  Identities=20%  Similarity=0.131  Sum_probs=90.9

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ...+|+++|.+|+|||||+|+|++........ .+..|.......... .+..+.+|||||+.+..   ..+.+.+...+
T Consensus         6 ~~g~V~ivG~~nvGKSTLln~l~g~~~~ivs~-~~~tTr~~i~~i~~~-~~~~l~l~DTpG~~~~~---~~l~~~~~~~~   80 (301)
T 1wf3_A            6 YSGFVAIVGKPNVGKSTLLNNLLGVKVAPISP-RPQTTRKRLRGILTE-GRRQIVFVDTPGLHKPM---DALGEFMDQEV   80 (301)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTSCCSCCCS-SSCCCCSCEEEEEEE-TTEEEEEEECCCCCCCC---SHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCceeeecC-CCCceeEEEEEEEEe-CCcEEEEecCccccchh---hHHHHHHHHHH
Confidence            44689999999999999999999977532221 112232222222233 67899999999998643   34555667777


Q ss_pred             HhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..+++.+|++++|+|+++.++..+...++.+.+..   ...|+++|+||+|+...
T Consensus        81 ~~~l~~ad~il~VvD~~~~~~~~~~~i~~~l~~~~---~~~p~ilV~NK~Dl~~~  132 (301)
T 1wf3_A           81 YEALADVNAVVWVVDLRHPPTPEDELVARALKPLV---GKVPILLVGNKLDAAKY  132 (301)
T ss_dssp             HHHTSSCSEEEEEEETTSCCCHHHHHHHHHHGGGT---TTSCEEEEEECGGGCSS
T ss_pred             HHHHhcCCEEEEEEECCCCCChHHHHHHHHHHhhc---CCCCEEEEEECcccCCc
Confidence            77889999999999998777777655555555432   13799999999999865

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.81  E-value=3.1e-19  Score=126.98  Aligned_cols=132  Identities=13%  Similarity=0.156  Sum_probs=89.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHH--HHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEF--VGMEI   93 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~--~~~~~   93 (173)
                      .....+|+++|.+|+|||||+|+|++...........+.|............+..+.+|||||+.+.......  ....+
T Consensus        26 ~~~~~~i~v~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~  105 (223)
T 4dhe_A           26 PTVQPEIAFAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGPAAEPVAHLVDLPGYGYAEVPGAAKAHWEQL  105 (223)
T ss_dssp             CCCSCEEEEEESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEESCTTSCSEEEEECCCCCSSCCCSTHHHHHHHH
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCcceeecCCCCcccceEEEEecCCCCCcEEEEcCCCCCcccCChhhHHHHHHH
Confidence            3467899999999999999999999976221222233445554444444225678999999998765433221  11222


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..........+|++++|+|+++.++..+..+++++.+     ...|+++|+||+|+...
T Consensus       106 ~~~~~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~l~~-----~~~p~i~v~nK~Dl~~~  159 (223)
T 4dhe_A          106 LSSYLQTRPQLCGMILMMDARRPLTELDRRMIEWFAP-----TGKPIHSLLTKCDKLTR  159 (223)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHGG-----GCCCEEEEEECGGGSCH
T ss_pred             HHHHHhcCcCcCEEEEEEeCCCCCCHHHHHHHHHHHh-----cCCCEEEEEeccccCCh
Confidence            2222223455899999999987788777777666655     22789999999999865

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.78  E-value=3.2e-18  Score=115.53  Aligned_cols=122  Identities=24%  Similarity=0.223  Sum_probs=83.4

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      ++|+++|.+|+|||||++++++....... ...+.+.......... .+..+.+|||||......    ....+......
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~l~Dt~G~~~~~~----~~~~~~~~~~~   75 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVVA-DVPGVTRDLKEGVVET-DRGRFLLVDTGGLWSGDK----WEKKIQEKVDR   75 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC------------CCEEEEEEE-TTEEEEEEECGGGCSSSS----CCHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeecc-CCCCceecceEEEEEe-CCceEEEEECCCCCCccc----hHHHHHHHHHH
Confidence            58999999999999999999986632111 2223344444444555 677899999999886432    12233444455


Q ss_pred             ccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ++..+|++++|+|+++.++.......+.+.+     ...|+++|+||+|+...
T Consensus        76 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~-----~~~p~ilv~nK~Dl~~~  123 (161)
T 2dyk_A           76 ALEDAEVVLFAVDGRAELTQADYEVAEYLRR-----KGKPVILVATKVDDPKH  123 (161)
T ss_dssp             HTTTCSEEEEEEESSSCCCHHHHHHHHHHHH-----HTCCEEEEEECCCSGGG
T ss_pred             HHHhCCEEEEEEECCCcccHhHHHHHHHHHh-----cCCCEEEEEECcccccc
Confidence            6788999999999987777766666555554     22789999999998765

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=99.78  E-value=1.4e-17  Score=115.98  Aligned_cols=128  Identities=19%  Similarity=0.235  Sum_probs=81.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      .....+|+++|.+|+|||||+|+|++...........+.|.......  .  +..+.+|||||+.+...... ....+..
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~--~--~~~~~l~Dt~G~~~~~~~~~-~~~~~~~   94 (195)
T 1svi_A           20 EGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYI--I--NDELHFVDVPGYGFAKVSKS-EREAWGR   94 (195)
T ss_dssp             CSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEE--E--TTTEEEEECCCBCCCSSCHH-HHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEE--E--CCcEEEEECCCCCccccCHH-HHHHHHH
Confidence            34678999999999999999999998763222222233343333322  2  34799999999876543322 2223333


Q ss_pred             HHHhc---cCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           96 CIGLA---KDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        96 ~~~~~---~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ....+   ...+|++++|+|+++..+..+...++++.+     ...|+++|+||+|+....
T Consensus        95 ~~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~-----~~~p~i~v~nK~Dl~~~~  150 (195)
T 1svi_A           95 MIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKY-----YGIPVIVIATKADKIPKG  150 (195)
T ss_dssp             HHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH-----TTCCEEEEEECGGGSCGG
T ss_pred             HHHHHHhhhhcCCEEEEEEECCCCCCHHHHHHHHHHHH-----cCCCEEEEEECcccCChH
Confidence            33333   345599999999987777777666666654     227899999999998753

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=99.78  E-value=3.4e-18  Score=117.32  Aligned_cols=127  Identities=22%  Similarity=0.182  Sum_probs=83.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      +..+|+++|.+|+|||||+|.|++....... ...+.+.......+.. ++..+.+|||||+.......+..  .+... 
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~~~~~~~-~~~~~t~~~~~~~~~~-~~~~~~l~Dt~G~~~~~~~~~~~--~~~~~-   77 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGREAAIVT-DIAGTTRDVLREHIHI-DGMPLHIIDTAGLREASDEVERI--GIERA-   77 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTSCCSCCC-SSTTCCCSCEEEEEEE-TTEEEEEEECCCCSCCSSHHHHH--HHHHH-
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcceee-CCCCceeceeeEEEEE-CCeEEEEEECCCcccchhHHHHH--HHHHH-
Confidence            4578999999999999999999986532111 1222333333334444 67789999999987642211111  11111 


Q ss_pred             HhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      ..+++.+|++++|+|+++..+.....+++.+.+....  ..|+++|+||+|+..
T Consensus        78 ~~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~~--~~p~ilv~NK~Dl~~  129 (172)
T 2gj8_A           78 WQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPA--KLPITVVRNKADITG  129 (172)
T ss_dssp             HHHHHTCSEEEEEEETTTCCCCSHHHHCHHHHHHSCT--TCCEEEEEECHHHHC
T ss_pred             HHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHhccc--CCCEEEEEECccCCc
Confidence            2345688999999999866665566666666654332  378999999999854

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=99.78  E-value=1.3e-17  Score=119.35  Aligned_cols=137  Identities=17%  Similarity=0.105  Sum_probs=83.2

Q ss_pred             cCCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHH
Q 043441           12 LTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGM   91 (173)
Q Consensus        12 ~~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~   91 (173)
                      .|.......+|+++|.+|+|||||+|+|++.... .. .....|.......... .+..+.+|||||+.+......... 
T Consensus        22 ~P~~~~~~~kI~vvG~~~vGKSsLin~l~~~~~~-~~-~~~~~t~~~~~~~~~~-~~~~~~l~DtpG~~~~~~~~~~~~-   97 (228)
T 2qu8_A           22 LPSINPHKKTIILSGAPNVGKSSFMNIVSRANVD-VQ-SYSFTTKNLYVGHFDH-KLNKYQIIDTPGLLDRAFENRNTI-   97 (228)
T ss_dssp             CCSCCTTSEEEEEECSTTSSHHHHHHHHTTTCEE-EE-CC-----CEEEEEEEE-TTEEEEEEECTTTTTSCGGGCCHH-
T ss_pred             CCCCCCCCCEEEEECCCCCCHHHHHHHHhCCCCc-cC-CCCCcceeeeeeeeec-CCCeEEEEECCCCcCcccchhhhH-
Confidence            3444567799999999999999999999987642 11 1222344444444444 667899999999975322111110 


Q ss_pred             HHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           92 EIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        92 ~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      +. ..+...+..+|++++|+|+++..+.......+++..........|+++|+||+|+....
T Consensus        98 ~~-~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~~~~piilv~nK~Dl~~~~  158 (228)
T 2qu8_A           98 EM-TTITALAHINGVILFIIDISEQCGLTIKEQINLFYSIKSVFSNKSIVIGFNKIDKCNMD  158 (228)
T ss_dssp             HH-HHHHHHHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTCC-CCCEEEEEECGGGCC--
T ss_pred             HH-HHHHHhhccccEEEEEEecccccCcchHHHHHHHHHHHHhhcCCcEEEEEeCcccCCch
Confidence            01 11223356779999999998654433223333444432221237999999999998653

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.77  E-value=6.2e-17  Score=112.43  Aligned_cols=127  Identities=17%  Similarity=0.121  Sum_probs=84.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHH--HHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEF--VGMEI   93 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~--~~~~~   93 (173)
                      .....+|+++|.+|+|||||+|+|++.... ......+.+.......    .+..+.+|||||+.........  ....+
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~t~~~~~~~----~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~   94 (195)
T 3pqc_A           20 PPLKGEVAFVGRSNVGKSSLLNALFNRKIA-FVSKTPGKTRSINFYL----VNSKYYFVDLPGYGYAKVSKKERMLWKRL   94 (195)
T ss_dssp             CCTTCEEEEEEBTTSSHHHHHHHHHTSCCS-CCCSSCCCCCCEEEEE----ETTTEEEEECCCBSSSCCCHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHcCccc-cccCCCCCccCeEEEE----ECCcEEEEECCCCccccCChhhHHHHHHH
Confidence            456689999999999999999999987732 2222223333332222    3457889999997754332211  12222


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..........++++++|+|+++.........++++.+.     ..|+++|+||+|+...
T Consensus        95 ~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~-----~~p~i~v~nK~Dl~~~  148 (195)
T 3pqc_A           95 VEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKSL-----NIPFTIVLTKMDKVKM  148 (195)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHT-----TCCEEEEEECGGGSCG
T ss_pred             HHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHHc-----CCCEEEEEEChhcCCh
Confidence            22222334566999999999877777777776666654     2789999999999865

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.76  E-value=1.3e-17  Score=114.33  Aligned_cols=118  Identities=16%  Similarity=0.199  Sum_probs=81.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      .++..+|+++|.+|+|||||++++++........  ...+.......... .+..+.+|||||........         
T Consensus         5 ~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~--~~~~~~~~~~~~~~-~~~~~~l~Dt~G~~~~~~~~---------   72 (178)
T 2lkc_A            5 VERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEA--GGITQHIGAYQVTV-NDKKITFLDTPGHEAFTTMR---------   72 (178)
T ss_dssp             CCCCCEEEEESCTTTTHHHHHHHHHTTCSSCSSC--CSSSTTCCCCEEEE-TTEEEEESCCCSSSSSSCSC---------
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCccccCCC--CceeEeeeEEEEEe-CCceEEEEECCCCHHHHHHH---------
Confidence            4567899999999999999999999876432221  12222222233444 67789999999987643322         


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                        ...+..+|++++|+++++.........++   .....  ..|+++|+||+|+...
T Consensus        73 --~~~~~~~d~~i~v~d~~~~~~~~~~~~l~---~~~~~--~~p~ilv~nK~Dl~~~  122 (178)
T 2lkc_A           73 --ARGAQVTDIVILVVAADDGVMPQTVEAIN---HAKAA--NVPIIVAINKMDKPEA  122 (178)
T ss_dssp             --CSSCCCCCEEEEEEETTCCCCHHHHHHHH---HHGGG--SCCEEEEEETTTSSCS
T ss_pred             --HHHHhhCCEEEEEEECCCCCcHHHHHHHH---HHHhC--CCCEEEEEECccCCcC
Confidence              24677899999999998665555544443   33222  3789999999999875

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=99.76  E-value=6.3e-18  Score=115.04  Aligned_cols=121  Identities=10%  Similarity=0.086  Sum_probs=75.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      .+..+|+++|.+|+|||||+|++++..........  ............ .+  ..+.+|||||...           +.
T Consensus         4 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t--~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~-----------~~   69 (170)
T 1z08_A            4 AYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITT--LGASFLTKKLNI-GGKRVNLAIWDTAGQER-----------FH   69 (170)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCC--CSCEEEEEEEES-SSCEEEEEEEECCCC---------------
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHcCCCCcCCCCc--cceEEEEEEEEE-CCEEEEEEEEECCCcHh-----------hh
Confidence            45589999999999999999999976532222111  121122222332 33  3688999999653           22


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .....+++.+|++++|+|+++..+... ..+++.+.+.....  .|+++|+||+|+....
T Consensus        70 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~piilv~nK~Dl~~~~  127 (170)
T 1z08_A           70 ALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNE--ICLCIVGNKIDLEKER  127 (170)
T ss_dssp             ---CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGG--SEEEEEEECGGGGGGC
T ss_pred             hhHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCCC--CeEEEEEECccccccc
Confidence            233457889999999999984332221 34555555544333  7999999999997643

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=99.76  E-value=1.3e-17  Score=115.75  Aligned_cols=127  Identities=12%  Similarity=0.056  Sum_probs=80.4

Q ss_pred             cCCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHH
Q 043441           12 LTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVG   90 (173)
Q Consensus        12 ~~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~   90 (173)
                      .+...+...+|+++|.+|+|||||+|+|++...........+.+..  ....... ....+.+|||||.......     
T Consensus        15 ~~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~--~~~~~~~~~~~~~~l~Dt~G~~~~~~~-----   87 (189)
T 2gf9_A           15 VPRGSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFK--VKTVYRHDKRIKLQIWDTAGQERYRTI-----   87 (189)
T ss_dssp             CCTTCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEE--EEEEEETTEEEEEEEEECCSCCSSCCS-----
T ss_pred             CCcccCceeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEE--EEEEEECCeEEEEEEEeCCCcHHHhhh-----
Confidence            3334456789999999999999999999986642222222222222  2222221 2347899999997654322     


Q ss_pred             HHHHHHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           91 MEIVKCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        91 ~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                            ...++..+|++++|+|+++..+.. ...+++.+.+...  ...|+++|+||+|+....
T Consensus        88 ------~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~piilv~nK~Dl~~~~  143 (189)
T 2gf9_A           88 ------TTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSW--DNAQVILVGNKCDLEDER  143 (189)
T ss_dssp             ------GGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSC--TTCEEEEEEECTTCGGGC
T ss_pred             ------HHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC--CCCCEEEEEECccccccc
Confidence                  235678899999999997432222 1344444444321  237999999999987643

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=99.76  E-value=5e-18  Score=116.76  Aligned_cols=123  Identities=17%  Similarity=0.142  Sum_probs=77.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      .....+|+++|.+|+|||||+|++++...........+.+...  ...... ....+.+|||||....           .
T Consensus         9 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~i~Dt~G~~~~-----------~   75 (181)
T 2efe_B            9 KSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFS--QTLAVNDATVKFEIWDTAGQERY-----------H   75 (181)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEE--EEEEETTEEEEEEEEECCCSGGG-----------G
T ss_pred             CccceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEE--EEEEECCEEEEEEEEeCCCChhh-----------h
Confidence            4556899999999999999999999866432222222222222  222221 2347899999996532           1


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .....+++.+|++++|+|+++..+.. ...+++.+.....  ...|+++|+||+|+....
T Consensus        76 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~p~i~v~nK~Dl~~~~  133 (181)
T 2efe_B           76 SLAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGN--PNMVMALAGNKSDLLDAR  133 (181)
T ss_dssp             GGTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--TTCEEEEEEECTTCTTTC
T ss_pred             hhhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC--CCCcEEEEEECCcccccc
Confidence            22234567889999999998443322 2345555554422  237899999999997654

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=99.75  E-value=2e-17  Score=116.01  Aligned_cols=122  Identities=11%  Similarity=0.048  Sum_probs=78.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      +...+|+++|.+|+|||||++.|++...........+.+..  ....... ....+.+|||||...           +..
T Consensus         6 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~--~~~~~~~~~~~~~~l~Dt~G~~~-----------~~~   72 (203)
T 1zbd_A            6 DYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFK--VKTIYRNDKRIKLQIWDTAGLER-----------YRT   72 (203)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEE--EEEEEETTEEEEEEEEEECCSGG-----------GHH
T ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEE--EEEEEECCeEEEEEEEECCCchh-----------hcc
Confidence            34589999999999999999999987642222222222222  2222221 234789999999753           223


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ....+++.+|++++|+|+++..+.. ...+++.+.....  ...|+++|+||+|+....
T Consensus        73 ~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~piilv~nK~Dl~~~~  129 (203)
T 1zbd_A           73 ITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSW--DNAQVLLVGNKCDMEDER  129 (203)
T ss_dssp             HHHTTGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--SSCEEEEEEECTTCTTSC
T ss_pred             hHHHhhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcC--CCCCEEEEEECcccCccc
Confidence            3456778899999999998432212 1234444444321  237999999999997653

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=99.75  E-value=4.8e-18  Score=116.47  Aligned_cols=124  Identities=15%  Similarity=0.124  Sum_probs=77.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      .+...+|+++|.+|+|||||+|+|++...........+.+.......... ....+.+|||||....           ..
T Consensus        12 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~l~Dt~G~~~~-----------~~   79 (179)
T 1z0f_A           12 YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSG-QKIKLQIWDTAGQERF-----------RA   79 (179)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETT-EEEEEEEEECTTGGGT-----------CH
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECC-eEEEEEEEECCCChHh-----------hh
Confidence            45578999999999999999999998664222212222222222222211 2247899999995532           11


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ....+++.+|++++|+|+++..+.. ...+++.+......  ..|+++|+||+|+....
T Consensus        80 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~piilv~nK~Dl~~~~  136 (179)
T 1z0f_A           80 VTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNP--NTVIILIGNKADLEAQR  136 (179)
T ss_dssp             HHHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCT--TCEEEEEEECTTCGGGC
T ss_pred             hHHHHhccCCEEEEEEeCcCHHHHHHHHHHHHHHHHhcCC--CCcEEEEEECccccccc
Confidence            2234456789999999998442222 13444555554322  37899999999997543

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.75  E-value=4.1e-17  Score=111.99  Aligned_cols=121  Identities=19%  Similarity=0.176  Sum_probs=78.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      .....+|+++|.+|+|||||+|+|++......  .....+.......... .+  ..+.+|||||......         
T Consensus         6 ~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~--~~~~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~---------   73 (181)
T 3tw8_B            6 YDHLFKLLIIGDSGVGKSSLLLRFADNTFSGS--YITTIGVDFKIRTVEI-NGEKVKLQIWDTAGQERFRT---------   73 (181)
T ss_dssp             CCEEEEEEEECCTTSCHHHHHHHHCSCC---C--CTTTBSEEEEEEEEEE-TTEEEEEEEEEETTGGGCSS---------
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhcCCCCCc--cCCCceeEEEEEEEEE-CCEEEEEEEEcCCCchhhhh---------
Confidence            34568999999999999999999998764322  1222333333344444 44  5789999999654322         


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                        ....++..+|++++|+|+++..+... ..++..+....   ...|+++|+||+|+....
T Consensus        74 --~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~---~~~p~ilv~nK~Dl~~~~  129 (181)
T 3tw8_B           74 --ITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNC---DDVCRILVGNKNDDPERK  129 (181)
T ss_dssp             --CCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHC---TTSEEEEEEECTTCGGGC
T ss_pred             --hHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhC---CCCCEEEEEECCCCchhc
Confidence              22356788999999999984322221 23444444432   237999999999987643

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.75  E-value=1.3e-17  Score=116.82  Aligned_cols=134  Identities=19%  Similarity=0.112  Sum_probs=74.0

Q ss_pred             CCCcccCCCcccCCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCc--eEEEEeCCC
Q 043441            1 MGGSAIDDDWELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ--VVNVIDTPG   78 (173)
Q Consensus         1 ~~~~~~~~~~~~~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~v~DtpG   78 (173)
                      ||..........+....+..+|+++|.+|+|||||++.+++.. +.....+.  +.......... .+.  .+.+|||||
T Consensus         2 ~~~~~~~~~~~~~~~~~~~~ki~~~G~~~~GKssl~~~l~~~~-~~~~~~~t--~~~~~~~~~~~-~~~~~~~~i~Dt~G   77 (201)
T 2q3h_A            2 MGPGEPGGRGRAGGAEGRGVKCVLVGDGAVGKTSLVVSYTTNG-YPTEYIPT--AFDNFSAVVSV-DGRPVRLQLCDTAG   77 (201)
T ss_dssp             ------------------CEEEEEECSTTSSHHHHHHHHHC---------CC--SSEEEEEEEEE-TTEEEEEEEEECCC
T ss_pred             CCCCCCCcccccCCCCCcceEEEEECCCCCCHHHHHHHHHhCC-CCCCCCCc--ccceeEEEEEE-CCEEEEEEEEECCC
Confidence            4444433334445556778999999999999999999999876 32222221  11111122333 443  677999999


Q ss_pred             CCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHH--HHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           79 LFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEE--AALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .......           ...++..+|++++|+|+++..+....  .+++.+....+   ..|+++|+||+|+...
T Consensus        78 ~~~~~~~-----------~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~p~ilv~nK~Dl~~~  139 (201)
T 2q3h_A           78 QDEFDKL-----------RPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCP---KAPIILVGTQSDLRED  139 (201)
T ss_dssp             STTCSSS-----------GGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCS---SSCEEEEEECGGGGGC
T ss_pred             CHHHHHH-----------hHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCC---CCCEEEEEECHhhhhc
Confidence            8764322           22467789999999999844332221  35555555432   3799999999998753

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.75  E-value=1.8e-17  Score=129.22  Aligned_cols=123  Identities=20%  Similarity=0.233  Sum_probs=85.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      ++|+++|.+|+|||||+|.|++....... ..++.|.........+ .+..+.+|||||+....  .+.....+...+..
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~~~v~-~~~g~T~d~~~~~~~~-~~~~~~l~DT~G~~~~~--~~~~~~~~~~~~~~   77 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKKAIVE-DEEGVTRDPVQDTVEW-YGKTFKLVDTCGVFDNP--QDIISQKMKEVTLN   77 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC---------------CCSEEEEEE-TTEEEEEEECTTTTSSG--GGCCCHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCceec-CCCCCccceeeEEEEE-CCeEEEEEECCCccccc--cchHHHHHHHHHHH
Confidence            57999999999999999999987642222 2345565555666666 78899999999987531  11123345555666


Q ss_pred             ccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      +++++|++++|+|+++.++..+....+++++.     ..|+++|+||+|...
T Consensus        78 ~~~~ad~il~V~D~~~~~~~~d~~i~~~l~~~-----~~p~ilv~NK~D~~~  124 (439)
T 1mky_A           78 MIREADLVLFVVDGKRGITKEDESLADFLRKS-----TVDTILVANKAENLR  124 (439)
T ss_dssp             HHTTCSEEEEEEETTTCCCHHHHHHHHHHHHH-----TCCEEEEEESCCSHH
T ss_pred             HHHhCCEEEEEEECCCCCCHHHHHHHHHHHHc-----CCCEEEEEeCCCCcc
Confidence            78899999999999878888776666666542     278999999999753

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=99.75  E-value=6.1e-18  Score=115.04  Aligned_cols=123  Identities=13%  Similarity=0.026  Sum_probs=77.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      .+..+|+++|.+|+|||||+|++++...........+.+.......... ....+.+|||||+...           ...
T Consensus         4 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~Dt~G~~~~-----------~~~   71 (170)
T 1z0j_A            4 LRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQN-ELHKFLIWDTAGLERF-----------RAL   71 (170)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETT-EEEEEEEEEECCSGGG-----------GGG
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECC-eEEEEEEEcCCCchhh-----------hcc
Confidence            3458999999999999999999998764222222222222222222211 2357899999997532           122


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ...++..+|++++|+|+++..+... ..+++.+.....  ...|+++|+||+|+....
T Consensus        72 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~--~~~~iilv~nK~Dl~~~~  127 (170)
T 1z0j_A           72 APMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGP--PSIVVAIAGNKCDLTDVR  127 (170)
T ss_dssp             THHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--TTSEEEEEEECTTCGGGC
T ss_pred             cHhhCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCC--CCCcEEEEEECCcccccc
Confidence            2345678899999999984433222 345555555322  236899999999997643

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.74  E-value=3.8e-17  Score=112.23  Aligned_cols=122  Identities=16%  Similarity=0.107  Sum_probs=76.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      +...+|+++|.+|+|||||+|++++......... ...+.......... .+  ..+.+|||||...           +.
T Consensus         8 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~-~t~~~~~~~~~~~~-~~~~~~~~~~Dt~G~~~-----------~~   74 (180)
T 2g6b_A            8 DVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFI-STVGIDFRNKVLDV-DGVKVKLQMWDTAGQER-----------FR   74 (180)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCC-CCCSCEEEEEEEEE-TTEEEEEEEEECCCC---------------
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcC-CceeeEEEEEEEEE-CCEEEEEEEEeCCCcHH-----------HH
Confidence            4568999999999999999999998664222211 11222222222233 44  3789999999653           22


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .....++..+|++++|+|+++..+.. ...+++.+......  ..|+++|+||+|+....
T Consensus        75 ~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~piilv~nK~Dl~~~~  132 (180)
T 2g6b_A           75 SVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQH--DVALMLLGNKVDSAHER  132 (180)
T ss_dssp             ----CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCT--TCEEEEEEECCSTTSCC
T ss_pred             HHHHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCC--CCcEEEEEECcccCccc
Confidence            33445778899999999998433222 13455555554332  37999999999998653

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=99.74  E-value=7.8e-18  Score=117.29  Aligned_cols=122  Identities=13%  Similarity=0.020  Sum_probs=77.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      .+..+|+++|.+|+|||||+|+|++...........+.+.......... ....+.+|||||....           ...
T Consensus        21 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~Dt~G~~~~-----------~~~   88 (192)
T 2fg5_A           21 IRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGN-ELHKFLIWDTAGQERF-----------HSL   88 (192)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSS-SEEEEEEEEECCSGGG-----------GGG
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCC-EEEEEEEEcCCCchhh-----------Hhh
Confidence            4568999999999999999999998763222222222222222222221 3457999999996532           112


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...++..++++++|+|+++..+... ..+++.+.+....  ..|+++|+||+|+...
T Consensus        89 ~~~~~~~~d~iilV~d~~~~~s~~~~~~~~~~i~~~~~~--~~piiiv~NK~Dl~~~  143 (192)
T 2fg5_A           89 APMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPE--NIVMAIAGNKCDLSDI  143 (192)
T ss_dssp             THHHHTTCSEEEEEEETTCTHHHHHHHHHHHHHHHHSCT--TCEEEEEEECGGGGGG
T ss_pred             hHHhhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCC--CCcEEEEEECcccccc
Confidence            2345678899999999984432222 3445555443222  3799999999999753

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.74  E-value=5.2e-18  Score=118.26  Aligned_cols=125  Identities=13%  Similarity=0.136  Sum_probs=76.0

Q ss_pred             CCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHH
Q 043441           13 TSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVG   90 (173)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~   90 (173)
                      +.......+|+++|.+|+|||||+|+|++........  ...+.......... .+  ..+.+|||||...         
T Consensus        20 p~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~--~t~~~~~~~~~~~~-~~~~~~l~l~Dt~G~~~---------   87 (192)
T 2il1_A           20 PRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACK--STVGVDFKIKTVEL-RGKKIRLQIWDTAGQER---------   87 (192)
T ss_dssp             --CCSEEEEEEEECSTTSSHHHHHHHHCC----------CCTTEEEEEEEEEE-TTEEEEEEEEEECCSGG---------
T ss_pred             CcccCCceEEEEECCCCCCHHHHHHHHhcCCCCcCCC--CccceeEEEEEEEE-CCeEEEEEEEeCCCcHH---------
Confidence            4445567889999999999999999999876422221  12222233333333 33  4789999999543         


Q ss_pred             HHHHHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           91 MEIVKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        91 ~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                        +......++..+|++++|+|+++..+... ..+++.+......  ..|+++|+||+|+....
T Consensus        88 --~~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~~~~i~~~~~~--~~piilV~NK~Dl~~~~  147 (192)
T 2il1_A           88 --FNSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASE--DAELLLVGNKLDCETDR  147 (192)
T ss_dssp             --GHHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCT--TCEEEEEEECGGGGGGC
T ss_pred             --HHHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCC--CCcEEEEEECccccccc
Confidence              11222344556799999999984433222 3444555544322  37899999999987643

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=99.74  E-value=3.4e-17  Score=111.50  Aligned_cols=117  Identities=12%  Similarity=0.052  Sum_probs=80.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+|+++|.+|+|||||+|++++.... .    ...|.........+ .+..+.+|||||....           ...
T Consensus         5 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~----~~~t~~~~~~~~~~-~~~~~~~~Dt~G~~~~-----------~~~   67 (171)
T 1upt_A            5 TREMRILILGLDGAGKTTILYRLQVGEVV-T----TIPTIGFNVETVTY-KNLKFQVWDLGGLTSI-----------RPY   67 (171)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHSSCC-C----CCCCSSEEEEEEEE-TTEEEEEEEECCCGGG-----------GGG
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-C----cCCcCccceEEEEE-CCEEEEEEECCCChhh-----------hHH
Confidence            45689999999999999999999876532 1    12233334444555 6789999999997532           223


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc--ccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK--VFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~  152 (173)
                      ...+++.+|++++|+|+++..+...  ..+++.......  ...|+++|+||+|+...
T Consensus        68 ~~~~~~~~d~ii~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  123 (171)
T 1upt_A           68 WRCYYSNTDAVIYVVDSCDRDRIGI--SKSELVAMLEEEELRKAILVVFANKQDMEQA  123 (171)
T ss_dssp             GGGGCTTCSEEEEEEETTCCTTHHH--HHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             HHHHhccCCEEEEEEECCCHHHHHH--HHHHHHHHHhchhhCCCEEEEEEECCCCcCC
Confidence            3467789999999999985543322  223333333221  23799999999999865

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=99.74  E-value=5.2e-17  Score=114.18  Aligned_cols=121  Identities=16%  Similarity=0.157  Sum_probs=78.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      +...+|+++|.+|+|||||+++|++.........  ..+.......... .+  ..+.+|||||.......         
T Consensus         6 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~--t~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~---------   73 (206)
T 2bcg_Y            6 DYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYIS--TIGVDFKIKTVEL-DGKTVKLQIWDTAGQERFRTI---------   73 (206)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCC--SSCCCEEEEEEEE-TTEEEEEEEECCTTTTTTTCC---------
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCCCCCCCCC--cccceeEEEEEEE-CCEEEEEEEEeCCChHHHHHH---------
Confidence            4468999999999999999999998664222211  1222222223333 33  37899999997654322         


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                        ...+++.+|++++|+|+++..+... ..+++.+......  ..|+++|+||+|+....
T Consensus        74 --~~~~~~~~d~vilv~d~~~~~s~~~~~~~~~~i~~~~~~--~~piilv~nK~Dl~~~~  129 (206)
T 2bcg_Y           74 --TSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATS--TVLKLLVGNKCDLKDKR  129 (206)
T ss_dssp             --CGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCT--TCEEEEEEECTTCTTTC
T ss_pred             --HHHhccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCC--CCCEEEEEECCCCcccc
Confidence              2356788999999999984322221 3344445444322  37899999999998653

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.74  E-value=4.3e-17  Score=114.32  Aligned_cols=129  Identities=17%  Similarity=0.110  Sum_probs=74.7

Q ss_pred             ccCCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHH
Q 043441           11 ELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVG   90 (173)
Q Consensus        11 ~~~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~   90 (173)
                      .+.....+..+|+++|.+|+|||||+|+|++.... ....+.............. ....+.+|||||.......     
T Consensus        16 ~q~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~-~~~~~t~~~~~~~~~~~~~-~~~~~~l~Dt~G~~~~~~~-----   88 (201)
T 3oes_A           16 FQGMPLVRYRKVVILGYRCVGKTSLAHQFVEGEFS-EGYDPTVENTYSKIVTLGK-DEFHLHLVDTAGQDEYSIL-----   88 (201)
T ss_dssp             -------CEEEEEEEESTTSSHHHHHHHHHHSCCC-SCCCCCSEEEEEEEEC-----CEEEEEEEECCCCTTCCC-----
T ss_pred             CCCCCCCCcEEEEEECCCCcCHHHHHHHHHhCCCC-CCCCCccceEEEEEEEECC-EEEEEEEEECCCccchHHH-----
Confidence            33334467889999999999999999999987642 2222211111122222222 4457899999997754322     


Q ss_pred             HHHHHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           91 MEIVKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        91 ~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                            ...++..+|++++|+++++..+... ..+++.+..... ....|+++|+||+|+....
T Consensus        89 ------~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~~piilv~nK~Dl~~~~  145 (201)
T 3oes_A           89 ------PYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHG-KTRVPVVLVGNKADLSPER  145 (201)
T ss_dssp             ------CGGGTTTCCEEEEEEETTCHHHHHHHHHHHHHHHC------CCCEEEEEECTTCGGGC
T ss_pred             ------HHHHHhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEECccCcccc
Confidence                  2256778999999999984322111 233333332211 1236899999999987554

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=99.74  E-value=1.8e-17  Score=114.47  Aligned_cols=120  Identities=15%  Similarity=0.117  Sum_probs=78.8

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      +...+|+++|.+|+|||||+|.+++........  ...+.......... .+  ..+.+|||||...           +.
T Consensus         8 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--~~~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~-----------~~   73 (186)
T 2bme_A            8 DFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSN--HTIGVEFGSKIINV-GGKYVKLQIWDTAGQER-----------FR   73 (186)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCC--CCSEEEEEEEEEEE-TTEEEEEEEEEECCSGG-----------GH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHcCCCCCCCC--CccceEEEEEEEEE-CCEEEEEEEEeCCCcHH-----------HH
Confidence            456899999999999999999999766422211  11222222233333 34  4789999999553           23


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .....++..+|++++|+|+++..+.. ...+++.+......  ..|+++|+||+|+...
T Consensus        74 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~piilv~nK~Dl~~~  130 (186)
T 2bme_A           74 SVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQ--NIVIILCGNKKDLDAD  130 (186)
T ss_dssp             HHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCT--TCEEEEEEECGGGGGG
T ss_pred             HHHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCC--CCcEEEEEECcccccc
Confidence            34456788999999999998432222 13444444544322  3799999999998754

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=99.74  E-value=1.6e-17  Score=115.65  Aligned_cols=123  Identities=18%  Similarity=0.114  Sum_probs=76.2

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      .....+|+++|.+|+|||||+|+|++...........+.+.......... ....+.+|||||......           
T Consensus        22 ~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~i~Dt~G~~~~~~-----------   89 (193)
T 2oil_A           22 YNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGT-AAVKAQIWDTAGLERYRA-----------   89 (193)
T ss_dssp             CSEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETT-EEEEEEEEEESCCCTTCT-----------
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECC-EEEEEEEEeCCCchhhhh-----------
Confidence            34568999999999999999999998664322222222222222222211 235789999999875421           


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ....++..+|++++|+|+++..+.. ...+++.+.....  ...|+++|+||+|+...
T Consensus        90 ~~~~~~~~~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~~--~~~piilv~nK~Dl~~~  145 (193)
T 2oil_A           90 ITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAE--ATIVVMLVGNKSDLSQA  145 (193)
T ss_dssp             THHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHTTSC--TTCEEEEEEECGGGGGG
T ss_pred             hhHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC--CCCeEEEEEECCCcccc
Confidence            1124566889999999998432211 1233333433221  23789999999999764

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.74  E-value=7.3e-18  Score=114.54  Aligned_cols=118  Identities=17%  Similarity=0.144  Sum_probs=75.0

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ..+|+++|.+|+|||||++++++...........+.+...  ..... .+  ..+.+|||||....           ...
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~--~~~~~-~~~~~~~~~~D~~G~~~~-----------~~~   68 (170)
T 1ek0_A            3 SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLT--QRVTI-NEHTVKFEIWDTAGQERF-----------ASL   68 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEE--EEEEE-TTEEEEEEEEEECCSGGG-----------GGG
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEE--EEEEE-CCEEEEEEEEECCCChhh-----------hhh
Confidence            4689999999999999999999766422222222222222  22223 33  37899999996532           112


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...+++.+|++++|+|+++..+... ..+++.+......  ..|+++|+||+|+...
T Consensus        69 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~piilv~nK~Dl~~~  123 (170)
T 1ek0_A           69 APXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASK--DIIIALVGNKIDXLQE  123 (170)
T ss_dssp             HHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCT--TCEEEEEEECGGGGGS
T ss_pred             hhhhhccCcEEEEEEecCChHHHHHHHHHHHHHHHhcCC--CCcEEEEEECCCcccc
Confidence            2345678899999999984322221 3444444444322  3789999999999764

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.74  E-value=2.3e-17  Score=114.85  Aligned_cols=122  Identities=17%  Similarity=0.158  Sum_probs=80.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      .....+|+++|.+|+|||||+|+|++.......  ....+.......... .+  ..+.+|||||.....          
T Consensus        13 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~--~~~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~----------   79 (196)
T 3tkl_A           13 YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESY--ISTIGVDFKIRTIEL-DGKTIKLQIWDTAGQERFR----------   79 (196)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSCC--CCCSSEEEEEEEEEE-TTEEEEEEEEEECCSGGGC----------
T ss_pred             cccceEEEEECcCCCCHHHHHHHHHcCCCCCCC--CCcccceEEEEEEEE-CCEEEEEEEEECCCcHhhh----------
Confidence            345689999999999999999999986642222  222333333344444 44  478999999965422          


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                       .....+++.+|++++|+|+++..+.. ...+++.+......  ..|+++|+||+|+....
T Consensus        80 -~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~p~ilv~nK~Dl~~~~  137 (196)
T 3tkl_A           80 -TITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASE--NVNKLLVGNKCDLTTKK  137 (196)
T ss_dssp             -TTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCT--TCEEEEEEECTTCTTTC
T ss_pred             -hhHHHHHhhCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCC--CCCEEEEEECccccccc
Confidence             12224567889999999998432211 23455555554332  37999999999998654

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=99.74  E-value=8.2e-18  Score=114.29  Aligned_cols=121  Identities=12%  Similarity=0.050  Sum_probs=75.1

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      +..+|+++|.+|+|||||+++|++...........+.+.......... ....+.+|||||....           ....
T Consensus         5 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~D~~G~~~~-----------~~~~   72 (170)
T 1r2q_A            5 CQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDD-TTVKFEIWDTAGQERY-----------HSLA   72 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETT-EEEEEEEEEECCSGGG-----------GGGH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECC-EEEEEEEEeCCCcHHh-----------hhhh
Confidence            457999999999999999999997653222212222222222222211 2357899999996532           1222


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..++..+|++++|+++++..+... ..++..+......  ..|+++|.||+|+...
T Consensus        73 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~~iilv~nK~Dl~~~  126 (170)
T 1r2q_A           73 PMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASP--NIVIALSGNKADLANK  126 (170)
T ss_dssp             HHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCT--TCEEEEEEECGGGGGG
T ss_pred             HHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC--CCcEEEEEECccCccc
Confidence            345678899999999984422221 3344444443222  3789999999998754

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.74  E-value=3.7e-17  Score=120.17  Aligned_cols=129  Identities=19%  Similarity=0.219  Sum_probs=77.5

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCC----CccceeeEEEEEEee-CC--ceEEEEeCCCCCCCCCCc---H
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASS----SGVTSTCEMQRTVLK-DG--QVVNVIDTPGLFDFSAGS---E   87 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~----~~~t~~~~~~~~~~~-~~--~~~~v~DtpG~~~~~~~~---~   87 (173)
                      ...+|+++|.+|+|||||+|+|++...+......    ...|........... .+  ..+.+|||||+.+...+.   .
T Consensus         7 ~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d~~~~~~~~~   86 (274)
T 3t5d_A            7 FEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQ   86 (274)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCCSCCSCCTTTTH
T ss_pred             cEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCccccccchhhHH
Confidence            3578999999999999999999988766544210    022222222222221 23  389999999997654332   2


Q ss_pred             HHH----HHHHHHHHh---------ccCCceEEEEEeecCC-CCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           88 FVG----MEIVKCIGL---------AKDGIHAVLVGFSVRS-RFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        88 ~~~----~~~~~~~~~---------~~~~~~~ii~v~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .+.    .++..++..         ...++|+++++++.+. .+...+..+++.+.+      ..|+++|+||+|++..
T Consensus        87 ~i~~~i~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l~~------~~pvi~V~nK~D~~~~  159 (274)
T 3t5d_A           87 PVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE------KVNIIPLIAKADTLTP  159 (274)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSSCCHHHHHHHHHHTT------TSCEEEEESSGGGSCH
T ss_pred             HHHHHHHHHHHHHHHhhcccccccccCCceeEEEEEecCCCCCCCHHHHHHHHHHhc------cCCEEEEEeccCCCCH
Confidence            222    111222221         1234788888886653 577777776666554      2899999999999864

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=99.73  E-value=2.1e-17  Score=114.77  Aligned_cols=122  Identities=13%  Similarity=0.091  Sum_probs=77.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      ..+..+|+++|.+|+|||||+|+|++..........  ............ .+  ..+.+|||||...           +
T Consensus        17 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t--~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~-----------~   82 (189)
T 1z06_A           17 RSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEAT--IGVDFRERAVDI-DGERIKIQLWDTAGQER-----------F   82 (189)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCC--CSCCEEEEEEEE-TTEEEEEEEEECCCSHH-----------H
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCC--cceEEEEEEEEE-CCEEEEEEEEECCCchh-----------h
Confidence            345689999999999999999999976542222111  122222223333 33  4789999999432           2


Q ss_pred             H-HHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           94 V-KCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        94 ~-~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      . .....+++.+|++++|+|+++..+.. ...+++.+.+.... ...|+++|+||+|+...
T Consensus        83 ~~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~-~~~piilv~nK~Dl~~~  142 (189)
T 1z06_A           83 RKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLA-NDIPRILVGNKCDLRSA  142 (189)
T ss_dssp             HTTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCC-SCCCEEEEEECTTCGGG
T ss_pred             hhhhhHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCC-CCCCEEEEEECcccccc
Confidence            2 23345677889999999998432222 23455555554321 23789999999999754

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=99.73  E-value=2.3e-16  Score=109.03  Aligned_cols=117  Identities=11%  Similarity=0.068  Sum_probs=80.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      .+..+|+++|.+|+|||||+|++++.. . ...   ..|.......... ++..+.+|||||..           ++...
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~-~-~~~---~~t~~~~~~~~~~-~~~~~~~~Dt~G~~-----------~~~~~   78 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED-V-DTI---SPTLGFNIKTLEH-RGFKLNIWDVGGQK-----------SLRSY   78 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC-C-SSC---CCCSSEEEEEEEE-TTEEEEEEEECCSH-----------HHHTT
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC-C-Ccc---cccCccceEEEEE-CCEEEEEEECCCCH-----------hHHHH
Confidence            567999999999999999999999866 2 221   1233333444555 67899999999964           23444


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~  152 (173)
                      ...+++.+|++++|+|+++..+..  ...+++.+....  ....|+++|+||+|+...
T Consensus        79 ~~~~~~~~d~ii~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  134 (186)
T 1ksh_A           79 WRNYFESTDGLIWVVDSADRQRMQ--DCQRELQSLLVEERLAGATLLIFANKQDLPGA  134 (186)
T ss_dssp             GGGGCTTCSEEEEEEETTCGGGHH--HHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             HHHHhcCCCEEEEEEECcCHHHHH--HHHHHHHHHHhChhcCCCcEEEEEeCccCCCC
Confidence            456788999999999998543322  222333333322  123799999999999865

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=99.73  E-value=7.7e-17  Score=111.17  Aligned_cols=118  Identities=12%  Similarity=0.072  Sum_probs=77.9

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      .....+|+++|.+|+|||||+|+|++... .......+    ........ ++..+.+|||||....           ..
T Consensus        18 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~-~~~~~t~~----~~~~~~~~-~~~~~~i~Dt~G~~~~-----------~~   80 (181)
T 2h17_A           18 GSQEHKVIIVGLDNAGKTTILYQFSMNEV-VHTSPTIG----SNVEEIVI-NNTRFLMWDIGGQESL-----------RS   80 (181)
T ss_dssp             ---CEEEEEEEETTSSHHHHHHHHHTTSC-EEEECCSS----SSCEEEEE-TTEEEEEEEESSSGGG-----------TC
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHhcCCC-CccCCcCc----eeeEEEEE-CCEEEEEEECCCCHhH-----------HH
Confidence            35678999999999999999999998764 11111112    12233444 6789999999997542           22


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~  152 (173)
                      ....++..+|++++|+|+++..+...  ..+++.+....  ....|+++|+||+|+...
T Consensus        81 ~~~~~~~~~d~ii~v~D~~~~~s~~~--~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  137 (181)
T 2h17_A           81 SWNTYYTNTEFVIVVVDSTDRERISV--TREELYKMLAHEDLRKAGLLIFANKQDVKEC  137 (181)
T ss_dssp             GGGGGGTTCCEEEEEEETTCTTTHHH--HHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             HHHHHhccCCEEEEEEECCCHHHHHH--HHHHHHHHHhChhhCCCeEEEEEECCCcccC
Confidence            23457788999999999985533332  22333333322  133799999999999764

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.72  E-value=1.4e-16  Score=111.15  Aligned_cols=124  Identities=14%  Similarity=0.050  Sum_probs=79.4

Q ss_pred             cCCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHH
Q 043441           12 LTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGM   91 (173)
Q Consensus        12 ~~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~   91 (173)
                      .+.......+|+++|.+|+|||||++.|++.........   .|.......+.. .+..+.+|||||...          
T Consensus        10 ~~~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~---~t~~~~~~~~~~-~~~~~~i~Dt~G~~~----------   75 (199)
T 4bas_A           10 HMGQSKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHIT---ATVGYNVETFEK-GRVAFTVFDMGGAKK----------   75 (199)
T ss_dssp             ------CEEEEEEECCTTSCHHHHHHHHSCCC----CCC---CCSSEEEEEEEE-TTEEEEEEEECCSGG----------
T ss_pred             cccCCCCCcEEEEECCCCCCHHHHHHHHhcCCCcccccc---cccceeEEEEEe-CCEEEEEEECCCCHh----------
Confidence            344567788999999999999999999998774321212   222233334444 778999999999753          


Q ss_pred             HHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc---------ccceEEEEEeCCCCCCC
Q 043441           92 EIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK---------VFDYMIVVFTGGDELED  152 (173)
Q Consensus        92 ~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~~iv~tk~D~~~~  152 (173)
                       +......+++.+|++++|+|+++..+...  ..+++.+.....         ...|+++|+||+|+...
T Consensus        76 -~~~~~~~~~~~~d~ii~v~D~~~~~s~~~--~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  142 (199)
T 4bas_A           76 -FRGLWETYYDNIDAVIFVVDSSDHLRLCV--VKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGA  142 (199)
T ss_dssp             -GGGGGGGGCTTCSEEEEEEETTCGGGHHH--HHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTC
T ss_pred             -HHHHHHHHHhcCCEEEEEEECCcHHHHHH--HHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCC
Confidence             22333467889999999999985433222  222333332221         14799999999999876

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=99.72  E-value=3.5e-17  Score=111.03  Aligned_cols=119  Identities=19%  Similarity=0.059  Sum_probs=75.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      +...+|+++|.+|+|||||+|+|++...........+  .......... .+  ..+.+|||||.......         
T Consensus         3 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~--~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~---------   70 (168)
T 1z2a_A            3 EVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIG--VDFLERQIQV-NDEDVRLMLWDTAGQEEFDAI---------   70 (168)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCS--SSEEEEEEEE-TTEEEEEEEECCTTGGGTTCC---------
T ss_pred             ceeEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceE--EEEEEEEEEE-CCEEEEEEEEcCCCcHhHHHH---------
Confidence            3468999999999999999999998653221111111  1222222333 33  47899999996543221         


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                        ...++..+|++++|+++++..+.. ...+++.+....   ...|+++|+||+|+...
T Consensus        71 --~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~---~~~piilv~nK~Dl~~~  124 (168)
T 1z2a_A           71 --TKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEV---GDIPTALVQNKIDLLDD  124 (168)
T ss_dssp             --CHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHH---CSCCEEEEEECGGGGGG
T ss_pred             --HHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC---CCCCEEEEEECcccCcc
Confidence              224566889999999998432221 134444454443   23799999999998764

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=99.72  E-value=4.3e-17  Score=113.09  Aligned_cols=123  Identities=11%  Similarity=0.020  Sum_probs=78.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeC-----------CceEEEEeCCCCCCCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD-----------GQVVNVIDTPGLFDFSA   84 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~-----------~~~~~v~DtpG~~~~~~   84 (173)
                      .....+|+++|.+|+|||||+|+|++...........+.+.. ....... .           ...+.+|||||...   
T Consensus         8 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~-~~~~~~~~~~~~~~~~~l~Dt~G~~~---   82 (195)
T 3bc1_A            8 YDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFR-EKRVVYR-ANGPDGAVGRGQRIHLQLWDTAGLER---   82 (195)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEE-EEEEEEC-TTSCCCSSCCCEEEEEEEEEECCSGG---
T ss_pred             cceeEEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeee-eEEEEEe-cCCcccccccCcEEEEEEEeCCCcHH---
Confidence            345689999999999999999999976532221111111111 0122222 3           24799999999742   


Q ss_pred             CcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           85 GSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                              +......+++.+|++++|+|+++..+... ..+++.+...... ...|+++|+||+|+...
T Consensus        83 --------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~~~piilv~nK~Dl~~~  142 (195)
T 3bc1_A           83 --------FRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYS-ENPDIVLCGNKSDLEDQ  142 (195)
T ss_dssp             --------GHHHHHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSSS-SSCCEEEEEECTTCGGG
T ss_pred             --------HHHHHHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCCEEEEEECcccccc
Confidence                    23344567889999999999984322222 3444444443221 23799999999998764

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=99.72  E-value=4.3e-17  Score=115.60  Aligned_cols=125  Identities=14%  Similarity=0.034  Sum_probs=76.9

Q ss_pred             ccCCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHH
Q 043441           11 ELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVG   90 (173)
Q Consensus        11 ~~~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~   90 (173)
                      +.+.......+|+++|.+|+|||||++.+++.... ....+.............. ....+.+|||||....        
T Consensus        19 ~~~~~~~~~~ki~vvG~~~vGKSsL~~~l~~~~~~-~~~~~t~~~~~~~~~~~~~-~~~~l~i~Dt~G~~~~--------   88 (214)
T 3q3j_B           19 RAPQPVVARCKLVLVGDVQCGKTAMLQVLAKDCYP-ETYVPTVFENYTACLETEE-QRVELSLWDTSGSPYY--------   88 (214)
T ss_dssp             --------CEEEEEECSTTSSHHHHHHHHHHSCCC-SSCCCCSEEEEEEEEEC---CEEEEEEEEECCSGGG--------
T ss_pred             cCCCCccceEEEEEECcCCCCHHHHHHHHhcCCCC-CCcCCeeeeeEEEEEEECC-EEEEEEEEECCCCHhH--------
Confidence            33444556789999999999999999999886632 2212211111111112211 3347899999996532        


Q ss_pred             HHHHHHHHhccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           91 MEIVKCIGLAKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        91 ~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                         ......++..+|++++|+|+++.-+...  ..+++.+.....   ..|+++|.||+|+..
T Consensus        89 ---~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~---~~piilv~nK~Dl~~  145 (214)
T 3q3j_B           89 ---DNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCP---STRVLLIGCKTDLRT  145 (214)
T ss_dssp             ---TTTGGGGCTTCSEEEEEEETTCTHHHHHHHTHHHHHHHHHCT---TSEEEEEEECGGGGG
T ss_pred             ---HHHHHHHcCCCeEEEEEEECcCHHHHHHHHHHHHHHHHHhCC---CCCEEEEEEChhhcc
Confidence               2233457889999999999985433332  355555655432   379999999999875

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=99.72  E-value=1.2e-16  Score=112.98  Aligned_cols=120  Identities=18%  Similarity=0.199  Sum_probs=76.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeC--CceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      ....+|+++|.+|+|||||++++++... .....+  .+  ..........  +..+.+|||||...           +.
T Consensus         5 ~~~~ki~vvG~~~~GKTsli~~l~~~~~-~~~~~~--~~--~~~~~~~~~~~~~~~~~i~Dt~G~~~-----------~~   68 (214)
T 2fh5_B            5 SSQRAVLFVGLCDSGKTLLFVRLLTGQY-RDTQTS--IT--DSSAIYKVNNNRGNSLTLIDLPGHES-----------LR   68 (214)
T ss_dssp             ---CEEEEECSTTSSHHHHHHHHHHSCC-CCBCCC--CS--CEEEEEECSSTTCCEEEEEECCCCHH-----------HH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCc-ccccCC--cc--eeeEEEEecCCCccEEEEEECCCChh-----------HH
Confidence            4568999999999999999999997663 222211  11  2222344411  46899999999652           22


Q ss_pred             H-HHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc----cccceEEEEEeCCCCCCCC
Q 043441           95 K-CIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK----KVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        95 ~-~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~~iv~tk~D~~~~~  153 (173)
                      . ....+++.+|++++|+|++ .+........+++.+.+..    ....|+++|+||+|+....
T Consensus        69 ~~~~~~~~~~~~~~i~v~d~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~  131 (214)
T 2fh5_B           69 FQLLDRFKSSARAVVFVVDSA-AFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAK  131 (214)
T ss_dssp             HHHHHHHGGGEEEEEEEEETT-THHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCC
T ss_pred             HHHHHHHHhhCCEEEEEEECC-CcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCcc
Confidence            2 3334577899999999998 4333233444444443221    2237999999999998653

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=99.72  E-value=8.5e-17  Score=112.42  Aligned_cols=131  Identities=12%  Similarity=0.050  Sum_probs=77.9

Q ss_pred             CCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHH
Q 043441           13 TSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGME   92 (173)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~   92 (173)
                      +.......+|+++|.+|+|||||++.+.+....... .....+...............+.+|||||..........    
T Consensus        14 ~~~~~~~~ki~~vG~~~vGKTsLi~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~----   88 (196)
T 3llu_A           14 LYFQGSKPRILLMGLRRSGKSSIQKVVFHKMSPNET-LFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDPTFD----   88 (196)
T ss_dssp             ------CCEEEEEESTTSSHHHHHHHHHSCCCGGGG-GGCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCTTCC----
T ss_pred             CcccCcceEEEEECCCCCCHHHHHHHHHhcCCCcce-eeeccccceeeeeccCCCeeEEEEEECCCCHHHHhhhhh----
Confidence            344567789999999999999999999885432111 111111111111111114468999999997754222100    


Q ss_pred             HHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           93 IVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        93 ~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                          ...+++.+|++++|+|+++........+.+++.+........|+++|.||+|+...
T Consensus        89 ----~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~~~~~piilv~nK~Dl~~~  144 (196)
T 3llu_A           89 ----YEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDMNFEVFIHKVDGLSD  144 (196)
T ss_dssp             ----HHHHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCH
T ss_pred             ----cccccccCCEEEEEEECCCchHHHHHHHHHHHHHHHhcCCCCcEEEEEeccccCch
Confidence                01345578999999999866334445555666654322234799999999998753

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.72  E-value=2.5e-17  Score=112.07  Aligned_cols=123  Identities=19%  Similarity=0.098  Sum_probs=74.4

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      +..+|+++|.+|+|||||+|++++...........+.+. ........ ....+.+|||||....    .       ...
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~-~~~~~~~~Dt~G~~~~----~-------~~~   68 (172)
T 2erx_A            2 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDK-SICTLQITDTTGSHQF----P-------AMQ   68 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEETT-EEEEEEEEECCSCSSC----H-------HHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECC-EEEEEEEEECCCchhh----H-------HHH
Confidence            357899999999999999999998663222211111111 11111111 2236899999997653    1       111


Q ss_pred             HhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ..++..+|++++|+++++..+.. ...+++.+.+........|+++|+||+|+....
T Consensus        69 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~  125 (172)
T 2erx_A           69 RLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSR  125 (172)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGC
T ss_pred             HHhcccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEcccccccc
Confidence            23344579999999998432222 134555555543322237899999999987543

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=99.72  E-value=1.2e-17  Score=114.55  Aligned_cols=121  Identities=13%  Similarity=0.072  Sum_probs=76.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      .+..+|+++|.+|+|||||+|++++.......  ....+.......... .+  ..+.+|||||.....           
T Consensus        12 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~--~~~~~~~~~~~~~~~-~~~~~~~~~~Dt~G~~~~~-----------   77 (179)
T 2y8e_A           12 LRKFKLVFLGEQSVGKTSLITRFMYDSFDNTY--QATIGIDFLSKTMYL-EDRTVRLQLWDTAGQERFR-----------   77 (179)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSSC--CCCCSEEEEEEEEEE-TTEEEEEEEEEECCSGGGG-----------
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHcCCCCCCC--CCceeeEEEEEEEEE-CCeEEEEEEEECCCcHHHH-----------
Confidence            35589999999999999999999976532221  112222222333333 34  378999999965321           


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .....++..+|++++|+|+++..+.. ...++..+......  ..|+++|+||+|+....
T Consensus        78 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~piilv~nK~Dl~~~~  135 (179)
T 2y8e_A           78 SLIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGS--DVIIMLVGNKTDLSDKR  135 (179)
T ss_dssp             GGSHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTT--SSEEEEEEECGGGGGGC
T ss_pred             HHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC--CCcEEEEEECCcccccC
Confidence            11223455789999999998432211 23455555544332  37899999999987653

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=99.72  E-value=3.6e-17  Score=113.76  Aligned_cols=121  Identities=17%  Similarity=0.140  Sum_probs=75.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      ..+..+|+++|.+|+|||||++.|++...........+.+  ........ .+  ..+.+|||||.......        
T Consensus        18 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~--~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~--------   86 (191)
T 2a5j_A           18 GSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVE--FGARMVNI-DGKQIKLQIWDTAGQESFRSI--------   86 (191)
T ss_dssp             TCEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSS--EEEEEEEE-TTEEEEEEEECCTTGGGTSCC--------
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccce--eEEEEEEE-CCEEEEEEEEECCCchhhhhh--------
Confidence            3566799999999999999999999766422221111222  22223333 33  47899999996543221        


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                         ...++..+|++++|+|+++..+... ..+++.+......  ..|+++|+||+|+...
T Consensus        87 ---~~~~~~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~~--~~piilv~nK~Dl~~~  141 (191)
T 2a5j_A           87 ---TRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSS--NMVIMLIGNKSDLESR  141 (191)
T ss_dssp             ---CHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCT--TCEEEEEEECTTCGGG
T ss_pred             ---HHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC--CCCEEEEEECcccCCc
Confidence               2245667899999999984322221 3444444443222  3789999999998754

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=99.72  E-value=2.1e-16  Score=109.65  Aligned_cols=119  Identities=16%  Similarity=0.056  Sum_probs=79.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      ..+..+|+++|.+|+|||||+|.|++.... ...   ..|.......... .+..+.+|||||..           ++..
T Consensus        19 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~-~~~---~~t~~~~~~~~~~-~~~~~~l~Dt~G~~-----------~~~~   82 (188)
T 1zd9_A           19 SKEEMELTLVGLQYSGKTTFVNVIASGQFN-EDM---IPTVGFNMRKITK-GNVTIKLWDIGGQP-----------RFRS   82 (188)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHHSCCC-CSC---CCCCSEEEEEEEE-TTEEEEEEEECCSH-----------HHHT
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHHcCCCC-Ccc---CCCCceeEEEEEe-CCEEEEEEECCCCH-----------hHHH
Confidence            345689999999999999999999976532 111   1233333334444 67899999999954           2333


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~  152 (173)
                      ....++..+|++++|+|+++.-+..  ...+++.+....  ....|+++|+||+|+...
T Consensus        83 ~~~~~~~~~d~ii~v~D~~~~~s~~--~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  139 (188)
T 1zd9_A           83 MWERYCRGVSAIVYMVDAADQEKIE--ASKNELHNLLDKPQLQGIPVLVLGNKRDLPGA  139 (188)
T ss_dssp             THHHHHTTCSEEEEEEETTCGGGHH--HHHHHHHHHHTCGGGTTCCEEEEEECTTSTTC
T ss_pred             HHHHHHccCCEEEEEEECCCHHHHH--HHHHHHHHHHhCcccCCCCEEEEEECCCCccC
Confidence            3345667899999999998432222  233334444332  133799999999999865

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=99.72  E-value=7.1e-17  Score=110.56  Aligned_cols=121  Identities=16%  Similarity=0.076  Sum_probs=77.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      ....+|+++|.+|+|||||+|++++..........  ............ .+  ..+.+|||||...           +.
T Consensus         5 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~--~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~-----------~~   70 (177)
T 1wms_A            5 SSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHT--IGVEFLNKDLEV-DGHFVTMQIWDTAGQER-----------FR   70 (177)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCCC----C--CSEEEEEEEEEE-TTEEEEEEEEECCCCGG-----------GH
T ss_pred             cceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCc--eeeeEEEEEEEE-CCEEEEEEEEeCCCchh-----------hh
Confidence            34589999999999999999999976532111111  122222233333 44  3789999999543           23


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcc--cccceEEEEEeCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGK--KVFDYMIVVFTGGDELE  151 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~  151 (173)
                      .....++..+|++++|+++++..+.. ...+++.+......  ....|+++|+||+|+..
T Consensus        71 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~  130 (177)
T 1wms_A           71 SLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE  130 (177)
T ss_dssp             HHHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSS
T ss_pred             hhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCcccc
Confidence            34456788899999999998433222 13455555554331  12369999999999873

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=99.72  E-value=4.6e-17  Score=110.65  Aligned_cols=118  Identities=12%  Similarity=0.140  Sum_probs=73.8

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      ...+|+++|.+|+|||||+|++++........  ...+.......... .+  ..+.+|||||.......          
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~--~~~~~~~~~~~~~~-~~~~~~~~l~D~~G~~~~~~~----------   68 (170)
T 1g16_A            2 SIMKILLIGDSGVGKSCLLVRFVEDKFNPSFI--TTIGIDFKIKTVDI-NGKKVKLQIWDTAGQERFRTI----------   68 (170)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHCCCCC---------CCEEEEEEES-SSCEEEEEEECCTTGGGTSCC----------
T ss_pred             CceEEEEECcCCCCHHHHHHHHHhCCCCCCCC--CccceeEEEEEEEE-CCEEEEEEEEeCCCChhhhhh----------
Confidence            35789999999999999999999766322111  11222222233333 33  47899999996543222          


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                       ...++..+|++++|+|+++..+.. ...+++.+......  ..|+++|+||+|+..
T Consensus        69 -~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~piilv~nK~Dl~~  122 (170)
T 1g16_A           69 -TTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHAND--EAQLLLVGNKSDMET  122 (170)
T ss_dssp             -CHHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCT--TCEEEEEEECTTCTT
T ss_pred             -HHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC--CCcEEEEEECccCCc
Confidence             224566889999999998432222 13455555554322  379999999999843

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=99.72  E-value=4.2e-17  Score=110.47  Aligned_cols=120  Identities=18%  Similarity=0.151  Sum_probs=73.8

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      +..+|+++|.+|+|||||+|++++.... ....+......  ...... .+  ..+.+|||||....           ..
T Consensus         3 ~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~~t~~~~~--~~~~~~-~~~~~~~~l~D~~G~~~~-----------~~   67 (168)
T 1u8z_A            3 ALHKVIMVGSGGVGKSALTLQFMYDEFV-EDYEPTKADSY--RKKVVL-DGEEVQIDILDTAGQEDY-----------AA   67 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCC-SCCCTTCCEEE--EEEEEE-TTEEEEEEEEECCC---C-----------HH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCccC-CCCCCCcceEE--EEEEEE-CCEEEEEEEEECCCcchh-----------HH
Confidence            4589999999999999999999976632 22111111111  122233 33  37899999996542           12


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ....++..+|++++|+++++..+.. ...+++.+.+.... ...|+++|+||+|+....
T Consensus        68 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~~~piilv~nK~Dl~~~~  125 (168)
T 1u8z_A           68 IRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKED-ENVPFLLVGNKSDLEDKR  125 (168)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCC-TTSCEEEEEECGGGGGGC
T ss_pred             HHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCcEEEEEECccccccC
Confidence            2223455679999999998432222 23444555554331 237999999999987643

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=99.72  E-value=1.2e-16  Score=116.34  Aligned_cols=122  Identities=14%  Similarity=0.150  Sum_probs=79.8

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcH--HHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSE--FVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~--~~~~~~~~~~   97 (173)
                      ++|+++|.+|+|||||+|+|+|......  ..++.|.......... .+..+.+|||||+.+......  ...+.+.+..
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~~v~--~~pg~Tv~~~~~~~~~-~~~~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~   78 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQRVG--NWPGVTVEKKTGEFLL-GEHLIEITDLPGVYSLVANAEGISQDEQIAAQS   78 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSEEEE--ECTTSSSEEEEEEEEE-TTEEEEEEECCCCSSCC------CHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCcc--CCCCceEEEEEEEEEE-CCeEEEEEeCCCcccccccccCCCHHHHHHHHH
Confidence            5899999999999999999999874322  2345566666666666 778999999999987643110  1111222111


Q ss_pred             HhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      . ....+|++++|+|+++ . .....+..++.+     ...|+++|+||+|+...
T Consensus        79 ~-~~~~~d~vi~VvDas~-~-~~~~~l~~~l~~-----~~~pvilv~NK~Dl~~~  125 (256)
T 3iby_A           79 V-IDLEYDCIINVIDACH-L-ERHLYLTSQLFE-----LGKPVVVALNMMDIAEH  125 (256)
T ss_dssp             H-HHSCCSEEEEEEEGGG-H-HHHHHHHHHHTT-----SCSCEEEEEECHHHHHH
T ss_pred             H-hhCCCCEEEEEeeCCC-c-hhHHHHHHHHHH-----cCCCEEEEEEChhcCCc
Confidence            1 1268999999999983 2 112233333322     23799999999998754

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=99.72  E-value=1e-16  Score=109.53  Aligned_cols=123  Identities=17%  Similarity=0.121  Sum_probs=71.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      .+..+|+++|.+|+|||||+|+|++...... ....+.+....  .... .+  ..+.+|||||....         +..
T Consensus         2 ~~~~ki~i~G~~~vGKSsl~~~l~~~~~~~~-~~~~~~~~~~~--~~~~-~~~~~~~~~~D~~g~~~~---------~~~   68 (175)
T 2nzj_A            2 MALYRVVLLGDPGVGKTSLASLFAGKQERDL-HEQLGEDVYER--TLTV-DGEDTTLVVVDTWEAEKL---------DKS   68 (175)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHCC------CCCSSSSEEEE--EEEE-TTEEEEEEEECCC----------------C
T ss_pred             ceEEEEEEECCCCccHHHHHHHHhcCCCccc-cCccccceeEE--EEEE-CCEEEEEEEEecCCCCcc---------chh
Confidence            3468999999999999999999998764222 22223333222  2233 33  36889999997642         111


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .....+++.++++++|+++++..+... ..++..+.+... ....|+++|+||+|+....
T Consensus        69 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~-~~~~piilv~NK~Dl~~~~  127 (175)
T 2nzj_A           69 WSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQ-ADHVPIILVGNKADLARCR  127 (175)
T ss_dssp             HHHHHTTTSCSEEEEEEETTCHHHHHHHHHHHHHHHHCC-----CCEEEEEECTTCTTTC
T ss_pred             hhHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhc-cCCCCEEEEEEChhhcccc
Confidence            222346778899999999984322221 233333433211 1237899999999998654

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.72  E-value=4.9e-17  Score=114.29  Aligned_cols=120  Identities=12%  Similarity=0.082  Sum_probs=78.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      ....+|+++|.+|+|||||++++++.... .... ...+.......... ++  ..+.+|||||...           +.
T Consensus        24 ~~~~ki~lvG~~~vGKSsLi~~l~~~~~~-~~~~-~t~~~~~~~~~~~~-~~~~~~l~l~Dt~G~~~-----------~~   89 (201)
T 2ew1_A           24 DFLFKIVLIGNAGVGKTCLVRRFTQGLFP-PGQG-ATIGVDFMIKTVEI-NGEKVKLQIWDTAGQER-----------FR   89 (201)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHSSCC-TTCC-CCCSEEEEEEEEEE-TTEEEEEEEEEECCSGG-----------GH
T ss_pred             ccceEEEEECcCCCCHHHHHHHHHhCCCC-CCCC-CccceeEEEEEEEE-CCEEEEEEEEECCCcHH-----------HH
Confidence            44689999999999999999999876532 2211 11222222233333 44  3789999999542           33


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .....+++.+|++++|+|+++..+.. ...+++.+......  ..|+++|+||+|+...
T Consensus        90 ~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~--~~piilv~NK~Dl~~~  146 (201)
T 2ew1_A           90 SITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASN--KVITVLVGNKIDLAER  146 (201)
T ss_dssp             HHHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCT--TCEEEEEEECGGGGGG
T ss_pred             HHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC--CCCEEEEEECCCCccc
Confidence            34556788999999999998432222 13455555544322  3789999999998754

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.71  E-value=9.6e-18  Score=131.40  Aligned_cols=126  Identities=22%  Similarity=0.153  Sum_probs=82.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ...++|+|+|.+|+|||||+|+|++..... -...++.|.........+ .+..+.+|||||+....   +....++...
T Consensus        21 m~~~~V~lvG~~nvGKSTL~n~l~~~~~~~-v~~~~g~t~~~~~~~~~~-~~~~~~liDT~G~~~~~---~~~~~~~~~~   95 (456)
T 4dcu_A           21 MGKPVVAIVGRPNVGKSTIFNRIAGERISI-VEDTPGVTRDRIYSSAEW-LNYDFNLIDTGGIDIGD---EPFLAQIRQQ   95 (456)
T ss_dssp             --CCEEEEECSSSSSHHHHHHHHEEEEEC------------CEEEECTT-CSSCCEEECCCC---------CCHHHHHHH
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCCCcc-cCCCCCcceeEEEEEEEE-CCceEEEEECCCCCCcc---hHHHHHHHHH
Confidence            345799999999999999999999866421 123345566665666655 67799999999987422   2234566666


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +..+++.+|++|+|+|+.+.++..+..+.+.+++     ...|+++|+||+|+...
T Consensus        96 ~~~~~~~ad~il~VvD~~~~~~~~d~~l~~~l~~-----~~~pvilV~NK~D~~~~  146 (456)
T 4dcu_A           96 AEIAMDEADVIIFMVNGREGVTAADEEVAKILYR-----TKKPVVLAVNKLDNTEM  146 (456)
T ss_dssp             HHHHHHHCSEEEEEEESSSCSCHHHHHHHHHHTT-----CCSCEEEEEECC-----
T ss_pred             HHhhHhhCCEEEEEEeCCCCCChHHHHHHHHHHH-----cCCCEEEEEECccchhh
Confidence            6677788999999999987888888776666654     23789999999998754

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=99.71  E-value=1.4e-16  Score=109.63  Aligned_cols=120  Identities=17%  Similarity=0.133  Sum_probs=75.2

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      ...+|+++|.+|+|||||++++++... .....+......  ...... .+  ..+.+|||||........         
T Consensus         5 ~~~ki~~~G~~~~GKSsli~~l~~~~~-~~~~~~t~~~~~--~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~---------   71 (181)
T 3t5g_A            5 KSRKIAILGYRSVGKSSLTIQFVEGQF-VDSYDPTIENTF--TKLITV-NGQEYHLQLVDTAGQDEYSIFP---------   71 (181)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSSC-CSCCCTTCCEEE--EEEEEE-TTEEEEEEEEECCCCCTTCCCC---------
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHcCCC-CCCCCCCccccE--EEEEEE-CCEEEEEEEEeCCCchhhhHHH---------
Confidence            458999999999999999999996553 222222211121  222233 44  467899999987643222         


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                        ..+++.+|++++|+++++.-+... ..+++.+.+.... ...|+++|+||+|+....
T Consensus        72 --~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~  127 (181)
T 3t5g_A           72 --QTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGK-VQIPIMLVGNKKDLHMER  127 (181)
T ss_dssp             --GGGTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHC-----CCEEEEEECTTCTTTC
T ss_pred             --HHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCCEEEEEECccchhcc
Confidence              246778999999999984322221 2344444443222 237999999999987554

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=99.71  E-value=3.3e-17  Score=115.00  Aligned_cols=121  Identities=13%  Similarity=0.091  Sum_probs=76.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      .....+|+++|.+|+|||||++.+++.... ....+ ............. .+  ..+.+|||||...           +
T Consensus        26 ~~~~~ki~vvG~~~vGKSsli~~l~~~~~~-~~~~~-t~~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~-----------~   91 (201)
T 2hup_A           26 YDFLFKLVLVGDASVGKTCVVQRFKTGAFS-ERQGS-TIGVDFTMKTLEI-QGKRVKLQIWDTAGQER-----------F   91 (201)
T ss_dssp             CCEEEEEEEEECTTSSHHHHHHHHHHSCC------------CEEEEEEEE-TTEEEEEEEECCTTCGG-----------G
T ss_pred             cccceEEEEECcCCCCHHHHHHHHhhCCCC-CCCCC-CcceEEEEEEEEE-CCEEEEEEEEECCCcHh-----------H
Confidence            345689999999999999999999876531 11111 1111222223333 44  4889999999653           2


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ......+++.+|++++|+|+++..+.. ...+++.+......  ..|+++|+||+|+...
T Consensus        92 ~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~--~~piilv~NK~Dl~~~  149 (201)
T 2hup_A           92 RTITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGS--NIVQLLIGNKSDLSEL  149 (201)
T ss_dssp             HHHHHHHHTTCSEEEEEEETTBHHHHHTHHHHHHHHHHHSCT--TCEEEEEEECTTCGGG
T ss_pred             HHHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC--CCCEEEEEECCccccc
Confidence            233345677899999999998432221 13455555544322  3799999999999764

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.71  E-value=7.3e-17  Score=113.78  Aligned_cols=119  Identities=13%  Similarity=0.137  Sum_probs=76.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      .....+|+++|.+|+|||||+++|++........  ...+.......... .+  ..+.+|||||.......        
T Consensus        17 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~--~~~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~--------   85 (213)
T 3cph_A           17 YDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFI--TTIGIDFKIKTVDI-NGKKVKLQLWDTAGQERFRTI--------   85 (213)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHHCCCCCSSS--CCCSCCEEEEEEEE-TTEEEEEEEECCTTGGGGTCC--------
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCcccC--CcccceEEEEEEEE-CCEEEEEEEEeCCCcHHHHHH--------
Confidence            4567899999999999999999999766322211  12222233333444 44  47899999996543221        


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDEL  150 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~  150 (173)
                         ...++..+|++++|+|+++..+.. ...+++.+......  ..|+++|+||+|+.
T Consensus        86 ---~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~piilv~nK~Dl~  138 (213)
T 3cph_A           86 ---TTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHAND--EAQLLLVGNKSDME  138 (213)
T ss_dssp             ---CHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTTT--CSEEEEEEECTTCS
T ss_pred             ---HHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC--CCCEEEEEECCCCc
Confidence               224567889999999998432222 13455555554332  37999999999984

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.71  E-value=1.1e-17  Score=116.30  Aligned_cols=123  Identities=11%  Similarity=0.029  Sum_probs=78.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+|+++|.+|+|||||+|.|++...........+.+.......... ....+.+|||||..           ++...
T Consensus        21 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~i~Dt~G~~-----------~~~~~   88 (191)
T 3dz8_A           21 DYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHE-KRVKLQIWDTAGQE-----------RYRTI   88 (191)
T ss_dssp             EECEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETT-TTEEEEEECHHHHH-----------HCHHH
T ss_pred             CeeeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECC-EEEEEEEEeCCChH-----------HHHHH
Confidence            4568999999999999999999997553222111112222222222222 44579999999932           33444


Q ss_pred             HHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ...++..+|++++|+|+++.-+.+ ...+++.+......  ..|+++|+||+|+....
T Consensus        89 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~piilv~nK~Dl~~~~  144 (191)
T 3dz8_A           89 TTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWD--NAQVILVGNKCDMEEER  144 (191)
T ss_dssp             HHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSCT--TCEEEEEEECTTCGGGC
T ss_pred             HHHHHccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCC--CCCEEEEEECCCCcccc
Confidence            456778899999999998432222 13455555543222  37999999999987543

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.71  E-value=1.9e-17  Score=128.99  Aligned_cols=123  Identities=21%  Similarity=0.143  Sum_probs=78.6

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      ++|+++|.+|+|||||+|+|++...... ...++.|.........+ .+..+.+|||||+.....   ....++...+..
T Consensus         4 ~~V~ivG~~nvGKStL~n~l~~~~~~~v-~~~~g~T~d~~~~~~~~-~~~~~~l~DT~G~~~~~~---~~~~~~~~~~~~   78 (436)
T 2hjg_A            4 PVVAIVGRPNVGKSTIFNRIAGERISIV-EDTPGVTRDRIYSSAEW-LNYDFNLIDTGGIDIGDE---PFLAQIRQQAEI   78 (436)
T ss_dssp             CEEEEECSTTSSHHHHHHHHEEEECC------------CEEEECTT-CSSCCEEEC------------CHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceee-cCCCCCccceEEEEEEE-CCceEEEEECCCCCCcch---hHHHHHHHHHHH
Confidence            6899999999999999999998664221 22345555555555555 677899999999874322   145566666667


Q ss_pred             ccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +++.+|++++|+|+.+.++..+..+.+.++.     ...|+++|+||+|+...
T Consensus        79 ~~~~ad~il~vvD~~~~~~~~d~~~~~~l~~-----~~~pvilv~NK~D~~~~  126 (436)
T 2hjg_A           79 AMDEADVIIFMVNGREGVTAADEEVAKILYR-----TKKPVVLAVNKLDNTEM  126 (436)
T ss_dssp             HHHHCSEEEEEEETTTCSCHHHHHHHHHHTT-----CCSCEEEEEECCCC---
T ss_pred             HHHhCCEEEEEEeCCCCCCHHHHHHHHHHHH-----cCCCEEEEEECccCccc
Confidence            7788999999999987888777655554432     23799999999998754

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=99.71  E-value=5.6e-17  Score=111.39  Aligned_cols=124  Identities=11%  Similarity=0.079  Sum_probs=72.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee--CCceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK--DGQVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      .....+|+++|.+|+|||||++.+++..........  .+...........  ....+.+|||||...           +
T Consensus         5 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~-----------~   71 (182)
T 1ky3_A            5 KKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKAT--IGADFLTKEVTVDGDKVATMQVWDTAGQER-----------F   71 (182)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC-----CCCSCEEEEECCSSSCCEEEEEECCC----------------
T ss_pred             cCceEEEEEECCCCCCHHHHHHHHHhCcCCcccCCc--cceEEEEEEEEEcCCcEEEEEEEECCCChH-----------h
Confidence            345689999999999999999999986632211111  1112222223321  235789999999543           2


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcc--cccceEEEEEeCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGK--KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~  152 (173)
                      ......++..+|++++|+|+++..+.. ...+++.+......  ....|+++|+||+|+...
T Consensus        72 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~  133 (182)
T 1ky3_A           72 QSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEES  133 (182)
T ss_dssp             -----CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGG
T ss_pred             hhhhHHHhhcCCEEEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCccccc
Confidence            333446788999999999998432222 23445555544321  123699999999998643

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=99.71  E-value=1.4e-17  Score=116.63  Aligned_cols=119  Identities=17%  Similarity=0.119  Sum_probs=70.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      .....+|+++|.+|+|||||+|+|++...........+.+...  ..... .+  ..+.+|||||....           
T Consensus        25 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~--~~~~~-~~~~~~l~i~Dt~G~~~~-----------   90 (199)
T 2p5s_A           25 SQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQM--KTLIV-DGERTVLQLWDTAGQERF-----------   90 (199)
T ss_dssp             ---CEEEEEESSTTSSHHHHHHHHHHCCCC----------CEE--EEEEE-TTEEEEEEEEECTTCTTC-----------
T ss_pred             cCCCeEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEE--EEEEE-CCEEEEEEEEECCCCcch-----------
Confidence            3567899999999999999999999766321111111222222  22222 33  46899999997642           


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDEL  150 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~  150 (173)
                      ......++..+|++++|+|+++..+... ..+++.+......  ..|+++|+||+|+.
T Consensus        91 ~~~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~--~~piilv~NK~Dl~  146 (199)
T 2p5s_A           91 RSIAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHE--TVPIMLVGNKADIR  146 (199)
T ss_dssp             HHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHC-----CCEEEEEECGGGH
T ss_pred             hhhHHHHHhhCCEEEEEEECCChHHHHHHHHHHHHHHHhcCC--CCCEEEEEECcccc
Confidence            1122234556799999999984332221 3445555544222  37999999999986

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=99.71  E-value=3.3e-17  Score=116.44  Aligned_cols=128  Identities=16%  Similarity=0.143  Sum_probs=79.8

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC-ccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSS-GVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      .+..+|+|+|.+|+|||||++.++... |.....+. +............ ....+.+|||+|....           ..
T Consensus        11 ~k~~KivlvGd~~VGKTsLi~r~~~~~-f~~~~~~Tig~d~~~k~~~~~~-~~v~l~iwDtaGqe~~-----------~~   77 (216)
T 4dkx_A           11 LRKFKLVFLGEQSVGKTSLITRFMYDS-FDNTYQATIGIDFLSKTMYLED-RTIRLQLWDTAGLERF-----------RS   77 (216)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHHSC-CC----------CEEEEEECSS-CEEEEEEECCSCTTTC-----------GG
T ss_pred             CCcEEEEEECcCCcCHHHHHHHHHhCC-CCCCcCCccceEEEEEEEEecc-eEEEEEEEECCCchhh-----------hh
Confidence            345799999999999999999998655 32222221 1111111111111 2246889999997653           22


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHH
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLED  159 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~  159 (173)
                      ....+++.++++++|++.++.-+-+ -..+++.+.+..+..  .|++||.||+|+.+.+..+.++
T Consensus        78 l~~~~~~~a~~~ilv~di~~~~Sf~~i~~~~~~i~~~~~~~--~piilVgNK~Dl~~~r~V~~~e  140 (216)
T 4dkx_A           78 LIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSD--VIIMLVGNKTDLADKRQVSIEE  140 (216)
T ss_dssp             GHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTS--SEEEEEEECTTCGGGCCSCHHH
T ss_pred             HHHHHhccccEEEEEeecchhHHHHHHHHHHHHHHHhcCCC--CeEEEEeeccchHhcCcccHHH
Confidence            2235678999999999998443333 246666666665544  7999999999987654444443

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.71  E-value=3.1e-16  Score=107.98  Aligned_cols=117  Identities=13%  Similarity=0.071  Sum_probs=76.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      .+..+|+++|.+|+|||||++++++... .....    |.......... .+..+.+|||||......           .
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~~~-~~~~~----t~~~~~~~~~~-~~~~~~i~Dt~G~~~~~~-----------~   78 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIGEV-VTTKP----TIGFNVETLSY-KNLKLNVWDLGGQTSIRP-----------Y   78 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCSEE-EEECS----STTCCEEEEEE-TTEEEEEEEEC----CCT-----------T
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCc-CccCC----cCccceEEEEE-CCEEEEEEECCCCHhHHH-----------H
Confidence            5679999999999999999999997654 11111    11122233444 678999999999875322           2


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~  152 (173)
                      ...++..+|++++|+|+++..+..  ...+++.+....  ....|+++|+||+|+...
T Consensus        79 ~~~~~~~~d~ii~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  134 (183)
T 1moz_A           79 WRCYYADTAAVIFVVDSTDKDRMS--TASKELHLMLQEEELQDAALLVFANKQDQPGA  134 (183)
T ss_dssp             GGGTTTTEEEEEEEEETTCTTTHH--HHHHHHHHHTTSSTTSSCEEEEEEECTTSTTC
T ss_pred             HHHHhccCCEEEEEEECCCHHHHH--HHHHHHHHHHcChhhCCCeEEEEEECCCCCCC
Confidence            235678899999999998553332  223334444332  133799999999998764

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.71  E-value=1.4e-17  Score=116.90  Aligned_cols=121  Identities=18%  Similarity=0.077  Sum_probs=56.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCC-ccccCCCCcccee--eEEEEEEeeC----CceEEEEeCCCCCCCCCCcHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRA-FKSRASSSGVTST--CEMQRTVLKD----GQVVNVIDTPGLFDFSAGSEF   88 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~-~~~~~~~~~~t~~--~~~~~~~~~~----~~~~~v~DtpG~~~~~~~~~~   88 (173)
                      .....+|+++|.+|+|||||+++|++... +...   ...|..  ........ .    ...+.+|||||..        
T Consensus        17 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~---~~~t~~~~~~~~~~~~-~~~~~~~~~~l~Dt~G~~--------   84 (208)
T 2yc2_C           17 ATLRCKVAVVGEATVGKSALISMFTSKGSKFLKD---YAMTSGVEVVVAPVTI-PDTTVSVELFLLDTAGSD--------   84 (208)
T ss_dssp             EEEEEEEEEC-------------------------------------CEEEEC-TTSSEEEEEEEEETTTTH--------
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHhCCCcccCC---CCCccceEEEEEEEEE-CCcccEEEEEEEECCCcH--------
Confidence            34568999999999999999999998621 2111   112222  22233333 3    3479999999964        


Q ss_pred             HHHHHHHHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcc-cccceEEEEEeCCCCCC
Q 043441           89 VGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGK-KVFDYMIVVFTGGDELE  151 (173)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~-~~~~~~~iv~tk~D~~~  151 (173)
                         ++......++..+|++++|+|+++..+.. ...+++.+...... ....|+++|+||+|+..
T Consensus        85 ---~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~  146 (208)
T 2yc2_C           85 ---LYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPP  146 (208)
T ss_dssp             ---HHHHHHSTTCCCCCEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC----
T ss_pred             ---HHHHHHHHHHhhCcEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccch
Confidence               34445567888999999999998443222 23455555544320 02379999999999986

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=99.71  E-value=1.5e-16  Score=107.60  Aligned_cols=114  Identities=11%  Similarity=0.024  Sum_probs=76.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .+|+++|.+|+|||||++++++.... ..    ..|.......... .+..+.+|||||...           +......
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~-~~----~~t~~~~~~~~~~-~~~~~~i~Dt~G~~~-----------~~~~~~~   63 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIV-TT----IPTIGFNVETVEY-KNISFTVWDVGGQDK-----------IRPLWRH   63 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSS-CC----CCCSSCCEEEEEC-SSCEEEEEECCCCGG-----------GHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcC-cc----cCcCceeEEEEEE-CCEEEEEEEcCCChh-----------hHHHHHH
Confidence            37999999999999999999875532 21    1232233334444 678999999999753           2233345


Q ss_pred             ccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~  152 (173)
                      ++..+|++++|+|+++.-+..  ...+++.+....  ....|+++|+||+|+...
T Consensus        64 ~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  116 (164)
T 1r8s_A           64 YFQNTQGLIFVVDSNDRERVN--EAREELMRMLAEDELRDAVLLVFANKQDLPNA  116 (164)
T ss_dssp             HTTTCSEEEEEEETTCGGGHH--HHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             HhccCCEEEEEEECCCHHHHH--HHHHHHHHHHhchhhcCCeEEEEEECcCCcCC
Confidence            678899999999998442222  222344444332  123799999999999765

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=99.70  E-value=1.7e-16  Score=116.61  Aligned_cols=123  Identities=17%  Similarity=0.163  Sum_probs=82.8

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCc--HHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGS--EFVGMEIVKC   96 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~--~~~~~~~~~~   96 (173)
                      ..+|+++|.+|+|||||+|+|++... ..+ ..++.|.......... .+..+.+|||||+.+.....  ....+.+.+.
T Consensus         3 ~~~I~lvG~~n~GKSTLin~l~g~~~-~v~-~~~g~t~~~~~~~~~~-~~~~~~liDtpG~~~~~~~~~~~~~~e~i~~~   79 (274)
T 3i8s_A            3 KLTIGLIGNPNSGKTTLFNQLTGSRQ-RVG-NWAGVTVERKEGQFST-TDHQVTLVDLPGTYSLTTISSQTSLDEQIACH   79 (274)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTTCE-EEE-ECTTSSSEEEEEEEEC-SSCEEEEEECCCCSCSCC----CCHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCc-ccC-CCCCeeEEEEEEEEEe-CCCceEEEECcCCCccccccccCCHHHHHHHH
Confidence            47899999999999999999999873 222 2345566665566666 67789999999998765211  1112222221


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      . ...+.+|++++|+|++ .. .....+...+.+.     ..|+++|+||+|+...
T Consensus        80 ~-~~~~~~d~ii~VvD~~-~~-~~~~~~~~~l~~~-----~~p~ivv~NK~Dl~~~  127 (274)
T 3i8s_A           80 Y-ILSGDADLLINVVDAS-NL-ERNLYLTLQLLEL-----GIPCIVALNMLDIAEK  127 (274)
T ss_dssp             H-HHHTCCSEEEEEEEGG-GH-HHHHHHHHHHHHH-----TCCEEEEEECHHHHHH
T ss_pred             H-HhhcCCCEEEEEecCC-Ch-HHHHHHHHHHHhc-----CCCEEEEEECccchhh
Confidence            1 1346889999999998 32 2233444444443     3799999999998753

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=99.70  E-value=5.2e-17  Score=112.04  Aligned_cols=122  Identities=18%  Similarity=0.144  Sum_probs=75.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      ..+..+|+++|.+|+|||||+|+|++.... ....+.  +.......... .+  ..+.+|||||....    .      
T Consensus        15 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~-~~~~~t--~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~----~------   80 (187)
T 2a9k_A           15 SLALHKVIMVGSGGVGKSALTLQFMYDEFV-EDYEPT--KADSYRKKVVL-DGEEVQIDILDTAGQEDY----A------   80 (187)
T ss_dssp             --CEEEEEEECSTTSSHHHHHHHHHHSCCC-CSCCTT--CCEEEEEEEEE-TTEEEEEEEEECCCTTCC----H------
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHhhCCCC-CcCCCc--cceEEEEEEEE-CCEEEEEEEEECCCCccc----H------
Confidence            346689999999999999999999976632 221111  11111222333 34  37899999997642    1      


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                       .....++..+|++++|+++++..+.. ...+++.+...... ...|+++|+||+|+....
T Consensus        81 -~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~~~piilv~nK~Dl~~~~  139 (187)
T 2a9k_A           81 -AIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKED-ENVPFLLVGNKSDLEDKR  139 (187)
T ss_dssp             -HHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCC-TTCCEEEEEECGGGGGGC
T ss_pred             -HHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCC-CCCCEEEEEECccccccC
Confidence             11223445679999999998432211 23455555554332 237999999999987643

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=99.70  E-value=1.2e-16  Score=108.36  Aligned_cols=120  Identities=16%  Similarity=-0.022  Sum_probs=63.4

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ..+|+++|.+|+|||||+|++++......  .+...+.......... ....+.+|||||....           .....
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~~~--~~~~~~~~~~~~~~~~-~~~~~~i~D~~g~~~~-----------~~~~~   67 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDGPE--AEAAGHTYDRSIVVDG-EEASLMVYDIWEQDGG-----------RWLPG   67 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC------------CEEEEEEEETT-EEEEEEEEECC---------------------
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCccccCC--CCccccceEEEEEECC-EEEEEEEEECCCCccc-----------hhhhh
Confidence            47899999999999999999997653211  1222222222222211 2347889999996642           22233


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .++..++++++|+++++.-+... ..++..+.+... ....|+++|+||+|+....
T Consensus        68 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~p~ilv~nK~Dl~~~~  122 (166)
T 3q72_A           68 HCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQ-TDDVPIILVGNKSDLVRSR  122 (166)
T ss_dssp             -----CCEEEEEEETTCHHHHHHHHHHHHHHHHCC----CCCEEEEEECTTCCSSC
T ss_pred             hhhhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEecccccccc
Confidence            46678899999999984322111 233333333211 1237999999999998654

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.70  E-value=9.2e-17  Score=114.43  Aligned_cols=121  Identities=14%  Similarity=0.104  Sum_probs=75.9

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      .....+|+++|.+|+|||||+++|++..........  .+.......+.. .+  ..+.+|||||......         
T Consensus        10 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t--~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~---------   77 (223)
T 3cpj_B           10 YDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKST--IGVEFATRTLEI-EGKRIKAQIWDTAGQERYRA---------   77 (223)
T ss_dssp             CCEEEEEEEESCTTSSHHHHHHHHHHCCCCC--------CCSEEEEEEEE-TTEEEEEEEECCTTTTTTTC---------
T ss_pred             CCeeeEEEEECcCCCCHHHHHHHHhcCCCCCCCCCc--ccceeEEEEEEE-CCEEEEEEEEECCCccchhh---------
Confidence            355689999999999999999999986642221111  122222223333 44  4789999999765322         


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                        ....+++.+|++|+|+|+++..+... ..++..+......  ..|+++|+||+|+...
T Consensus        78 --~~~~~~~~~d~vilV~D~~~~~s~~~~~~~l~~i~~~~~~--~~piilv~nK~Dl~~~  133 (223)
T 3cpj_B           78 --ITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADD--NVAVGLIGNKSDLAHL  133 (223)
T ss_dssp             --CCGGGTTTCCEEEEEEC-CCHHHHHHHHHHHHHHHHHCC----CEEEEEECCGGGGGG
T ss_pred             --hHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCCC--CCeEEEEEECcccccc
Confidence              22356788999999999984433222 3444445443222  3789999999998754

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=99.70  E-value=2.8e-16  Score=119.68  Aligned_cols=134  Identities=16%  Similarity=0.154  Sum_probs=85.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCc--c----------------------------------------
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSG--V----------------------------------------   54 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~--~----------------------------------------   54 (173)
                      ...+.|+|+|.+|||||||+|+|+|...+..+.....  .                                        
T Consensus        32 ~~lp~I~vvG~~~sGKSSLln~l~g~~~lp~~~~~vT~~p~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i~~~~  111 (360)
T 3t34_A           32 DSLPAIAVVGGQSSGKSSVLESIVGKDFLPRGSGIVTRRPLVLQLQKIDDGTREYAEFLHLPRKKFTDFAAVRKEIQDET  111 (360)
T ss_dssp             CCCCEEEEECBTTSSHHHHHHHHHTSCCSCCCSSSCCCSCEEEEEEECSSCSCCEEEETTSTTCCBSCHHHHHHHHHHHH
T ss_pred             ccCCEEEEECCCCCcHHHHHHHHhCCCcCCCCCCcccCcceEEEEecCCCcccceeeeecCCCcccCCHHHHHHHHHHHH
Confidence            3556999999999999999999999765333321110  0                                        


Q ss_pred             ----------ceeeEEEEEEeeCCceEEEEeCCCCCCCCC--CcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHH
Q 043441           55 ----------TSTCEMQRTVLKDGQVVNVIDTPGLFDFSA--GSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEE  122 (173)
Q Consensus        55 ----------t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~--~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~  122 (173)
                                ........+..+....+.+|||||+.....  ........+...+..++.++|+++++++.. .......
T Consensus       112 ~~~~g~~~~~s~~~i~l~i~~~~~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~-~~~~~~~  190 (360)
T 3t34_A          112 DRETGRSKAISSVPIHLSIYSPNVVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPA-NQDLATS  190 (360)
T ss_dssp             HHTSCTTCCCCCSCEEEEEEETTSCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEET-TSCGGGC
T ss_pred             HHhcCCCCCcccceEEEEEeCCCCCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecc-cCCcCCH
Confidence                      000001111121345789999999987532  223445566777777888999999999875 2222223


Q ss_pred             HHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441          123 AALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus       123 ~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .+++.+...-..  ..++++|+||+|++...
T Consensus       191 ~~~~l~~~~~~~--~~~~i~V~nK~Dl~~~~  219 (360)
T 3t34_A          191 DAIKISREVDPS--GDRTFGVLTKIDLMDKG  219 (360)
T ss_dssp             HHHHHHHHSCTT--CTTEEEEEECGGGCCTT
T ss_pred             HHHHHHHHhccc--CCCEEEEEeCCccCCCc
Confidence            445555554222  26899999999998754

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=99.70  E-value=9.2e-17  Score=111.54  Aligned_cols=123  Identities=11%  Similarity=0.012  Sum_probs=78.7

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      ......+|+++|.+|+|||||+|+|++...+....   ..|.......... ++..+.+|||||.....           
T Consensus        17 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~---~~t~~~~~~~~~~-~~~~~~l~Dt~G~~~~~-----------   81 (190)
T 2h57_A           17 RGSKEVHVLCLGLDNSGKTTIINKLKPSNAQSQNI---LPTIGFSIEKFKS-SSLSFTVFDMSGQGRYR-----------   81 (190)
T ss_dssp             ----CEEEEEEECTTSSHHHHHHHTSCGGGCCSSC---CCCSSEEEEEEEC-SSCEEEEEEECCSTTTG-----------
T ss_pred             CCCCccEEEEECCCCCCHHHHHHHHhcCCCCCCCc---CCccceeEEEEEE-CCEEEEEEECCCCHHHH-----------
Confidence            34567899999999999999999999876322222   2333344445555 67899999999976531           


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcc-cccceEEEEEeCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGK-KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~-~~~~~~~iv~tk~D~~~~  152 (173)
                      .....++..+|++++|+|+++..+... ..++..+...... ....|+++|+||+|+...
T Consensus        82 ~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  141 (190)
T 2h57_A           82 NLWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRDA  141 (190)
T ss_dssp             GGGGGGGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTTC
T ss_pred             HHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCcccC
Confidence            222356778899999999984321111 1333333322110 023799999999999865

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=99.70  E-value=3.3e-17  Score=114.89  Aligned_cols=121  Identities=16%  Similarity=0.117  Sum_probs=73.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      +...+|+++|.+|+|||||+|.|++.........  ..+.......... .+  ..+.+|||||..           ++.
T Consensus        23 ~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~--t~~~~~~~~~~~~-~~~~~~l~l~Dt~G~~-----------~~~   88 (200)
T 2o52_A           23 DFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNH--TIGVEFGSRVVNV-GGKTVKLQIWDTAGQE-----------RFR   88 (200)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHC--------------CCEEEEEEEE-TTEEEEEEEECCTTHH-----------HHS
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHhCCCCccCCC--cccceeEEEEEEE-CCeeeEEEEEcCCCcH-----------hHH
Confidence            4568999999999999999999998664222111  1121222223333 34  578999999943           222


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .....++..+|++++|+|+++..+.. ...++..+......  ..|+++|+||+|+....
T Consensus        89 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~piilv~nK~Dl~~~~  146 (200)
T 2o52_A           89 SVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASP--NIVVILCGNKKDLDPER  146 (200)
T ss_dssp             CCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTCT--TCEEEEEEECGGGGGGC
T ss_pred             HHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCC--CCcEEEEEECCCccccc
Confidence            22334677889999999998432222 13444444443322  37899999999987543

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=99.70  E-value=6.2e-17  Score=114.74  Aligned_cols=122  Identities=18%  Similarity=0.160  Sum_probs=76.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      .....+|+++|.+|+|||||+|+|++.... ............. .......+  ..+.+|||||.........      
T Consensus         8 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~-~~~~~t~~~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~------   79 (218)
T 4djt_A            8 RELTYKICLIGDGGVGKTTYINRVLDGRFE-KNYNATVGAVNHP-VTFLDDQGNVIKFNVWDTAGQEKKAVLKD------   79 (218)
T ss_dssp             --CEEEEEEECCTTSSHHHHHCBCTTCSTT-CEEETTTTEEEEE-EEEEBTTSCEEEEEEEEECSGGGTSCCCH------
T ss_pred             ccCccEEEEECCCCCCHHHHHHHHhcCCCC-CCCCCccceeeEE-EEEEeCCCcEEEEEEEecCCchhhchHHH------
Confidence            345689999999999999999999976632 2211211111111 11111122  4689999999765332222      


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                           .++..+|++++|+|+++..+.. ...++..+.......  .|+++|+||+|+...
T Consensus        80 -----~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~piilv~nK~Dl~~~  132 (218)
T 4djt_A           80 -----VYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNE--APIVVCANKIDIKNR  132 (218)
T ss_dssp             -----HHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCSS--SCEEEEEECTTCC--
T ss_pred             -----HHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCC--CCEEEEEECCCCccc
Confidence                 3456789999999998543322 235556666654433  799999999998765

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=99.70  E-value=7.1e-17  Score=111.27  Aligned_cols=121  Identities=12%  Similarity=0.096  Sum_probs=58.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      ....+|+++|.+|+|||||++.+++.... ... .+..+.......... .+  ..+.+|||||...           +.
T Consensus         6 ~~~~ki~v~G~~~~GKssl~~~l~~~~~~-~~~-~~t~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~-----------~~   71 (183)
T 2fu5_C            6 DYLFKLLLIGDSGVGKTCVLFRFSEDAFN-STF-ISTIGIDFKIRTIEL-DGKRIKLQIWDTAGQER-----------FR   71 (183)
T ss_dssp             SEEEEEEEECCCCC-----------------CH-HHHHCEEEEEEEEEE-TTEEEEEEEEEC------------------
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCC-CCC-CCcccceeEEEEEEE-CCEEEEEEEEcCCCChh-----------hh
Confidence            34689999999999999999999876531 111 111222222233333 44  5789999999653           22


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .....+++.+|++++|+|+++..+... ..+++.+......  ..|+++|+||+|+....
T Consensus        72 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~piilv~nK~Dl~~~~  129 (183)
T 2fu5_C           72 TITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASA--DVEKMILGNKCDVNDKR  129 (183)
T ss_dssp             --CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCT--TCEEEEEEEC--CCSCC
T ss_pred             hhHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCC--CCCEEEEEECccCCccC
Confidence            334467889999999999984322221 2344444443222  37999999999997643

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.70  E-value=2e-16  Score=110.40  Aligned_cols=114  Identities=14%  Similarity=0.160  Sum_probs=71.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC----------------------------
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG----------------------------   68 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~----------------------------   68 (173)
                      ....+|+++|.+|+|||||+|+|++..........  ............ .+                            
T Consensus         5 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t--~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (208)
T 3clv_A            5 KSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTT--IGASFCTYVVNL-NDINIKNNSNNEKNNNINSINDDNNVIITN   81 (208)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCC--CSCEEEEEEEET-TC----------------------------
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCcCCCCcCcc--ccceeEEEEEEe-cCcccccccccccccccccccccccccccc
Confidence            45689999999999999999999987632111111  111111112222 11                            


Q ss_pred             -----------ceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccc
Q 043441           69 -----------QVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKV  136 (173)
Q Consensus        69 -----------~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~  136 (173)
                                 ..+.+|||||......           ....+++.+|++++|+|+++..+... ..++..+.+..    
T Consensus        82 ~~~~~~~~~~~~~~~i~Dt~G~~~~~~-----------~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~----  146 (208)
T 3clv_A           82 QHNNYNENLCNIKFDIWDTAGQERYAS-----------IVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISS----  146 (208)
T ss_dssp             ---CCCTTTCEEEEEEEECTTGGGCTT-----------THHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHS----
T ss_pred             ccccccCccceeEEEEEECCCcHHHHH-----------HHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhC----
Confidence                       6789999999654321           12245668899999999984322222 23344443331    


Q ss_pred             cceEEEEEeCCC
Q 043441          137 FDYMIVVFTGGD  148 (173)
Q Consensus       137 ~~~~~iv~tk~D  148 (173)
                      ..|+++|+||+|
T Consensus       147 ~~piilv~NK~D  158 (208)
T 3clv_A          147 NYIIILVANKID  158 (208)
T ss_dssp             CCEEEEEEECTT
T ss_pred             CCcEEEEEECCC
Confidence            279999999999

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=99.70  E-value=8.4e-17  Score=112.84  Aligned_cols=123  Identities=19%  Similarity=0.136  Sum_probs=76.5

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHH
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGME   92 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~   92 (173)
                      ...+..+|+++|.+|+|||||+|.+++... .....+.....  ....... .+  ..+.+|||||....    .     
T Consensus        10 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~-~~~~~~t~~~~--~~~~~~~-~~~~~~~~l~Dt~G~~~~----~-----   76 (206)
T 2bov_A           10 NSLALHKVIMVGSGGVGKSALTLQFMYDEF-VEDYEPTKADS--YRKKVVL-DGEEVQIDILDTAGQEDY----A-----   76 (206)
T ss_dssp             -CCCEEEEEEECSTTSSHHHHHHHHHHSCC-CTTCCTTCCEE--EEEEEEE-TTEEEEEEEEECCCTTCC----H-----
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHHhCCC-CCCCCCccceE--EEEEEEE-CCEEEEEEEEcCCChhhh----H-----
Confidence            345678999999999999999999997663 22222111111  1222333 44  37899999997653    1     


Q ss_pred             HHHHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           93 IVKCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        93 ~~~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                        .....++..+|++++|+++++.-+.. ...++..+...... ...|+++|+||+|+....
T Consensus        77 --~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~~~piilv~nK~Dl~~~~  135 (206)
T 2bov_A           77 --AIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKED-ENVPFLLVGNKSDLEDKR  135 (206)
T ss_dssp             --HHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTC-SCCCEEEEEECTTCGGGC
T ss_pred             --HHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCCEEEEEeccCccccc
Confidence              11223445679999999998432221 13444445444321 237999999999997653

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.70  E-value=1.6e-16  Score=108.84  Aligned_cols=123  Identities=15%  Similarity=0.051  Sum_probs=76.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC---ceEEEEeCCCCCCCCCCcHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG---QVVNVIDTPGLFDFSAGSEFVGME   92 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~---~~~~v~DtpG~~~~~~~~~~~~~~   92 (173)
                      ..+..+|+++|.+|+|||||++.+++...........+  .......... .+   ..+.+|||||.......       
T Consensus         3 ~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~--~~~~~~~~~~-~~~~~~~~~~~Dt~G~~~~~~~-------   72 (178)
T 2hxs_A            3 HMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIG--LDFFLRRITL-PGNLNVTLQIWDIGGQTIGGKM-------   72 (178)
T ss_dssp             CCCEEEEEEECCTTSSHHHHHHHHHGGGTTHHHHHTTT--SSEEEEEEEE-TTTEEEEEEEEECTTCCTTCTT-------
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhCcCCCCCCCcee--EEEEEEEEEe-CCCCEEEEEEEECCCCccccch-------
Confidence            34568999999999999999999998653211111111  1222233333 33   58999999997653221       


Q ss_pred             HHHHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccce-EEEEEeCCCCCCC
Q 043441           93 IVKCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDY-MIVVFTGGDELED  152 (173)
Q Consensus        93 ~~~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~-~~iv~tk~D~~~~  152 (173)
                          ...++..+|++++|+|+++..+.. ...+++.+..........| +++|+||+|+...
T Consensus        73 ----~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~  130 (178)
T 2hxs_A           73 ----LDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHM  130 (178)
T ss_dssp             ----HHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGG
T ss_pred             ----hhHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccccc
Confidence                123466889999999998433322 1345555554322111244 8999999998754

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=99.70  E-value=6.5e-17  Score=113.09  Aligned_cols=135  Identities=19%  Similarity=0.112  Sum_probs=75.4

Q ss_pred             CcccCCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCc
Q 043441            9 DWELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGS   86 (173)
Q Consensus         9 ~~~~~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~   86 (173)
                      +...+.......+|+++|.+|+|||||++.+++...........+.....  ..+.. ++  ..+.+|||||....    
T Consensus        13 ~~~~~~~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~--~~~~~-~~~~~~l~i~Dt~g~~~~----   85 (195)
T 3cbq_A           13 NLYFQGQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYE--RRIMV-DKEEVTLVVYDIWEQGDA----   85 (195)
T ss_dssp             ---------CEEEEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEE--EEEEE-TTEEEEEEEECCCCCSGG----
T ss_pred             cccCCCCCCcEEEEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEE--EEEEE-CCEEEEEEEEecCCCccc----
Confidence            44445556678999999999999999999998644211111111112222  22233 33  36788999997642    


Q ss_pred             HHHHHHHHHHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccH
Q 043441           87 EFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETL  157 (173)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~  157 (173)
                      ..   .+.   ..+++.++++++|+|+++..+.. ...++..+...... ...|+++|.||+|+......+.
T Consensus        86 ~~---~~~---~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~-~~~piilv~nK~Dl~~~~~v~~  150 (195)
T 3cbq_A           86 GG---WLR---DHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPH-HDLPVILVGNKSDLARSREVSL  150 (195)
T ss_dssp             GH---HHH---HHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTT-SCCCEEEEEECTTCTTTCCSCH
T ss_pred             hh---hhH---HHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCCEEEEeechhccccCCcCH
Confidence            11   111   23445679999999998432222 23444444443211 2379999999999976543333

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.70  E-value=2.5e-16  Score=117.49  Aligned_cols=127  Identities=17%  Similarity=0.137  Sum_probs=83.7

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ...+|+++|.+|+|||||+|.+++...... ....+.|...........++..+.+|||||...      ..........
T Consensus         2 ~~~KI~lvG~~~vGKSSLi~~l~~~~~~~~-~~~~~~Ti~~~~~~~~~~~~~~l~i~Dt~G~~~------~~~~~~~~~~   74 (307)
T 3r7w_A            2 LGSKLLLMGRSGSGKSSMRSIIFSNYSAFD-TRRLGATIDVEHSHLRFLGNMTLNLWDCGGQDV------FMENYFTKQK   74 (307)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHSCCCTGG-GGGCCCCCSEEEEEEEETTTEEEEEEEECCSHH------HHHHHHTTTH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCcc-ccCcCCccceEEEEEEeCCceEEEEEECCCcHH------HhhhhhhhHH
Confidence            457899999999999999999988632111 123445555555555543567899999999652      1111112333


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      ..+++++|++++|+|+++..+..+ ..+.+++.+........|+++|+||+|+..
T Consensus        75 ~~~~~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl~~  129 (307)
T 3r7w_A           75 DHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQ  129 (307)
T ss_dssp             HHHHTTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSC
T ss_pred             HHHhccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEecccccc
Confidence            456778999999999985544343 244455555432222379999999999986

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=99.70  E-value=9.5e-17  Score=111.83  Aligned_cols=118  Identities=14%  Similarity=0.101  Sum_probs=76.2

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEE-EEEEeeCCc--eEEEEeCCCCCCCCCCcHHHHH
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM-QRTVLKDGQ--VVNVIDTPGLFDFSAGSEFVGM   91 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~--~~~v~DtpG~~~~~~~~~~~~~   91 (173)
                      ......+|+++|.+|+|||||++.+++... .....+   |..... ..... .+.  .+.+|||||....         
T Consensus        19 ~~~~~~ki~~vG~~~~GKSsl~~~l~~~~~-~~~~~~---t~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~---------   84 (194)
T 3reg_A           19 NGKKALKIVVVGDGAVGKTCLLLAFSKGEI-PTAYVP---TVFENFSHVMKY-KNEEFILHLWDTAGQEEY---------   84 (194)
T ss_dssp             --CEEEEEEEECSTTSSHHHHHHHHHHSCC-CSSCCC---CSEEEEEEEEEE-TTEEEEEEEEEECCSGGG---------
T ss_pred             ccceeeEEEEECcCCCCHHHHHHHHhcCCC-CCccCC---eeeeeeEEEEEE-CCEEEEEEEEECCCcHHH---------
Confidence            345668999999999999999999998663 222111   211111 12222 443  5699999995532         


Q ss_pred             HHHHHHHhccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           92 EIVKCIGLAKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        92 ~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                        ......+++.+|++++|+|+++..+...  ..+++.+.....   ..|+++|+||+|+..
T Consensus        85 --~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~p~ilv~nK~Dl~~  141 (194)
T 3reg_A           85 --DRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYID---TAKTVLVGLKVDLRK  141 (194)
T ss_dssp             --TTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCT---TSEEEEEEECGGGCC
T ss_pred             --HHHhHhhccCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCC---CCCEEEEEEChhhcc
Confidence              2333457889999999999984433222  344455554322   279999999999875

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.70  E-value=3.4e-17  Score=127.61  Aligned_cols=130  Identities=18%  Similarity=0.151  Sum_probs=83.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      +...+++++|.+|+|||||+|+|++....... ...+.|.......... .+..+.+|||||+.......+.+ +.+...
T Consensus       173 ~~~~ki~lvG~~nvGKSSLin~l~~~~~~~~~-~~~gtT~d~~~~~~~~-~~~~~~l~DT~G~~~~~~~~~~~-e~~~~~  249 (436)
T 2hjg_A          173 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVS-NVAGTTRDAVDTSFTY-NQQEFVIVDTAGMRKKGKVYETT-EKYSVL  249 (436)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEEC----------CCEEEEE-TTEEEEETTHHHHTCBTTBCCCC-SHHHHH
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCCCceeec-CCCCceeeeeEEEEEE-CCeEEEEEECCCcCcCccccchH-HHHHHH
Confidence            35689999999999999999999987642222 1223344433344455 77789999999986533211000 011100


Q ss_pred             -HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCc
Q 043441           97 -IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNE  154 (173)
Q Consensus        97 -~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~  154 (173)
                       ...+++.+|++++|+|+++..+..+..++..+.+.     ..++++|+||+|+.+.+.
T Consensus       250 ~~~~~~~~ad~~llv~D~~~~~s~~~~~~~~~~~~~-----~~~iiiv~NK~Dl~~~~~  303 (436)
T 2hjg_A          250 RALKAIDRSEVVAVVLDGEEGIIEQDKRIAGYAHEA-----GKAVVIVVNKWDAVDKDE  303 (436)
T ss_dssp             HHHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHHT-----TCEEEEEEECGGGSCCCT
T ss_pred             HHHHHHHhCCEEEEEEcCCcCCcHHHHHHHHHHHHc-----CCcEEEEEECccCCCcch
Confidence             11244567999999999988887777666655542     278999999999987643

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.70  E-value=1.4e-16  Score=110.40  Aligned_cols=117  Identities=13%  Similarity=0.052  Sum_probs=79.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      .+..+|+++|.+|+|||||+|++++.... ...    .|.......... .+..+.+|||||.......           
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~~~~-~~~----~t~~~~~~~~~~-~~~~~~~~Dt~G~~~~~~~-----------   82 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLGDVV-TTV----PTVGVNLETLQY-KNISFEVWDLGGQTGVRPY-----------   82 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCSCCE-EEC----SSTTCCEEEEEE-TTEEEEEEEECCSSSSCCC-----------
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCC-CcC----CCCceEEEEEEE-CCEEEEEEECCCCHhHHHH-----------
Confidence            56789999999999999999999876532 211    122223334445 6789999999998754322           


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~  152 (173)
                      ...+++.+|++++|+|+++.-+...  ..+++.+....  ....|+++|+||+|+...
T Consensus        83 ~~~~~~~~d~ii~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  138 (189)
T 2x77_A           83 WRCYFSDTDAVIYVVDSTDRDRMGV--AKHELYALLDEDELRKSLLLIFANKQDLPDA  138 (189)
T ss_dssp             CSSSSTTCCEEEEEEETTCCTTHHH--HHHHHHHHHTCSTTTTCEEEEEEECTTSTTC
T ss_pred             HHHHhhcCCEEEEEEeCCCHHHHHH--HHHHHHHHHhhhhcCCCeEEEEEECCCCcCC
Confidence            2246778999999999985433332  22334443332  123799999999999865

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=99.69  E-value=2.2e-16  Score=110.84  Aligned_cols=121  Identities=13%  Similarity=0.104  Sum_probs=77.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      ....+|+++|.+|+|||||+|+|++.......  ....+.......... .+  ..+.+|||||......          
T Consensus         6 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~--~~t~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~----------   72 (207)
T 1vg8_A            6 KVLLKVIILGDSGVGKTSLMNQYVNKKFSNQY--KATIGADFLTKEVMV-DDRLVTMQIWDTAGQERFQS----------   72 (207)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHSCCCSSC--CCCCSEEEEEEEEES-SSCEEEEEEEEECSSGGGSC----------
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHcCCCCCCC--CCcccceEEEEEEEE-CCEEEEEEEEeCCCcHHHHH----------
Confidence            45689999999999999999999986632211  111222222223333 33  4789999999654321          


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcc--cccceEEEEEeCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGK--KVFDYMIVVFTGGDELE  151 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~  151 (173)
                       ....++..+|++++|+|+++..+.. ...++..+......  ....|+++|+||+|+..
T Consensus        73 -~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  131 (207)
T 1vg8_A           73 -LGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEN  131 (207)
T ss_dssp             -SCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSC
T ss_pred             -hHHHHHhCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCcc
Confidence             1234677899999999998432222 13455555554321  12379999999999874

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.69  E-value=8.5e-17  Score=126.01  Aligned_cols=136  Identities=18%  Similarity=0.170  Sum_probs=88.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      .....+++++|.+|+|||||+|+|++....... ...+.|.......... .+..+.+|||||+.......+... .+..
T Consensus       192 ~~~~~ki~ivG~~~vGKSslin~l~~~~~~~~~-~~~gtt~~~~~~~~~~-~~~~~~l~DT~G~~~~~~~~~~~e-~~~~  268 (456)
T 4dcu_A          192 NEEVIQFCLIGRPNVGKSSLVNAMLGEERVIVS-NVAGTTRDAVDTSFTY-NQQEFVIVDTAGMRKKGKVYETTE-KYSV  268 (456)
T ss_dssp             CTTCEEEEEECSTTSSHHHHHHHHHTSTTEEEC-C------CTTSEEEEE-TTEEEEETTGGGTTTBTTBCCCCS-HHHH
T ss_pred             ccccceeEEecCCCCCHHHHHHHHhCCCccccC-CCCCeEEEEEEEEEEE-CCceEEEEECCCCCcCcccchHHH-HHHH
Confidence            356789999999999999999999987543222 1223333333334445 777999999999865321110000 1111


Q ss_pred             -HHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHH
Q 043441           96 -CIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLED  159 (173)
Q Consensus        96 -~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~  159 (173)
                       ....+++.+|++++|+|+++.+...+..++..+.+.     ..|+++|+||+|+...+....++
T Consensus       269 ~~~~~~~~~ad~~llviD~~~~~~~~~~~~~~~~~~~-----~~~~ilv~NK~Dl~~~~~~~~~~  328 (456)
T 4dcu_A          269 LRALKAIDRSEVVAVVLDGEEGIIEQDKRIAGYAHEA-----GKAVVIVVNKWDAVDKDESTMKE  328 (456)
T ss_dssp             HHHHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHHT-----TCEEEEEEECGGGSCCCSSHHHH
T ss_pred             HHHHHHHhhCCEEEEEEeCCCCcCHHHHHHHHHHHHc-----CCCEEEEEEChhcCCCchHHHHH
Confidence             111245567999999999988888887777777652     27899999999998765333333

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=99.69  E-value=1.6e-16  Score=109.55  Aligned_cols=125  Identities=22%  Similarity=0.167  Sum_probs=75.5

Q ss_pred             CCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCc--eEEEEeCCCCCCCCCCcHHHH
Q 043441           13 TSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ--VVNVIDTPGLFDFSAGSEFVG   90 (173)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~v~DtpG~~~~~~~~~~~~   90 (173)
                      +....+..+|+++|.+|+|||||+|++++.... ....+......  ...... .+.  .+.+|||||........    
T Consensus        12 ~~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~-~~~~~t~~~~~--~~~~~~-~~~~~~l~i~Dt~G~~~~~~~~----   83 (183)
T 3kkq_A           12 PSENLPTYKLVVVGDGGVGKSALTIQFFQKIFV-DDYDPTIEDSY--LKHTEI-DNQWAILDVLDTAGQEEFSAMR----   83 (183)
T ss_dssp             --CCCCEEEEEEECSTTSSHHHHHHHHHHSCCC-SCCCTTCCEEE--EEEEEE-TTEEEEEEEEECCSCGGGCSSH----
T ss_pred             CccCCCceEEEEECCCCCCHHHHHHHHHhCCCC-CCCCCCcccee--EEEEEe-CCcEEEEEEEECCCchhhHHHH----
Confidence            344566789999999999999999999976532 22222111111  222233 444  45679999966432211    


Q ss_pred             HHHHHHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           91 MEIVKCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        91 ~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                             ..+++.+|++++|+++++..+.. ...+++.+...... ...|+++|+||+|+....
T Consensus        84 -------~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~  139 (183)
T 3kkq_A           84 -------EQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDR-ESFPMILVANKVDLMHLR  139 (183)
T ss_dssp             -------HHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTS-SCCCEEEEEECTTCSTTC
T ss_pred             -------HHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCcEEEEEECCCchhcc
Confidence                   12344579999999998432222 13444444443222 236899999999987643

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.69  E-value=3.9e-16  Score=108.11  Aligned_cols=117  Identities=12%  Similarity=0.057  Sum_probs=75.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      .+..+|+++|.+|+|||||++++++.... ...    .|.......... ++..+.+|||||.....           ..
T Consensus        14 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~----~t~~~~~~~~~~-~~~~~~i~Dt~G~~~~~-----------~~   76 (187)
T 1zj6_A           14 HQEHKVIIVGLDNAGKTTILYQFSMNEVV-HTS----PTIGSNVEEIVI-NNTRFLMWDIGGQESLR-----------SS   76 (187)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCE-EEE----CCSCSSCEEEEE-TTEEEEEEECCC----C-----------GG
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC-cCc----CCCccceEEEEE-CCEEEEEEECCCCHhHH-----------HH
Confidence            45689999999999999999999976643 111    122222233444 67899999999976432           12


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~  152 (173)
                      ...++..+|++++|+|+++.-+...  ..+++.+....  ....|+++|+||+|+...
T Consensus        77 ~~~~~~~~d~ii~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  132 (187)
T 1zj6_A           77 WNTYYTNTEFVIVVVDSTDRERISV--TREELYKMLAHEDLRKAGLLIFANKQDVKEC  132 (187)
T ss_dssp             GHHHHTTCCEEEEEEETTCTTTHHH--HHHHHHHHHTSGGGTTCEEEEEEECTTSTTC
T ss_pred             HHHHhcCCCEEEEEEeCCCHHHHHH--HHHHHHHHHhchhhCCCeEEEEEECCCCcCC
Confidence            2345678899999999985533332  22233333322  123799999999999764

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=99.69  E-value=1.1e-16  Score=108.20  Aligned_cols=120  Identities=16%  Similarity=0.083  Sum_probs=73.9

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      +..+|+++|++|+|||||+|++++.... ....+...+..  ...... .+  ..+.+|||||....    ..       
T Consensus         2 ~~~~i~v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~--~~~~~~-~~~~~~~~l~D~~G~~~~----~~-------   66 (167)
T 1kao_A            2 REYKVVVLGSGGVGKSALTVQFVTGTFI-EKYDPTIEDFY--RKEIEV-DSSPSVLEILDTAGTEQF----AS-------   66 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCC-SCCCTTCCEEE--EEEEEE-TTEEEEEEEEECCCTTCC----HH-------
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCc-ccCCCCcceeE--EEEEEE-CCEEEEEEEEECCCchhh----HH-------
Confidence            3478999999999999999999976532 22112111111  222333 33  35899999997642    11       


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ....++..++++++|+++++..+.. ...+++.+.+.... ...|+++|+||+|+....
T Consensus        67 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~~~piilv~nK~Dl~~~~  124 (167)
T 1kao_A           67 MRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRY-EKVPVILVGNKVDLESER  124 (167)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTT-SCCCEEEEEECGGGGGGC
T ss_pred             HHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCC-CCCCEEEEEECCcccccc
Confidence            1123345669999999998432222 23444444444321 237999999999987543

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=99.69  E-value=1.3e-16  Score=110.24  Aligned_cols=119  Identities=16%  Similarity=0.077  Sum_probs=75.2

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      .....+|+++|.+|+|||||++.+++... .....+.......  ...... ....+.+|||||.....           
T Consensus         4 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~-~~~~~~t~~~~~~--~~~~~~~~~~~~~i~Dt~G~~~~~-----------   69 (184)
T 1m7b_A            4 QNVKCKIVVVGDSQCGKTALLHVFAKDCF-PENYVPTVFENYT--ASFEIDTQRIELSLWDTSGSPYYD-----------   69 (184)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCC-CSSCCCCSEEEEE--EEEECSSCEEEEEEEEECCSGGGT-----------
T ss_pred             CceEEEEEEECCCCCCHHHHHHHHhcCCC-CCCCCCccceeEE--EEEEECCEEEEEEEEECCCChhhh-----------
Confidence            34568999999999999999999998653 2221221111111  122221 22478999999965421           


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      .....++..+|++++|+|+++..+...  ..+++.+.+..+   ..|+++|.||+|+..
T Consensus        70 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~---~~piilv~nK~Dl~~  125 (184)
T 1m7b_A           70 NVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP---NTKMLLVGCKSDLRT  125 (184)
T ss_dssp             TTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCT---TCEEEEEEECGGGGG
T ss_pred             hhHHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHHCC---CCCEEEEEEcchhhc
Confidence            122346788999999999984332222  244455554422   379999999999875

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=99.69  E-value=1.4e-16  Score=111.71  Aligned_cols=124  Identities=18%  Similarity=0.090  Sum_probs=77.6

Q ss_pred             ccCCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHH
Q 043441           11 ELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEF   88 (173)
Q Consensus        11 ~~~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~   88 (173)
                      ...++.....+|+++|.+|+|||||++.+++..... ...+.......  ..... .+  ..+.+|||||....      
T Consensus        17 ~~~~m~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~-~~~~t~~~~~~--~~~~~-~~~~~~l~i~Dt~G~~~~------   86 (201)
T 2gco_A           17 RGSHMAAIRKKLVIVGDGACGKTCLLIVFSKDQFPE-VYVPTVFENYI--ADIEV-DGKQVELALWDTAGQEDY------   86 (201)
T ss_dssp             -----CCEEEEEEEEESTTSSHHHHHHHHHHSSCCS-SCCCSSCCCCE--EEEEE-TTEEEEEEEECCCCSGGG------
T ss_pred             CCCCCcccceEEEEECCCCCCHHHHHHHHHhCcCCc-ccCCcccceEE--EEEEE-CCEEEEEEEEECCCchhH------
Confidence            345556777899999999999999999999766422 21111111111  12233 33  37899999996532      


Q ss_pred             HHHHHHHHHHhccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           89 VGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                           ......++..+|++++|+|+++..+...  ..+++.+.+...   ..|+++|+||+|+...
T Consensus        87 -----~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~piilv~nK~Dl~~~  144 (201)
T 2gco_A           87 -----DRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP---NVPIILVGNKKDLRQD  144 (201)
T ss_dssp             -----TTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHST---TCCEEEEEECGGGTTC
T ss_pred             -----HHHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC---CCCEEEEEecHHhhcC
Confidence                 1222356788999999999984322222  345555554322   3799999999999865

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=99.69  E-value=2e-16  Score=124.13  Aligned_cols=128  Identities=16%  Similarity=0.164  Sum_probs=68.8

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      .+.+|+++|.+|+|||||+|+|++....... ...+.|.......+.. .+..+.+|||||+.++....+   .......
T Consensus       232 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~vs-~~~gtT~d~~~~~i~~-~g~~l~liDT~G~~~~~~~ve---~~gi~~~  306 (476)
T 3gee_A          232 EGVSTVIAGKPNAGKSTLLNTLLGQERAIVS-HMPGTTRDYIEECFIH-DKTMFRLTDTAGLREAGEEIE---HEGIRRS  306 (476)
T ss_dssp             HCEEEEEECCTTSSHHHHHHHCC-------------------CEEEEE-TTEEEEEEC----------------------
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCcccC-CCCCceEEEEEEEEEE-CCeEEEEEECCCCCcchhHHH---HHHHHHH
Confidence            3467999999999999999999987532111 1233444444455556 788999999999976432111   1112233


Q ss_pred             HhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ..++..+|++++|+|+++..+.........+.+.+.   ..|+++|+||+|+....
T Consensus       307 ~~~~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~l~---~~piIvV~NK~Dl~~~~  359 (476)
T 3gee_A          307 RMKMAEADLILYLLDLGTERLDDELTEIRELKAAHP---AAKFLTVANKLDRAANA  359 (476)
T ss_dssp             -CCCSSCSEEEEEEETTTCSSGGGHHHHHHHHHHCT---TSEEEEEEECTTSCTTT
T ss_pred             HhhcccCCEEEEEEECCCCcchhhhHHHHHHHHhcC---CCCEEEEEECcCCCCcc
Confidence            457889999999999987666532212222222222   37999999999998764

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.69  E-value=2.4e-16  Score=109.67  Aligned_cols=118  Identities=17%  Similarity=0.092  Sum_probs=77.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      ....+|+++|.+|+|||||++.+++... .....+......  ...... .+  ..+.+|||||......          
T Consensus        16 ~~~~ki~v~G~~~~GKssli~~l~~~~~-~~~~~~t~~~~~--~~~~~~-~~~~~~~~i~D~~G~~~~~~----------   81 (194)
T 2atx_A           16 ALMLKCVVVGDGAVGKTCLLMSYANDAF-PEEYVPTVFDHY--AVSVTV-GGKQYLLGLYDTAGQEDYDR----------   81 (194)
T ss_dssp             EEEEEEEEEECTTSSHHHHHHHHHHSSC-CCSCCCSSCCCE--EEEEES-SSCEEEEEEECCCCSSSSTT----------
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCC-CCCCCCccccee--EEEEEE-CCEEEEEEEEECCCCcchhH----------
Confidence            3567999999999999999999997653 222222111111  112232 33  4788999999875422          


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                       ....++..+|++++|+|+++..+...  ..++..+.+..+   ..|+++|+||+|+...
T Consensus        82 -~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~piilv~nK~Dl~~~  137 (194)
T 2atx_A           82 -LRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAP---NVPFLLIGTQIDLRDD  137 (194)
T ss_dssp             -TGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHST---TCCEEEEEECTTSTTC
T ss_pred             -HHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC---CCCEEEEEEChhhccc
Confidence             22356788999999999984322222  245555555432   3799999999999764

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=99.69  E-value=1.3e-16  Score=108.01  Aligned_cols=120  Identities=16%  Similarity=0.115  Sum_probs=73.5

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ..+|+++|.+|+|||||+|++++.... ....+......  ....... ....+.+|||||......    ..       
T Consensus         3 ~~ki~v~G~~~~GKssli~~l~~~~~~-~~~~~t~~~~~--~~~~~~~~~~~~~~l~D~~G~~~~~~----~~-------   68 (167)
T 1c1y_A            3 EYKLVVLGSGGVGKSALTVQFVQGIFV-EKYDPTIEDSY--RKQVEVDCQQCMLEILDTAGTEQFTA----MR-------   68 (167)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCC-CSCCCCSEEEE--EEEEESSSCEEEEEEEEECSSCSSTT----HH-------
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCCCC-CCCCCCccceE--EEEEEECCEEEEEEEEECCChHHHHH----HH-------
Confidence            478999999999999999999976532 22111111111  1122221 234689999999775421    11       


Q ss_pred             HhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ..++..+|++++|+++++..+.. ...+++.+.+.... ...|+++|+||+|+....
T Consensus        69 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~~~piilv~nK~Dl~~~~  124 (167)
T 1c1y_A           69 DLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDT-EDVPMILVGNKCDLEDER  124 (167)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCC-SCCCEEEEEECTTCGGGC
T ss_pred             HHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCc-CCCcEEEEEECccccccc
Confidence            12344579999999998432222 13455555554322 237899999999997643

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=99.69  E-value=1.1e-15  Score=106.35  Aligned_cols=117  Identities=12%  Similarity=0.030  Sum_probs=76.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      .+..+|+++|.+|+|||||++++++....  .   ...|.......... ++..+.+|||||.....           ..
T Consensus        21 ~~~~ki~~vG~~~vGKSsli~~l~~~~~~--~---~~~t~~~~~~~~~~-~~~~~~i~Dt~G~~~~~-----------~~   83 (190)
T 1m2o_B           21 NKHGKLLFLGLDNAGKTTLLHMLKNDRLA--T---LQPTWHPTSEELAI-GNIKFTTFDLGGHIQAR-----------RL   83 (190)
T ss_dssp             ---CEEEEEESTTSSHHHHHHHHHHSCCC--C---CCCCCSCEEEEEEE-TTEEEEEEECCCSGGGT-----------TS
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCC--c---cccCCCCCeEEEEE-CCEEEEEEECCCCHHHH-----------HH
Confidence            45679999999999999999999976532  1   11222223344555 67899999999976432           12


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~  152 (173)
                      ...+++.+|++++|+|+++..+...  ..+++.+....  ....|+++|+||+|+...
T Consensus        84 ~~~~~~~~d~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  139 (190)
T 1m2o_B           84 WKDYFPEVNGIVFLVDAADPERFDE--ARVELDALFNIAELKDVPFVILGNKIDAPNA  139 (190)
T ss_dssp             GGGGCTTCCEEEEEEETTCGGGHHH--HHHHHHHHHTCGGGTTCCEEEEEECTTSTTC
T ss_pred             HHHHHhcCCEEEEEEECCChHHHHH--HHHHHHHHHcchhhcCCCEEEEEECCCCcCC
Confidence            2356788999999999985433222  22333333221  133799999999999763

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=99.69  E-value=2.5e-16  Score=108.03  Aligned_cols=120  Identities=20%  Similarity=0.167  Sum_probs=74.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEE-EEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM-QRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGME   92 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~   92 (173)
                      .....+|+++|.+|+|||||+|+|++.... ....   .|..... ..... .+  ..+.+|||||.........     
T Consensus         6 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~-~~~~---~t~~~~~~~~~~~-~~~~~~~~~~Dt~G~~~~~~~~~-----   75 (181)
T 2fn4_A            6 PSETHKLVVVGGGGVGKSALTIQFIQSYFV-SDYD---PTIEDSYTKICSV-DGIPARLDILDTAGQEEFGAMRE-----   75 (181)
T ss_dssp             SSCEEEEEEEECTTSSHHHHHHHHHHSSCC-SSCC---TTCCEEEEEEEEE-TTEEEEEEEEECCCTTTTSCCHH-----
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCcCc-cccC---CCcCceEEEEEEE-CCEEEEEEEEECCCchhhHHHHH-----
Confidence            456689999999999999999999986532 2211   1221111 22333 43  3788999999775432221     


Q ss_pred             HHHHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           93 IVKCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        93 ~~~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                            .++..+|++++|+++++..+.. ...++..+...... ...|+++|+||+|+...
T Consensus        76 ------~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~  129 (181)
T 2fn4_A           76 ------QYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDR-DDFPVVLVGNKADLESQ  129 (181)
T ss_dssp             ------HHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTS-SCCCEEEEEECGGGGGG
T ss_pred             ------HHHhhCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCC-CCCCEEEEEECcccccc
Confidence                  2334569999999998432222 12344444333221 23689999999998764

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=99.68  E-value=9e-16  Score=105.92  Aligned_cols=119  Identities=13%  Similarity=0.088  Sum_probs=79.0

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      .+....+|+++|.+|+|||||++.+++....  .   ...|.......... .+..+.+|||||...           +.
T Consensus        12 ~~~~~~ki~ivG~~~vGKSsL~~~l~~~~~~--~---~~~t~g~~~~~~~~-~~~~l~i~Dt~G~~~-----------~~   74 (181)
T 1fzq_A           12 APDQEVRILLLGLDNAGKTTLLKQLASEDIS--H---ITPTQGFNIKSVQS-QGFKLNVWDIGGQRK-----------IR   74 (181)
T ss_dssp             CCSSCEEEEEEESTTSSHHHHHHHHCCSCCE--E---EEEETTEEEEEEEE-TTEEEEEEECSSCGG-----------GH
T ss_pred             cCCCceEEEEECCCCCCHHHHHHHHhcCCCC--c---ccCcCCeEEEEEEE-CCEEEEEEECCCCHH-----------HH
Confidence            3466799999999999999999999986531  1   11222222334445 678899999999653           22


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~  152 (173)
                      .....++..+|++++|+|+++.-+...  ..+++.+.+..  ....|+++|+||+|+...
T Consensus        75 ~~~~~~~~~~~~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  132 (181)
T 1fzq_A           75 PYWRSYFENTDILIYVIDSADRKRFEE--TGQELTELLEEEKLSCVPVLIFANKQDLLTA  132 (181)
T ss_dssp             HHHHHHHTTCSEEEEEEETTCGGGHHH--HHHHHHHHTTCGGGTTCCEEEEEECTTSTTC
T ss_pred             HHHHHHhCCCCEEEEEEECcCHHHHHH--HHHHHHHHHhChhhcCCCEEEEEECcCcccC
Confidence            333456778999999999984433222  22333333322  123799999999999865

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=99.68  E-value=1.6e-16  Score=118.27  Aligned_cols=124  Identities=17%  Similarity=0.186  Sum_probs=83.8

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCC-CCCCCcHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF-DFSAGSEFVGMEIVK   95 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~-~~~~~~~~~~~~~~~   95 (173)
                      .+...++++|++|+|||||+|+|++....... .....|.......... .+..+.++||||+. ..   ...+...+..
T Consensus         6 ~r~~~VaIvG~~nvGKSTLln~L~g~~~~i~s-~~~~tTr~~~~gi~~~-~~~~i~~iDTpG~~~~~---~~~l~~~~~~   80 (301)
T 1ega_A            6 SYCGFIAIVGRPNVGKSTLLNKLLGQKISITS-RKAQTTRHRIVGIHTE-GAYQAIYVDTPGLHMEE---KRAINRLMNK   80 (301)
T ss_dssp             CEEEEEEEECSSSSSHHHHHHHHHTCSEEECC-CCSSCCSSCEEEEEEE-TTEEEEEESSSSCCHHH---HHHHHHHHTC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHCCCccccC-CCCCcceeeEEEEEEE-CCeeEEEEECcCCCccc---hhhHHHHHHH
Confidence            34568999999999999999999997643221 1122232222222333 67789999999986 21   1223334444


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      .+..++..+|++++|+++++ ++..+...++.+..     ...|+++++||+|+..
T Consensus        81 ~~~~~l~~~D~vl~Vvd~~~-~~~~~~~i~~~l~~-----~~~P~ilvlNK~D~~~  130 (301)
T 1ega_A           81 AASSSIGDVELVIFVVEGTR-WTPDDEMVLNKLRE-----GKAPVILAVNKVDNVQ  130 (301)
T ss_dssp             CTTSCCCCEEEEEEEEETTC-CCHHHHHHHHHHHS-----SSSCEEEEEESTTTCC
T ss_pred             HHHHHHhcCCEEEEEEeCCC-CCHHHHHHHHHHHh-----cCCCEEEEEECcccCc
Confidence            44567889999999999985 87776654444332     2378999999999986

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=99.68  E-value=5.2e-16  Score=113.09  Aligned_cols=123  Identities=20%  Similarity=0.185  Sum_probs=81.8

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+|+++|.+|+|||||+|+|++..... + ..++.|.......... .+..+.+|||||+........  .+.+...
T Consensus         3 ~~~~kI~lvG~~nvGKTsL~n~l~g~~~~~-~-~~pg~tv~~~~~~~~~-~~~~~~l~DtpG~~~~~~~~~--~e~v~~~   77 (258)
T 3a1s_A            3 LHMVKVALAGCPNVGKTSLFNALTGTKQYV-A-NWPGVTVEKKEGVFTY-KGYTINLIDLPGTYSLGYSSI--DEKIARD   77 (258)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHTTCEEE-E-ECTTSCCEEEEEEEEE-TTEEEEEEECCCCSSCCSSSH--HHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCCcc-c-CCCCceEEEEEEEEEE-CCeEEEEEECCCcCccCCCCH--HHHHHHH
Confidence            345789999999999999999999977432 2 2335566655555655 678999999999987644321  1112111


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .. ....+|++++|+|++ .+.. ...+...+.+   .  ..|+++|+||+|+...
T Consensus        78 ~~-~~~~~d~ii~V~D~t-~~~~-~~~~~~~l~~---~--~~pvilv~NK~Dl~~~  125 (258)
T 3a1s_A           78 YL-LKGDADLVILVADSV-NPEQ-SLYLLLEILE---M--EKKVILAMTAIDEAKK  125 (258)
T ss_dssp             HH-HHSCCSEEEEEEETT-SCHH-HHHHHHHHHT---T--TCCEEEEEECHHHHHH
T ss_pred             HH-hhcCCCEEEEEeCCC-chhh-HHHHHHHHHh---c--CCCEEEEEECcCCCCc
Confidence            11 115789999999998 4332 2233333332   2  3799999999998643

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=99.68  E-value=1.9e-16  Score=112.15  Aligned_cols=118  Identities=19%  Similarity=0.119  Sum_probs=65.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCc--eEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ--VVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      .+..+|+++|.+|+|||||++.+++.... ....+......  ...... .+.  .+.+|||||....           .
T Consensus        32 ~~~~ki~vvG~~~vGKSsli~~l~~~~~~-~~~~~t~~~~~--~~~~~~-~~~~~~l~l~Dt~G~~~~-----------~   96 (214)
T 2j1l_A           32 VRSVKVVLVGDGGCGKTSLLMVFADGAFP-ESYTPTVFERY--MVNLQV-KGKPVHLHIWDTAGQDDY-----------D   96 (214)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHC--------CCCCCEEE--EEEEEE-TTEEEEEEEEEC------------------
T ss_pred             cceEEEEEECcCCCCHHHHHHHHHcCCCC-CCCCCccceeE--EEEEEE-CCEEEEEEEEECCCchhh-----------h
Confidence            35689999999999999999999986632 22112111111  122233 333  6899999996532           2


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .....++..+|++++|+|+++..+...  ..+++.+....   ...|+++|+||+|+...
T Consensus        97 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~  153 (214)
T 2j1l_A           97 RLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFC---KKVPIIVVGCKTDLRKD  153 (214)
T ss_dssp             --------CEEEEEEEEETTCHHHHHHHHHTHHHHHHHHC---SSCCEEEEEECGGGGSC
T ss_pred             HHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhC---CCCCEEEEEEChhhhcc
Confidence            233356778999999999984322222  13444444432   23799999999999865

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=99.68  E-value=9.5e-16  Score=104.25  Aligned_cols=120  Identities=16%  Similarity=0.208  Sum_probs=73.5

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ..+++++|++|+|||||+|.|++.......  .++.+.......+.. .+..+.+|||||+.......  ..+.+.....
T Consensus         3 ~~~v~lvG~~gvGKStL~~~l~~~~~~~~~--~~~~t~~~~~~~~~~-~~~~l~i~Dt~G~~~~~~~~--~~~~~~~~~~   77 (165)
T 2wji_A            3 SYEIALIGNPNVGKSTIFNALTGENVYIGN--WPGVTVEKKEGEFEY-NGEKFKVVDLPGVYSLTANS--IDEIIARDYI   77 (165)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCCSSSCC-------CCCCCEEEEEE-TTEEEEEEECCCCSCSSSSS--HHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCeeccC--CCCcceeeeEEEEEE-CCcEEEEEECCCcccCCCcc--hhHHHHHHHH
Confidence            478999999999999999999987642221  122233333333444 67789999999988653222  1111211111


Q ss_pred             hccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      . ...++++++++|+++ .. ....++..+.+   .  ..|+++|.||+|+..
T Consensus        78 ~-~~~~~~~i~v~D~~~-~~-~~~~~~~~~~~---~--~~p~ilv~nK~Dl~~  122 (165)
T 2wji_A           78 I-NEKPDLVVNIVDATA-LE-RNLYLTLQLME---M--GANLLLALNKMDLAK  122 (165)
T ss_dssp             H-HHCCSEEEEEEETTC-HH-HHHHHHHHHHH---T--TCCEEEEEECHHHHH
T ss_pred             h-cCCCCEEEEEecCCc-hh-HhHHHHHHHHh---c--CCCEEEEEEchHhcc
Confidence            1 126799999999983 21 12233333333   2  378999999999864

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=99.68  E-value=6.9e-16  Score=109.25  Aligned_cols=119  Identities=13%  Similarity=0.049  Sum_probs=75.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceee--EEEEEEeeC-----------CceEEEEeCCCCCCCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTC--EMQRTVLKD-----------GQVVNVIDTPGLFDFS   83 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~--~~~~~~~~~-----------~~~~~v~DtpG~~~~~   83 (173)
                      ....+|+++|.+|+|||||+|+|++.... ..   ...|...  ......+..           ...+.+|||||.    
T Consensus        23 ~~~~ki~vvG~~~~GKSsLi~~l~~~~~~-~~---~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~----   94 (217)
T 2f7s_A           23 DYLIKLLALGDSGVGKTTFLYRYTDNKFN-PK---FITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQ----   94 (217)
T ss_dssp             SEEEEEEEESCTTSSHHHHHHHHHCSCCC-CE---EEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESH----
T ss_pred             ceeEEEEEECcCCCCHHHHHHHHhcCCCC-cC---CCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCc----
Confidence            45689999999999999999999986531 11   1112211  112222211           357999999993    


Q ss_pred             CCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc--ccceEEEEEeCCCCCCC
Q 043441           84 AGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK--VFDYMIVVFTGGDELED  152 (173)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~  152 (173)
                             .++......++..+|++++|+|+++..+.  .....++.+.....  ...|+++|+||+|+...
T Consensus        95 -------~~~~~~~~~~~~~~d~iilV~D~~~~~s~--~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~  156 (217)
T 2f7s_A           95 -------ERFRSLTTAFFRDAMGFLLMFDLTSQQSF--LNVRNWMSQLQANAYCENPDIVLIGNKADLPDQ  156 (217)
T ss_dssp             -------HHHHHHHHHHHTTCCEEEEEEETTCHHHH--HHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGG
T ss_pred             -------HhHHhHHHHHhcCCCEEEEEEECcCHHHH--HHHHHHHHHHHHhcCcCCCCEEEEEECCccccc
Confidence                   23444555677889999999999843211  12223333332211  23789999999998764

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=99.68  E-value=1.6e-16  Score=109.60  Aligned_cols=118  Identities=19%  Similarity=0.084  Sum_probs=76.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      .+..+|+++|.+|+|||||++++++.... ....+......  ...... .+  ..+.+|||||....           .
T Consensus         3 ~~~~~i~~~G~~~~GKssl~~~l~~~~~~-~~~~~t~~~~~--~~~~~~-~~~~~~~~i~Dt~G~~~~-----------~   67 (186)
T 1mh1_A            3 PQAIKCVVVGDGAVGKTCLLISYTTNAFP-GEYIPTVFDNY--SANVMV-DGKPVNLGLWDTAGQEDY-----------D   67 (186)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCC-SSCCCCSCCEE--EEEEEE-TTEEEEEEEECCCCSGGG-----------T
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHcCCCC-CCcCCccccee--EEEEEE-CCEEEEEEEEECCCCHhH-----------H
Confidence            34679999999999999999999876532 22111111111  112222 33  35679999997642           1


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHHH--HHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEEE--AALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .....++..+|++++|+|+++..+....  .+++.+.+..+   ..|+++|+||+|+...
T Consensus        68 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~piilv~nK~Dl~~~  124 (186)
T 1mh1_A           68 RLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCP---NTPIILVGTKLDLRDD  124 (186)
T ss_dssp             TTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHST---TSCEEEEEECHHHHTC
T ss_pred             HHHHHhccCCcEEEEEEECCChhhHHHHHHHHHHHHHHhCC---CCCEEEEeEccccccc
Confidence            2233567889999999999843332221  35555555432   3799999999998764

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=99.68  E-value=5e-16  Score=108.24  Aligned_cols=118  Identities=10%  Similarity=0.039  Sum_probs=75.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      ..+..+|+++|.+|+|||||++.+++.... ..    ..|.......... .+..+.+|||||......           
T Consensus        26 ~~~~~ki~v~G~~~vGKSsLi~~l~~~~~~-~~----~~t~~~~~~~~~~-~~~~~~i~Dt~G~~~~~~-----------   88 (192)
T 2b6h_A           26 GKKQMRILMVGLDAAGKTTILYKLKLGEIV-TT----IPTIGFNVETVEY-KNICFTVWDVGGQDKIRP-----------   88 (192)
T ss_dssp             TTSCEEEEEEESTTSSHHHHHHHHCSSCCE-EE----EEETTEEEEEEEE-TTEEEEEEECC-----CT-----------
T ss_pred             cCCccEEEEECCCCCCHHHHHHHHHhCCcc-cc----CCcCceeEEEEEE-CCEEEEEEECCCCHhHHH-----------
Confidence            456789999999999999999999876532 11    1233333344455 678999999999764321           


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc--ccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK--VFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~  152 (173)
                      ....++..+|++++|+|+++..+..  ...+++.+.....  ...|+++|+||+|+...
T Consensus        89 ~~~~~~~~~d~iilv~D~~~~~s~~--~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~  145 (192)
T 2b6h_A           89 LWRHYFQNTQGLIFVVDSNDRERVQ--ESADELQKMLQEDELRDAVLLVFANKQDMPNA  145 (192)
T ss_dssp             THHHHHHTCCEEEEEEETTCGGGHH--HHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             HHHHHhccCCEEEEEEECCCHHHHH--HHHHHHHHHhcccccCCCeEEEEEECCCCCCC
Confidence            1223456789999999998443222  2223344433321  23799999999998765

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.68  E-value=1.4e-16  Score=111.13  Aligned_cols=120  Identities=22%  Similarity=0.137  Sum_probs=74.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      ....+|+++|.+|+|||||+|+|++...........+.+ ...  .... .+  ..+.+|||||....    .       
T Consensus         6 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~-~~~--~~~~-~~~~~~~~l~Dt~G~~~~----~-------   70 (199)
T 2gf0_A            6 SNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDT-YRQ--VISC-DKSVCTLQITDTTGSHQF----P-------   70 (199)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEE-EEE--EEEE-TTEEEEEEEEECCGGGSC----H-------
T ss_pred             CCeeEEEEECCCCCcHHHHHHHHHcCCCCCcccCccccc-eeE--EEEE-CCEEEEEEEEeCCChHHh----H-------
Confidence            345899999999999999999999765322111111111 111  1222 32  37899999996642    1       


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      .....++..+|++++|+++++..+... ..+++.+.+........|+++|+||+|+..
T Consensus        71 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~  128 (199)
T 2gf0_A           71 AMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQ  128 (199)
T ss_dssp             HHHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSS
T ss_pred             HHHHHhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCc
Confidence            112234456799999999984322221 345555555543223379999999999875

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=99.68  E-value=7.3e-16  Score=107.93  Aligned_cols=117  Identities=12%  Similarity=0.052  Sum_probs=73.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      ..+..+|+++|++|+|||||++++++.... . ..   .|.......... ++..+.+|||||......           
T Consensus        22 ~~~~~ki~lvG~~~vGKSsLi~~l~~~~~~-~-~~---~t~~~~~~~~~~-~~~~l~i~Dt~G~~~~~~-----------   84 (198)
T 1f6b_A           22 YKKTGKLVFLGLDNAGKTTLLHMLKDDRLG-Q-HV---PTLHPTSEELTI-AGMTFTTFDLGGHIQARR-----------   84 (198)
T ss_dssp             TTCCEEEEEEEETTSSHHHHHHHHSCC-----------CCCCCSCEEEEE-TTEEEEEEEECC----CC-----------
T ss_pred             cCCCcEEEEECCCCCCHHHHHHHHhcCCCC-c-cC---CCCCceeEEEEE-CCEEEEEEECCCcHhhHH-----------
Confidence            345678999999999999999999986632 1 11   121112234445 678999999999764322           


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELE  151 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~  151 (173)
                      ....+++.+|++++|+|+++.-+..  ....++.+....  ....|+++|+||+|+..
T Consensus        85 ~~~~~~~~~d~~i~v~D~~~~~s~~--~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  140 (198)
T 1f6b_A           85 VWKNYLPAINGIVFLVDCADHERLL--ESKEELDSLMTDETIANVPILILGNKIDRPE  140 (198)
T ss_dssp             GGGGGGGGCSEEEEEEETTCGGGHH--HHHHHHHHHHTCGGGTTSCEEEEEECTTSTT
T ss_pred             HHHHHHhcCCEEEEEEECCCHHHHH--HHHHHHHHHHhCcccCCCcEEEEEECCCccc
Confidence            2335677899999999998443222  222333333322  12379999999999975

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.67  E-value=2.3e-16  Score=110.10  Aligned_cols=127  Identities=16%  Similarity=0.087  Sum_probs=74.5

Q ss_pred             CcccCCC-CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCC
Q 043441            9 DWELTSP-SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAG   85 (173)
Q Consensus         9 ~~~~~~~-~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~   85 (173)
                      ++...+. ..+..+|+++|.+|+|||||++++++.... ....+...+..  ...... .+  ..+.+|||||...    
T Consensus        17 ~~~~~~~~~~~~~ki~v~G~~~vGKSsli~~l~~~~~~-~~~~~t~~~~~--~~~~~~-~~~~~~~~l~Dt~G~~~----   88 (196)
T 2atv_A           17 NLYFQSMAKSAEVKLAIFGRAGVGKSALVVRFLTKRFI-WEYDPTLESTY--RHQATI-DDEVVSMEILDTAGQED----   88 (196)
T ss_dssp             ----------CCEEEEEECCTTSSHHHHHHHHHHSCCC-SCCCTTCCEEE--EEEEEE-TTEEEEEEEEECCCCCC----
T ss_pred             ccchhccCCCCceEEEEECCCCCCHHHHHHHHHhCCCC-cccCCCCCceE--EEEEEE-CCEEEEEEEEECCCCCc----
Confidence            3333443 356789999999999999999999986532 22112111111  112222 33  4689999999875    


Q ss_pred             cHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           86 SEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .. ..       ..++..++++++|+|+++.-+.. ...+++.+.+.... ...|+++|+||+|+...
T Consensus        89 ~~-~~-------~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~~-~~~piilv~NK~Dl~~~  147 (196)
T 2atv_A           89 TI-QR-------EGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKP-KNVTLILVGNKADLDHS  147 (196)
T ss_dssp             CH-HH-------HHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTT-SCCCEEEEEECGGGGGG
T ss_pred             cc-ch-------hhhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhhCC-CCCcEEEEEECcccccc
Confidence            11 11       12344569999999998432222 13445555554321 23789999999999764

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=99.67  E-value=3e-16  Score=108.41  Aligned_cols=119  Identities=18%  Similarity=0.163  Sum_probs=72.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCc--eEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ--VVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      +..+|+++|.+|+|||||+|+|++.... ....+  .+.......... .+.  .+.+|||||........         
T Consensus         3 ~~~ki~v~G~~~~GKSsli~~l~~~~~~-~~~~~--t~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~---------   69 (189)
T 4dsu_A            3 TEYKLVVVGADGVGKSALTIQLIQNHFV-DEYDP--TIEDSYRKQVVI-DGETCLLDILDTAGQEEYSAMR---------   69 (189)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSSCC-CCCCT--TCCEEEEEEEEE-TTEEEEEEEEECCCC---CTTH---------
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHhCCCC-CCCCC--CchheEEEEEEE-CCcEEEEEEEECCCcHHHHHHH---------
Confidence            4579999999999999999999976632 22111  112222222333 444  47789999976543221         


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                        ..++..+|++++|+++++..+.. ...++..+...... ...|+++|+||+|+...
T Consensus        70 --~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~~p~i~v~nK~Dl~~~  124 (189)
T 4dsu_A           70 --DQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDS-EDVPMVLVGNKCDLPSR  124 (189)
T ss_dssp             --HHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTC-SCCCEEEEEECTTSSSC
T ss_pred             --HHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCcEEEEEECccCccc
Confidence              12344579999999998432222 23444444443222 23799999999998753

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=99.67  E-value=5.1e-16  Score=107.62  Aligned_cols=120  Identities=16%  Similarity=0.113  Sum_probs=71.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      ..+..+|+++|.+|+|||||+|.|++.... .....  .+.......... .+  ..+.+|||||...           +
T Consensus        18 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~-~~~~~--t~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~-----------~   82 (190)
T 3con_A           18 GMTEYKLVVVGAGGVGKSALTIQLIQNHFV-DEYDP--TIEDSYRKQVVI-DGETCLLDILDTAGQEE-----------Y   82 (190)
T ss_dssp             -CEEEEEEEECSTTSSHHHHHHHHHHSSCC-SCCCT--TCCEEEEEEEEE-TTEEEEEEEEECCC---------------
T ss_pred             ccceeEEEEECcCCCCHHHHHHHHHcCCCc-cccCC--ccceEEEEEEEE-CCEEEEEEEEECCChHH-----------H
Confidence            345689999999999999999999976532 22111  111111122333 33  3588999999653           2


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      ......++..++++++|+++.+..+..+ ..+++.+...... ...|+++|+||+|+..
T Consensus        83 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~~~p~ilv~nK~Dl~~  140 (190)
T 3con_A           83 SAMRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDS-DDVPMVLVGNKCDLPT  140 (190)
T ss_dssp             -------CTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTC-SCCCEEEEEECTTCSC
T ss_pred             HHHHHHhhCcCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCC-CCCeEEEEEECCcCCc
Confidence            2233456788999999999984432222 3444445444321 2379999999999875

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.67  E-value=2.7e-16  Score=110.77  Aligned_cols=119  Identities=20%  Similarity=0.118  Sum_probs=75.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      .....+|+++|.+|+|||||+|.|++.... ....+......  ...... .+  ..+.+|||||......         
T Consensus        22 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~-~~~~~t~~~~~--~~~~~~-~~~~~~~~i~Dt~G~~~~~~---------   88 (207)
T 2fv8_A           22 SMIRKKLVVVGDGACGKTCLLIVFSKDEFP-EVYVPTVFENY--VADIEV-DGKQVELALWDTAGQEDYDR---------   88 (207)
T ss_dssp             GSEEEEEEEEECTTSSHHHHHHHHHHSSCC--------CCEE--EEEEEE-TTEEEEEEEEECTTCTTCTT---------
T ss_pred             cccCcEEEEECcCCCCHHHHHHHHhcCCCC-CcCCCcccceE--EEEEEE-CCEEEEEEEEECCCcHHHHH---------
Confidence            345679999999999999999999986632 11111111111  112233 33  4789999999765421         


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                        ....++..+|++++|+++++..+...  ..+++.+.+..+   ..|+++|+||+|+...
T Consensus        89 --~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~piilv~nK~Dl~~~  144 (207)
T 2fv8_A           89 --LRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCP---NVPIILVANKKDLRSD  144 (207)
T ss_dssp             --TGGGGCTTCCEEEEEEETTCHHHHHHHHHTHHHHHHHHST---TCCEEEEEECGGGGGC
T ss_pred             --HHHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC---CCCEEEEEEchhhhcc
Confidence              22356788999999999984322221  345555555322   3789999999999765

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=99.67  E-value=7.3e-16  Score=115.10  Aligned_cols=140  Identities=14%  Similarity=0.139  Sum_probs=81.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCC---Cc---cceee--------------------------------
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASS---SG---VTSTC--------------------------------   58 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~---~~---~t~~~--------------------------------   58 (173)
                      ...++|+++|.+|+|||||+|+|+|...+..+...   .+   .+...                                
T Consensus        22 ~~~~~I~vvG~~~~GKSTlln~l~g~~~lp~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (315)
T 1jwy_B           22 LDLPQIVVVGSQSSGKSSVLENIVGRDFLPRGSGIVTRRPLILQLTHLPIADDGSQTQEWGEFLHKPNDMFYDFSEIREE  101 (315)
T ss_dssp             TCCCEEEEEECSSSSHHHHHHHHHTSCCCCC--------CEEEEEEECCCCTTSCCCCCEEEESSSTTCCBCCTHHHHHH
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHHCCCcCCCCCCceeeeeEEEEEEeCCCcccccchhhhhhhhcccccccCCHHHHHHH
Confidence            45689999999999999999999998753322110   00   00000                                


Q ss_pred             -------------------EEEEEEeeCCceEEEEeCCCCCCCCC--CcHHHHHHHHHHHHhccCCceEEEEEeec-CCC
Q 043441           59 -------------------EMQRTVLKDGQVVNVIDTPGLFDFSA--GSEFVGMEIVKCIGLAKDGIHAVLVGFSV-RSR  116 (173)
Q Consensus        59 -------------------~~~~~~~~~~~~~~v~DtpG~~~~~~--~~~~~~~~~~~~~~~~~~~~~~ii~v~~~-~~~  116 (173)
                                         ....+..+.+..+.+|||||+.....  ..+.....+...+..++..+|++++|+++ +..
T Consensus       102 i~~~~~~~~g~~~~~~~~~~~~~i~~~~~~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~  181 (315)
T 1jwy_B          102 IIRDTDRMTGKNKGISAQPINLKIYSPHVVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTD  181 (315)
T ss_dssp             HHHHCC--------CCCCCEEEEEEETTSCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSC
T ss_pred             HHHHHHHhcCCCCCccCccEEEEEecCCCCCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcc
Confidence                               00001221346799999999975221  11223344555666677788999999987 334


Q ss_pred             CCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHHHhc
Q 043441          117 FPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLG  162 (173)
Q Consensus       117 ~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~  162 (173)
                      +...+ ...++.+..     ...|+++|+||+|+..... ...++++
T Consensus       182 ~~~~~~~~i~~~~~~-----~~~~~i~v~NK~Dl~~~~~-~~~~~~~  222 (315)
T 1jwy_B          182 LANSDALQLAKEVDP-----EGKRTIGVITKLDLMDKGT-DAMEVLT  222 (315)
T ss_dssp             STTCSHHHHHHHHCS-----SCSSEEEEEECTTSSCSSC-CCHHHHT
T ss_pred             hhhhHHHHHHHHhCC-----CCCcEEEEEcCcccCCcch-HHHHHHh
Confidence            44333 233333322     2378999999999987642 2344444

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=99.67  E-value=3.4e-16  Score=110.31  Aligned_cols=118  Identities=16%  Similarity=0.068  Sum_probs=75.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      ....+|+++|.+|+|||||++.+++.... ....+......  ....... ....+.+|||||.....           .
T Consensus        26 ~~~~ki~vvG~~~vGKSsLi~~l~~~~~~-~~~~~t~~~~~--~~~~~~~~~~~~l~i~Dt~G~~~~~-----------~   91 (205)
T 1gwn_A           26 NVKCKIVVVGDSQCGKTALLHVFAKDCFP-ENYVPTVFENY--TASFEIDTQRIELSLWDTSGSPYYD-----------N   91 (205)
T ss_dssp             -CEEEEEEEESTTSSHHHHHHHHHHSCCC-SSCCCCSEEEE--EEEEESSSSEEEEEEEEECCSGGGT-----------T
T ss_pred             ceeeEEEEECCCCCCHHHHHHHHhcCCCC-CCcCCccceeE--EEEEEECCEEEEEEEEeCCCcHhhh-----------H
Confidence            45689999999999999999999986532 22111111111  1122221 23478999999965421           1


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      ....++..++++++|+|+++..+...  ..+++.+.+...   ..|+++|+||+|+..
T Consensus        92 ~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~i~~~~~---~~piilv~nK~Dl~~  146 (205)
T 1gwn_A           92 VRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP---NTKMLLVGCKSDLRT  146 (205)
T ss_dssp             TGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCT---TCEEEEEEECGGGGG
T ss_pred             HHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCC---CCCEEEEEechhhcc
Confidence            22356788999999999984332222  244455554422   379999999999874

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=99.66  E-value=5.7e-16  Score=107.67  Aligned_cols=127  Identities=9%  Similarity=0.046  Sum_probs=78.2

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCC------CCccceeeEEEEE---Ee-eCCceEEEEeCCCCCCCCC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRAS------SSGVTSTCEMQRT---VL-KDGQVVNVIDTPGLFDFSA   84 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~------~~~~t~~~~~~~~---~~-~~~~~~~v~DtpG~~~~~~   84 (173)
                      ......+|+++|.+|+|||||++.+.+.........      ....|........   .. .....+.+|||||..... 
T Consensus        10 ~~~~~~ki~vvG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~-   88 (198)
T 3t1o_A           10 NREINFKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVFYN-   88 (198)
T ss_dssp             TTEEEEEEEEECSTTSSHHHHHHHHHHTSCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEECCSCCSCS-
T ss_pred             ccccccEEEEECCCCCCHHHHHHHHHhhccccccccccccccccccceeeeecccccccccCCceEEEEEeCCChHHHH-
Confidence            345668999999999999999998887543211110      0112222222111   11 022368999999976531 


Q ss_pred             CcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc----cccceEEEEEeCCCCCCC
Q 043441           85 GSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK----KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~~iv~tk~D~~~~  152 (173)
                                .....+++.+|++++|+|+++.........++.+.+++..    ....|+++|+||+|+...
T Consensus        89 ----------~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~piilv~NK~Dl~~~  150 (198)
T 3t1o_A           89 ----------ASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLDDVPIVIQVNKRDLPDA  150 (198)
T ss_dssp             ----------HHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTCCTTSSCEEEEEECTTSTTC
T ss_pred             ----------HHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhccccCCCCEEEEEEchhcccc
Confidence                      1223467889999999999844444444444444443321    134799999999998765

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=99.66  E-value=2.2e-16  Score=109.70  Aligned_cols=121  Identities=17%  Similarity=0.121  Sum_probs=73.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      .+..+|+++|.+|+|||||+++|++...........+.+.  ........ ....+.+|||||.......          
T Consensus        13 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~--~~~~~~~~~~~~~~~i~Dt~G~~~~~~~----------   80 (195)
T 1x3s_A           13 LTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDF--KVKTISVDGNKAKLAIWDTAGQERFRTL----------   80 (195)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEE--EEEEEEETTEEEEEEEEEECSSGGGCCS----------
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEE--EEEEEEECCeEEEEEEEeCCCchhhhhh----------
Confidence            3458999999999999999999998663222111112222  22222331 2357899999996643221          


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                       ...+++.+|++++|+|+++..+... ..+++.+..... ....|+++|+||+|+..
T Consensus        81 -~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~~p~ilv~nK~Dl~~  135 (195)
T 1x3s_A           81 -TPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCT-RNDIVNMLVGNKIDKEN  135 (195)
T ss_dssp             -HHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCCS-CSCCEEEEEEECTTSSS
T ss_pred             -hHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcC-cCCCcEEEEEECCcCcc
Confidence             2245678899999999984322211 233333332211 12378999999999854

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=99.66  E-value=2.6e-16  Score=110.66  Aligned_cols=119  Identities=20%  Similarity=0.101  Sum_probs=75.2

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCc--eEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ--VVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      ..+..+|+++|.+|+|||||++.+++.... ....+  .+.......... .+.  .+.+|||||....           
T Consensus        27 ~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~-~~~~~--t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~-----------   91 (204)
T 4gzl_A           27 QGQAIKCVVVGDGAVGKTCLLISYTTNAFP-GEYIP--TVFDNYSANVMV-DGKPVNLGLWDTAGLEDY-----------   91 (204)
T ss_dssp             ---CEEEEEEESTTSSHHHHHHHHHHSCCC-C-CCC--CSEEEEEEEEEC-C-CEEEEEEEEECCSGGG-----------
T ss_pred             cCCeEEEEEECcCCCCHHHHHHHHHhCCCC-CCcCC--eecceeEEEEEE-CCEEEEEEEEECCCchhh-----------
Confidence            356789999999999999999999975532 22111  111222222233 343  4569999997532           


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHHH--HHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEEE--AALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ......++..+|++++|+|+++..+....  .+++.+....   ...|+++|+||+|+...
T Consensus        92 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~  149 (204)
T 4gzl_A           92 DRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC---PNTPIILVGTKLDLRDD  149 (204)
T ss_dssp             TTTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHC---SSCCEEEEEECHHHHTC
T ss_pred             HHHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC---CCCCEEEEEechhhccc
Confidence            22334578899999999999844333322  3455555442   23799999999998865

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=99.66  E-value=4.8e-16  Score=105.64  Aligned_cols=121  Identities=20%  Similarity=0.092  Sum_probs=67.5

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ..+|+++|.+|+|||||++++++........  ...+.......... .+  ..+.+|||||......       .+.  
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~~~~~~~~~--~~~~~~~~~~~~~~-~~~~~~~~i~D~~g~~~~~~-------~~~--   69 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHE--MENSEDTYERRIMV-DKEEVTLIVYDIWEQGDAGG-------WLQ--   69 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCC--------------CEEEEEEEE-TTEEEEEEEECCCCC-----------------
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhccCccccc--CCCcCCeeeEEEEE-CCeEEEEEEEECCCccccch-------hhh--
Confidence            3689999999999999999998755321111  11222222233333 33  4678999999875311       011  


Q ss_pred             HHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                       ..++..+|++++|+++++.-+.. ...++..+...... ...|+++|+||+|+....
T Consensus        70 -~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~  125 (169)
T 3q85_A           70 -DHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPH-HDLPVILVGNKSDLARSR  125 (169)
T ss_dssp             -CHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSTT-SCCCEEEEEECTTCGGGC
T ss_pred             -hhhhccCCEEEEEEECCChHHHHHHHHHHHHHHhcccC-CCCCEEEEeeCcchhhcc
Confidence             12344579999999998432211 12344444433221 137999999999987543

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.66  E-value=7.5e-16  Score=107.05  Aligned_cols=122  Identities=10%  Similarity=0.094  Sum_probs=73.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+|+++|.+|+|||||+|.|++....... .....+..     ... ....+.+|||||.........       ..
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~~~~~~~-~~~~~~~~-----~~~-~~~~~~l~Dt~G~~~~~~~~~-------~~  111 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTV-VSQEPLSA-----ADY-DGSGVTLVDFPGHVKLRYKLS-------DY  111 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHSSCC------------------CC-CCTTCSEEEETTCCBSSCCHH-------HH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCccc-ccCCCcee-----eee-cCCeEEEEECCCCchHHHHHH-------HH
Confidence            56689999999999999999999986532211 01111111     111 456788999999876543222       11


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc-----cccceEEEEEeCCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK-----KVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~~iv~tk~D~~~~~  153 (173)
                      +......+|++++|+|++ .-........+++.+.+..     ....|+++|+||+|+....
T Consensus       112 ~~~~~~~~~~~i~v~d~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~  172 (193)
T 2ged_A          112 LKTRAKFVKGLIFMVDST-VDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTAR  172 (193)
T ss_dssp             HHHHGGGEEEEEEEEETT-CCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCC
T ss_pred             HHhhcccCCEEEEEEECC-CCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCCC
Confidence            222334579999999997 2122222333334333321     1237999999999998763

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=99.66  E-value=1e-15  Score=106.22  Aligned_cols=120  Identities=21%  Similarity=0.109  Sum_probs=72.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEE-EEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM-QRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGME   92 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~   92 (173)
                      .....+|+++|.+|+|||||++.+++... .....+   |..... ..... .+  ..+.+|||||......    +   
T Consensus        18 ~~~~~ki~vvG~~~vGKTsLi~~l~~~~~-~~~~~~---t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~~----~---   85 (187)
T 3c5c_A           18 GPLEVNLAILGRRGAGKSALTVKFLTKRF-ISEYDP---NLEDTYSSEETV-DHQPVHLRVMDTADLDTPRN----C---   85 (187)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSSC-CSCCCT---TCCEEEEEEEEE-TTEEEEEEEEECCC---CCC----T---
T ss_pred             CCceEEEEEECCCCCcHHHHHHHHHhCCC-CcccCC---CccceeeEEEEE-CCEEEEEEEEECCCCCcchh----H---
Confidence            45668999999999999999999997663 222221   211111 12222 33  4688999999765422    1   


Q ss_pred             HHHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcc-cccceEEEEEeCCCCCCC
Q 043441           93 IVKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGK-KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        93 ~~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~-~~~~~~~iv~tk~D~~~~  152 (173)
                           ..++..++++++|+++++.-+... ..+++.+...... ....|+++|+||+|+...
T Consensus        86 -----~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~  142 (187)
T 3c5c_A           86 -----ERYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQY  142 (187)
T ss_dssp             -----HHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGG
T ss_pred             -----HHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhc
Confidence                 124567899999999984322222 3444445443211 023789999999998754

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=99.66  E-value=1.3e-16  Score=124.78  Aligned_cols=123  Identities=22%  Similarity=0.208  Sum_probs=75.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      .+.+|+++|++|+|||||+|+|++....... ...+.|.......... ++..+.+|||||+.+.....+..   .....
T Consensus       223 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~-~~~gtT~d~~~~~i~~-~g~~v~liDT~G~~~~~~~ve~~---gi~~~  297 (462)
T 3geh_A          223 TGLKVAIVGRPNVGKSSLLNAWSQSDRAIVT-DLPGTTRDVVESQLVV-GGIPVQVLDTAGIRETSDQVEKI---GVERS  297 (462)
T ss_dssp             HCEEEEEEECTTSSHHHHHHHHHHHHBSCCS-CCTTCCHHHHHHEEEE-TTEEEEECC----------------------
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCccccc-CCCCeeEEEEEEEEEE-CCEEEEEEECCccccchhHHHHH---HHHHH
Confidence            4567999999999999999999986532111 1223343333334455 78899999999997642222211   11223


Q ss_pred             HhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...+..+|++++|+|+++..+..+..+++.+.    .   .|+++|+||+|+...
T Consensus       298 ~~~~~~aD~vl~VvD~s~~~~~~~~~i~~~l~----~---~piivV~NK~Dl~~~  345 (462)
T 3geh_A          298 RQAANTADLVLLTIDAATGWTTGDQEIYEQVK----H---RPLILVMNKIDLVEK  345 (462)
T ss_dssp             -CCCCSCSEEEEEEETTTCSCHHHHHHHHHHT----T---SCEEEEEECTTSSCG
T ss_pred             hhhhhcCCEEEEEeccCCCCCHHHHHHHHhcc----C---CcEEEEEECCCCCcc
Confidence            35678899999999999777777655544432    2   689999999999865

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=99.66  E-value=1.5e-16  Score=113.10  Aligned_cols=124  Identities=18%  Similarity=0.066  Sum_probs=77.4

Q ss_pred             CCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           14 SPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      .......+|+++|.+|+|||||+|.++............+.+.......... ....+.+|||||........       
T Consensus        10 ~~~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~i~Dt~G~~~~~~~~-------   81 (221)
T 3gj0_A           10 GEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNR-GPIKFNVWDTAGQEKFGGLR-------   81 (221)
T ss_dssp             TCCCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETT-EEEEEEEEEECSGGGTSCCC-------
T ss_pred             CCcccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECC-EEEEEEEEeCCChHHHhHHH-------
Confidence            3445678999999999999999999654331111122222333333333222 33578999999965432221       


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                          ..+++.+|++++|+++++..+... ..++..+.+...   ..|+++|+||+|+...
T Consensus        82 ----~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~---~~p~ilv~nK~Dl~~~  134 (221)
T 3gj0_A           82 ----DGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE---NIPIVLCGNKVDIKDR  134 (221)
T ss_dssp             ----HHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHST---TCCEEEEEECTTSSSC
T ss_pred             ----HHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhCC---CCCEEEEEECCccccc
Confidence                235668899999999984322221 345555555422   3799999999998754

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8

Probab=99.65  E-value=2e-16  Score=119.47  Aligned_cols=126  Identities=17%  Similarity=0.124  Sum_probs=78.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      .|+|+|.+|||||||+|+|++......  .....|.......+.......+.++||||+.+.......+..++.+.+   
T Consensus       160 ~V~lvG~~nvGKSTLln~L~~~~~~i~--~~~ftTl~p~~g~v~~~~~~~~~l~DtPG~i~~a~~~~~l~~~fl~~i---  234 (342)
T 1lnz_A          160 DVGLVGFPSVGKSTLLSVVSSAKPKIA--DYHFTTLVPNLGMVETDDGRSFVMADLPGLIEGAHQGVGLGHQFLRHI---  234 (342)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEES--STTSSCCCCCEEEEECSSSCEEEEEEHHHHHHHTTCTTTTHHHHHHHH---
T ss_pred             eeeeeCCCCCCHHHHHHHHHcCCCccc--cCCccccCceEEEEEeCCCceEEEecCCCCcccccccchhHHHHHHHH---
Confidence            589999999999999999998653222  222233333344455523478999999998653333333444444333   


Q ss_pred             cCCceEEEEEeecCC---CCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          101 KDGIHAVLVGFSVRS---RFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~---~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                       .+++++++|+|+++   +-...+ ..+++.+..........|+++|+||+|+...
T Consensus       235 -~~~d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~  289 (342)
T 1lnz_A          235 -ERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEA  289 (342)
T ss_dssp             -HHCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTH
T ss_pred             -HhccEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCCC
Confidence             34699999999984   222222 3444444443211134799999999999864

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=99.65  E-value=6e-16  Score=106.12  Aligned_cols=113  Identities=16%  Similarity=0.062  Sum_probs=72.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      .+..+|+++|.+|+|||||++.+++.....  ..+.......  ..... .+  ..+.+|||||...             
T Consensus         5 ~~~~ki~~vG~~~vGKTsli~~l~~~~~~~--~~~t~~~~~~--~~~~~-~~~~~~l~i~Dt~G~~~-------------   66 (178)
T 2iwr_A            5 IPELRLGVLGDARSGKSSLIHRFLTGSYQV--LEKTESEQYK--KEMLV-DGQTHLVLIREEAGAPD-------------   66 (178)
T ss_dssp             CCEEEEEEECCGGGCHHHHHHHHHHSCCCC--CSSCSSSEEE--EEEEE-TTEEEEEEEEECSSSCC-------------
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCC--cCCCcceeEE--EEEEE-CCEEEEEEEEECCCCch-------------
Confidence            456899999999999999999999866422  2221122211  22223 33  3688999999764             


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHccc-ccceEEEEEeCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKK-VFDYMIVVFTGGDEL  150 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~-~~~~~~iv~tk~D~~  150 (173)
                         ..+++.+|++++|+|+++..+... ..+++++.+..... ...|+++|.||+|+.
T Consensus        67 ---~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~  121 (178)
T 2iwr_A           67 ---AKFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRIS  121 (178)
T ss_dssp             ---HHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCB
T ss_pred             ---hHHHHhCCEEEEEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc
Confidence               123445799999999984433222 34444555543311 236999999999984

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.65  E-value=2.3e-15  Score=104.12  Aligned_cols=124  Identities=16%  Similarity=0.191  Sum_probs=77.8

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      ++.+..+|+++|++|+|||||+|.|++...+...  .++.+.......... .+..+.+|||||.........  ...+.
T Consensus         3 ~~~~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~--~~~~t~~~~~~~~~~-~~~~~~l~Dt~G~~~~~~~~~--~~~~~   77 (188)
T 2wjg_A            3 SHMKSYEIALIGNPNVGKSTIFNALTGENVYIGN--WPGVTVEKKEGEFEY-NGEKFKVVDLPGVYSLTANSI--DEIIA   77 (188)
T ss_dssp             CCCCEEEEEEECSTTSSHHHHHHHHHTTCEEEEE--CTTSCCEEEEEEEEE-TTEEEEEEECCCCSCCSSSSH--HHHHH
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHhCCCccccC--CCCeeccceEEEEEe-CCcEEEEEECCCcCccccccH--HHHHH
Confidence            3446689999999999999999999987643222  223344444445555 678999999999886532211  11111


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      ..... ...++++++++|.+ .+ .....+   +.+....  ..|+++|+||+|+..
T Consensus        78 ~~~~~-~~~~~~~i~v~d~~-~~-~~~~~~---~~~~~~~--~~piilv~nK~Dl~~  126 (188)
T 2wjg_A           78 RDYII-NEKPDLVVNIVDAT-AL-ERNLYL---TLQLMEM--GANLLLALNKMDLAK  126 (188)
T ss_dssp             HHHHH-HHCCSEEEEEEEGG-GH-HHHHHH---HHHHHTT--TCCEEEEEECHHHHH
T ss_pred             HHHHh-ccCCCEEEEEecch-hH-HHHHHH---HHHHHhc--CCCEEEEEEhhhccc
Confidence            11111 12478999999997 32 112233   3333222  378999999999864

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.65  E-value=3.2e-17  Score=114.80  Aligned_cols=120  Identities=18%  Similarity=0.163  Sum_probs=72.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      ....+|+++|.+|+|||||+|+|++........  ...+.......... .+  ..+.+|||||........        
T Consensus        31 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~--~~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~--------   99 (199)
T 3l0i_B           31 DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYI--STIGVDFKIRTIEL-DGKTIKLQIWDTAGQERFRTIT--------   99 (199)
T ss_dssp             SEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHH--HHHCCSEEEEEEEE-TTEEEEEEEECCTTCTTCCCCS--------
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCCCCCCcC--CcccceEEEEEEEE-CCEEEEEEEEECCCcHhHHHHH--------
Confidence            456899999999999999999999865322111  12222233333444 44  478999999976543221        


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                         ..++..+|++++|+|+++..+... ..+++.+.....  ...|+++|+||+|+...
T Consensus       100 ---~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p~ilv~nK~Dl~~~  153 (199)
T 3l0i_B          100 ---SSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYAS--ENVNKLLVGNKCDLTTK  153 (199)
T ss_dssp             ---CC--CCCSEEEECC-CCCSHHHHHHHHHHHHHHSCC---CCSEEEEC-CCSSCC--
T ss_pred             ---HHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcc--CCCCEEEEEECccCCcc
Confidence               246778999999999985332221 233333333221  23799999999998754

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.65  E-value=4.3e-16  Score=120.53  Aligned_cols=125  Identities=19%  Similarity=0.161  Sum_probs=83.1

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCc-eEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ-VVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      .....+|+++|.+|+|||||+|+|++....... ...+.|.......... .+. .+.+|||||+.+............ 
T Consensus        31 ~~~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~-~~~gtT~d~~~~~~~~-~~~~~l~liDTpG~~d~~~l~~~~~~~~-  107 (423)
T 3qq5_A           31 AGFRRYIVVAGRRNVGKSSFMNALVGQNVSIVS-DYAGTTTDPVYKSMEL-HPIGPVTLVDTPGLDDVGELGRLRVEKA-  107 (423)
T ss_dssp             -CCCEEEEEECSCSTTTTTTTTSSCC--------------CCCCEEEEEE-TTTEEEEEEECSSTTCCCTTCCCCHHHH-
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHcCCCCccC-CCCCeeeeeEEEEEEE-CCCCeEEEEECcCCCcccchhHHHHHHH-
Confidence            345689999999999999999999987642222 2334455555555665 444 899999999987643322212222 


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                         ..++..+|++++|+|+  ........+++.+.+.     ..|+++|+||+|+....
T Consensus       108 ---~~~l~~aD~vllVvD~--~~~~~~~~~l~~l~~~-----~~piIvV~NK~Dl~~~~  156 (423)
T 3qq5_A          108 ---RRVFYRADCGILVTDS--APTPYEDDVVNLFKEM-----EIPFVVVVNKIDVLGEK  156 (423)
T ss_dssp             ---HHHHTSCSEEEEECSS--SCCHHHHHHHHHHHHT-----TCCEEEECCCCTTTTCC
T ss_pred             ---HHHHhcCCEEEEEEeC--CChHHHHHHHHHHHhc-----CCCEEEEEeCcCCCCcc
Confidence               2456678999999998  4556666777777665     27899999999998775

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.65  E-value=8.9e-15  Score=111.23  Aligned_cols=128  Identities=19%  Similarity=0.100  Sum_probs=85.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+++++|.+|+|||||+|.|++.......  ....|.......... .+..+.++||||+.+......... + ...
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~~~~~~~--~~~~t~~~~~~~~~~-~~~~~~l~Dt~G~~~~~~~~~~~~-~-~~~  239 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTAKPEIAS--YPFTTRGINVGQFED-GYFRYQIIDTPGLLDRPISERNEI-E-KQA  239 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSSCCEEEC--CTTCSSCEEEEEEEE-TTEEEEEEECTTTSSSCSTTSCHH-H-HHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCC--CCCeeeceeEEEEEe-cCceEEEEeCCCccccchhhhhHH-H-HHH
Confidence            56789999999999999999999987632121  223444444444544 677899999999976432211111 1 112


Q ss_pred             HHhccCCceEEEEEeecCCCC--CHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRF--PQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~--~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +......+|++++|+|+++..  +.. ...+++.+...++   ..|+++|+||+|+...
T Consensus       240 ~~~~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~---~~piilV~NK~Dl~~~  295 (357)
T 2e87_A          240 ILALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFK---DLPFLVVINKIDVADE  295 (357)
T ss_dssp             HHGGGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTT---TSCEEEEECCTTTCCH
T ss_pred             HHHHHhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcC---CCCEEEEEECcccCCh
Confidence            223445689999999987443  333 3566666666543   3789999999998864

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=99.65  E-value=2.6e-16  Score=108.23  Aligned_cols=118  Identities=19%  Similarity=0.122  Sum_probs=70.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEE-EEEEe-eCCceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM-QRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~-~~~~~-~~~~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      ....+|+++|.+|+|||||++++++... .....   .|..... ..... .....+.+|||||.....           
T Consensus         6 ~~~~ki~v~G~~~~GKssl~~~~~~~~~-~~~~~---~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~-----------   70 (182)
T 3bwd_D            6 SRFIKCVTVGDGAVGKTCLLISYTSNTF-PTDYV---PTVFDNFSANVVVNGATVNLGLWDTAGQEDYN-----------   70 (182)
T ss_dssp             -CCCEEEEECSTTSSHHHHHHHHHHSCC-C-------------CBCCCC-------CEEECCCC-CTTT-----------
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCC-CCCCC---CeeeeeEEEEEEECCEEEEEEEEECCCChhhh-----------
Confidence            4568999999999999999999987652 22211   1111110 01111 023456799999976532           


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .....++..+|++++|+|+++..+...  ..+++.+....+   ..|+++|+||+|+...
T Consensus        71 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~piilv~nK~Dl~~~  127 (182)
T 3bwd_D           71 RLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAP---GVPIVLVGTKLDLRDD  127 (182)
T ss_dssp             TTGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCT---TCCEEEEEECHHHHTC
T ss_pred             hhHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC---CCCEEEEEechhhhcC
Confidence            222356778999999999984333222  135555555432   3799999999998765

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.65  E-value=6.9e-16  Score=108.87  Aligned_cols=118  Identities=19%  Similarity=0.151  Sum_probs=76.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      ....+|+++|.+|+|||||++.+++... .....+......  ...... .+  ..+.+|||||......          
T Consensus         7 ~~~~ki~i~G~~~~GKTsli~~l~~~~~-~~~~~~t~~~~~--~~~~~~-~~~~~~~~i~Dt~G~~~~~~----------   72 (212)
T 2j0v_A            7 SKFIKCVTVGDGAVGKTCMLICYTSNKF-PTDYIPTVFDNF--SANVAV-DGQIVNLGLWDTAGQEDYSR----------   72 (212)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHSCC-CSSCCCSSCCCE--EEEEEC-SSCEEEEEEECCCCCCCCCC----------
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCC-CccCCCccceeE--EEEEEE-CCEEEEEEEEECCCcHHHHH----------
Confidence            4568999999999999999999997653 222211111111  112222 33  4789999999875432          


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                       ....++..+|++++|+|+++..+...  ..+++.+....+   ..|+++|+||+|+...
T Consensus        73 -~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~---~~piilv~nK~Dl~~~  128 (212)
T 2j0v_A           73 -LRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAP---NVPIVLVGTKLDLRDD  128 (212)
T ss_dssp             ---CGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCT---TCCEEEEEECHHHHTC
T ss_pred             -HHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC---CCCEEEEEeCHHhhhC
Confidence             12246788999999999984322222  245555554422   3799999999998764

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=99.65  E-value=5e-16  Score=104.82  Aligned_cols=117  Identities=19%  Similarity=0.178  Sum_probs=71.7

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ..+|+++|.+|+|||||+|.+++.... ....+.....  ....... .+  ..+.+|||||.....    ...      
T Consensus         3 ~~~i~v~G~~~~GKssl~~~l~~~~~~-~~~~~~~~~~--~~~~~~~-~~~~~~~~~~D~~G~~~~~----~~~------   68 (166)
T 2ce2_X            3 EYKLVVVGAGGVGKSALTIQLIQNHFV-DECDPTIEDS--YRKQVVI-DGETCLLDILDTAGQEEYS----AMR------   68 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCC-SCCCTTCCEE--EEEEEEE-TTEEEEEEEEECCCCSSCC----HHH------
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCcCc-cccCCccceE--EEEEEEE-CCEEEEEEEEECCCchhhh----HHH------
Confidence            468999999999999999999976532 2211111111  1122222 33  357899999976532    111      


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                       ..++..+|++++|+++++..+... ..+++.+.+.... ...|+++|+||+|+..
T Consensus        69 -~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~-~~~p~iiv~nK~Dl~~  122 (166)
T 2ce2_X           69 -DQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDS-DDVPMVLVGNKSDLAA  122 (166)
T ss_dssp             -HHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTC-SCCCEEEEEECTTCSC
T ss_pred             -HHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCcEEEEEEchhhhh
Confidence             123445799999999974322221 3444445444321 1379999999999876

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.64  E-value=6.6e-15  Score=109.07  Aligned_cols=132  Identities=14%  Similarity=0.114  Sum_probs=78.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCC---Ccc----------------------cee--------------
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASS---SGV----------------------TST--------------   57 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~---~~~----------------------t~~--------------   57 (173)
                      ...++|+++|.+|+|||||+|+|++..........   .+.                      ++.              
T Consensus        24 ~~~~~i~vvG~~~~GKSSLln~l~g~~~~~~~~~~~t~~p~~~~~~~~~~~~~~~~~~~g~~~tt~~~~~~~~~~~~~~i  103 (299)
T 2aka_B           24 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  103 (299)
T ss_dssp             CCCCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEeCCCCCHHHHHHHHHCCCcCCCCCCcccccceEEEEecCCcccchhhhcCCcccCCHHHHHHHHHHHHHHh
Confidence            45689999999999999999999997753221100   010                      000              


Q ss_pred             ----------eEEEEEEeeCCceEEEEeCCCCCCCCC--CcHHHHHHHHHHHHhccCCceEEE-EEeecCCCCCHHHH-H
Q 043441           58 ----------CEMQRTVLKDGQVVNVIDTPGLFDFSA--GSEFVGMEIVKCIGLAKDGIHAVL-VGFSVRSRFPQEEE-A  123 (173)
Q Consensus        58 ----------~~~~~~~~~~~~~~~v~DtpG~~~~~~--~~~~~~~~~~~~~~~~~~~~~~ii-~v~~~~~~~~~~~~-~  123 (173)
                                ........+....+.+|||||+.....  ..+.....+...+..++..++.++ +|+++++.+...+. .
T Consensus       104 ~g~~~gi~~~~~~~~~~~~~~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~  183 (299)
T 2aka_B          104 TGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALK  183 (299)
T ss_dssp             CSSTTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHH
T ss_pred             cccCCCccccceEEEEeCCCCCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHH
Confidence                      000111121246899999999986321  012222234444445555666555 78899766555543 2


Q ss_pred             HHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441          124 ALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus       124 ~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      +++.+.   .  ...|+++|+||+|+....
T Consensus       184 ~~~~~~---~--~~~~~i~V~NK~Dl~~~~  208 (299)
T 2aka_B          184 IAKEVD---P--QGQRTIGVITKLDLMDEG  208 (299)
T ss_dssp             HHHHHC---T--TCSSEEEEEECGGGSCTT
T ss_pred             HHHHhC---C--CCCeEEEEEEccccCCCC
Confidence            333322   1  237899999999998653

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=99.63  E-value=5.7e-15  Score=108.28  Aligned_cols=121  Identities=19%  Similarity=0.199  Sum_probs=79.7

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ..+|+++|++|+|||||+|+|+|... ..+ ..++.|.........+ .+..+.+|||||+.+.......  ..+.... 
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~~~-~~~-~~~~~t~~~~~~~~~~-~~~~~~l~DtpG~~~~~~~~~~--~~~~~~~-   76 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGLRQ-HVG-NWPGVTVEKKEGIMEY-REKEFLVVDLPGIYSLTAHSID--ELIARNF-   76 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTTCE-EEE-ECTTSSCEEEEEEEEE-TTEEEEEEECCCCSCCCSSCHH--HHHHHHH-
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCc-ccC-CCCCeEEEeeEEEEEE-CCceEEEEeCCCccccccCCHH--HHHHHHh-
Confidence            57899999999999999999999864 222 2344555555556666 7788999999999875442221  1111111 


Q ss_pred             hccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      .....+|++++|+|++ .. .....+...+.+.    ...|+++|+||+|+..
T Consensus        77 ~~~~~~d~vi~v~D~~-~~-~~~~~~~~~~~~~----~~~p~ilv~NK~Dl~~  123 (271)
T 3k53_A           77 ILDGNADVIVDIVDST-CL-MRNLFLTLELFEM----EVKNIILVLNKFDLLK  123 (271)
T ss_dssp             HHTTCCSEEEEEEEGG-GH-HHHHHHHHHHHHT----TCCSEEEEEECHHHHH
T ss_pred             hhccCCcEEEEEecCC-cc-hhhHHHHHHHHhc----CCCCEEEEEEChhcCc
Confidence            1236789999999998 32 1222332223322    1178999999999653

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=99.63  E-value=9.9e-16  Score=106.07  Aligned_cols=116  Identities=18%  Similarity=0.084  Sum_probs=72.9

Q ss_pred             CCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHH
Q 043441           13 TSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVG   90 (173)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~   90 (173)
                      .....+..+|+++|.+|+|||||++.+++.... ....+.   .......... .+  ..+.+|||||.....       
T Consensus        14 ~~~~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~-~~~~~t---~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~-------   81 (184)
T 3ihw_A           14 LYFQGPELKVGIVGNLSSGKSALVHRYLTGTYV-QEESPE---GGRFKKEIVV-DGQSYLLLIRDEGGPPELQ-------   81 (184)
T ss_dssp             --CCCCEEEEEEECCTTSCHHHHHHHHHHSSCC-CCCCTT---CEEEEEEEEE-TTEEEEEEEEECSSSCCHH-------
T ss_pred             CCCCCCeeEEEEECCCCCCHHHHHHHHhcCCCC-CCcCCC---cceEEEEEEE-CCEEEEEEEEECCCChhhh-------
Confidence            334567789999999999999999999876632 222222   1111123333 44  357789999976521       


Q ss_pred             HHHHHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCC
Q 043441           91 MEIVKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDEL  150 (173)
Q Consensus        91 ~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~  150 (173)
                               +++.+|++++|+|+++..+... ..+++.+..... ....|+++|.||+|+.
T Consensus        82 ---------~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~~piilv~nK~Dl~  132 (184)
T 3ihw_A           82 ---------FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRN-ASEVPMVLVGTQDAIS  132 (184)
T ss_dssp             ---------HHHHCSEEEEEEETTCHHHHHHHHHHHHHHHTTSC-GGGSCEEEEEECTTCB
T ss_pred             ---------eecCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEECcccc
Confidence                     3345799999999984332222 334444433211 1347999999999985

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=99.63  E-value=5.8e-15  Score=112.37  Aligned_cols=127  Identities=13%  Similarity=0.092  Sum_probs=76.6

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ..++++++|++|+|||||+|.|++.......  ....|.......+.+ .+..+.++||||+...  ....+...+...+
T Consensus       178 ~~~~V~lvG~~naGKSTLln~L~~~~~~~~~--~~~~T~d~~~~~i~~-~g~~v~l~DT~G~i~~--lp~~lve~f~~tl  252 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFNSLTGLTQKVDT--KLFTTMSPKRYAIPI-NNRKIMLVDTVGFIRG--IPPQIVDAFFVTL  252 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHHHHHCC-------------CCSCEEEEEE-TTEEEEEEECCCBCSS--CCGGGHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCccccC--CcccccCCEEEEEEE-CCEEEEEEeCCCchhc--CCHHHHHHHHHHH
Confidence            3445999999999999999999997642221  223444444445555 6788999999998642  1122333343333


Q ss_pred             HhccCCceEEEEEeecCCCC--CHHHH-HHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRF--PQEEE-AALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~--~~~~~-~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                       ..+..+|.+++|+|+++..  ..... .+.+.+.+. +. ...|+++|.||+|++..
T Consensus       253 -~~~~~aD~il~VvD~s~~~~~~~~~~~~~~~~L~~l-~~-~~~p~ilV~NK~Dl~~~  307 (364)
T 2qtf_A          253 -SEAKYSDALILVIDSTFSENLLIETLQSSFEILREI-GV-SGKPILVTLNKIDKING  307 (364)
T ss_dssp             -HGGGGSSEEEEEEETTSCHHHHHHHHHHHHHHHHHH-TC-CSCCEEEEEECGGGCCS
T ss_pred             -HHHHhCCEEEEEEECCCCcchHHHHHHHHHHHHHHh-Cc-CCCCEEEEEECCCCCCc
Confidence             3466889999999997442  11111 223333332 21 12689999999999865

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.63  E-value=6.1e-16  Score=123.47  Aligned_cols=128  Identities=19%  Similarity=0.260  Sum_probs=78.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEE----------------------------------
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQR----------------------------------   62 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~----------------------------------   62 (173)
                      ...++|+|+|.+|+|||||+|+|++...........+.|.......                                  
T Consensus        63 ~~~~~V~vvG~~n~GKSTLIN~Llg~~~~~~~vs~~p~T~~~~~i~~~~~~~i~~g~~l~~~~~~~~~~L~~~g~~~~~~  142 (550)
T 2qpt_A           63 DGKPMVLVAGQYSTGKTSFIQYLLEQEVPGSRVGPEPTTDCFVAVMHGETEGTVPGNALVVDPEKPFRKLNPFGNTFLNR  142 (550)
T ss_dssp             SSCCEEEEEEBTTSCHHHHHHHHHTSCCSSCCCCSSCCCCSEEEEECCSSSEEECCC------------------CCCTT
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCccccCccCCCCccceEEEEEECCcccccCCceeeecCcccHHHHhhhccccccc
Confidence            4678999999999999999999999875311111122221111000                                  


Q ss_pred             ---EEeeCC---ceEEEEeCCCCCCCCCCcHHHHH--HHHHHHHhccCCceEEEEEeecCC-CCCHHHHHHHHHHHHHHc
Q 043441           63 ---TVLKDG---QVVNVIDTPGLFDFSAGSEFVGM--EIVKCIGLAKDGIHAVLVGFSVRS-RFPQEEEAALHSWQTLFG  133 (173)
Q Consensus        63 ---~~~~~~---~~~~v~DtpG~~~~~~~~~~~~~--~~~~~~~~~~~~~~~ii~v~~~~~-~~~~~~~~~~~~l~~~~~  133 (173)
                         ... ..   ..+.+|||||+.+....  ....  .+...+..++..+|++++|+|+++ ........+++.+...  
T Consensus       143 ~~~~~~-~~~ll~~l~lIDTPG~~~~~~~--~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~~--  217 (550)
T 2qpt_A          143 FMCAQL-PNQVLESISIIDTPGILSGAKQ--RVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRGH--  217 (550)
T ss_dssp             EEEEEC-CCHHHHHCEEEECCCBCC---------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTTC--
T ss_pred             ceEEec-cccccCCEEEEECcCCCCcchh--HHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHhc--
Confidence               000 00   36899999999863211  0110  033344445667899999999984 3555555665544331  


Q ss_pred             ccccceEEEEEeCCCCCCC
Q 043441          134 KKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       134 ~~~~~~~~iv~tk~D~~~~  152 (173)
                         ..++++|+||+|+...
T Consensus       218 ---~~pvilVlNK~Dl~~~  233 (550)
T 2qpt_A          218 ---EDKIRVVLNKADMVET  233 (550)
T ss_dssp             ---GGGEEEEEECGGGSCH
T ss_pred             ---CCCEEEEEECCCccCH
Confidence               2689999999999865

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.62  E-value=4.4e-15  Score=105.16  Aligned_cols=124  Identities=10%  Similarity=0.086  Sum_probs=74.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      .....+|+++|++|+|||||+++|++....... .....+...     .. ....+.+|||||+....       .....
T Consensus         9 ~~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~-~~~~~~~~~-----~~-~~~~~~l~Dt~G~~~~~-------~~~~~   74 (218)
T 1nrj_B            9 KSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTV-VSQEPLSAA-----DY-DGSGVTLVDFPGHVKLR-------YKLSD   74 (218)
T ss_dssp             -CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBC-CCSSCEEET-----TG-GGSSCEEEECCCCGGGT-------HHHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhcCCCCCee-eecCceEEE-----Ee-eCceEEEEECCCcHHHH-------HHHHH
Confidence            456789999999999999999999986632111 111111111     11 45678999999986431       12222


Q ss_pred             HHHhccCCceEEEEEeecC-CCCCHH-HHHHHHHHHHHHc--ccccceEEEEEeCCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVR-SRFPQE-EEAALHSWQTLFG--KKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~-~~~~~~-~~~~~~~l~~~~~--~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .+......+|++++|+|++ +.-+.. ...++..+.....  .....|+++|+||+|+....
T Consensus        75 ~~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~  136 (218)
T 1nrj_B           75 YLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTAR  136 (218)
T ss_dssp             HHHHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCC
T ss_pred             HHHhccccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccC
Confidence            2222223479999999998 322222 2233333333211  11237899999999998764

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=99.62  E-value=3.2e-15  Score=113.81  Aligned_cols=125  Identities=16%  Similarity=0.160  Sum_probs=83.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      +...+|+|||.+++|||||+|+|++.....  ...+..|.........+ .+..++++||||+............++...
T Consensus        70 ~g~a~V~ivG~PNvGKSTL~n~Lt~~~~~v--~~~pftT~~~~~g~~~~-~~~~i~l~D~pGl~~~a~~~~~~g~~~l~~  146 (376)
T 4a9a_A           70 TGVASVGFVGFPSVGKSTLLSKLTGTESEA--AEYEFTTLVTVPGVIRY-KGAKIQMLDLPGIIDGAKDGRGRGKQVIAV  146 (376)
T ss_dssp             CSSEEEEEECCCCHHHHHHHHHHHSBCCCG--GGTCSSCCCEEEEEEEE-TTEEEEEEECGGGCCC-----CHHHHHHHH
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhCCCCcc--cCCCCceeeeeeEEEEe-CCcEEEEEeCCCccCCchhhhHHHHHHHHH
Confidence            345689999999999999999999976422  33445666666666666 889999999999997655555555555544


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc-ccceEEEEEeCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK-VFDYMIVVFTGGDEL  150 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~~iv~tk~D~~  150 (173)
                      +.    .+|++++|+|+++..  .+...++.-.+.+... ...|..+++||.|+.
T Consensus       147 i~----~ad~il~vvD~~~p~--~~~~~i~~EL~~~~~~l~~k~~~i~~nK~d~~  195 (376)
T 4a9a_A          147 AR----TCNLLFIILDVNKPL--HHKQIIEKELEGVGIRLNKTPPDILIKKKEKG  195 (376)
T ss_dssp             HH----HCSEEEEEEETTSHH--HHHHHHHHHHHHTTEEETCCCCCEEEEECSSS
T ss_pred             HH----hcCccccccccCccH--HHHHHHHHHHHHhhHhhccCChhhhhhHhhhh
Confidence            44    569999999998432  2223332222332322 336888999999974

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=99.62  E-value=7.9e-15  Score=107.57  Aligned_cols=119  Identities=15%  Similarity=0.154  Sum_probs=75.4

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ..+|+++|.+|+|||||+|+|++...+...  .++.|.......+..  +..+.+|||||.........  .+.+.....
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~--~pg~tv~~~~~~~~~--~~~l~l~DtpG~~~~~~~~~--~e~v~~~~~   76 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLITGHNQRVGN--WPGVTVERKSGLVKK--NKDLEIQDLPGIYSMSPYSP--EAKVARDYL   76 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHCCCCCCCS--SSCCCCSCEEEECTT--CTTEEEEECCCCSCSSCSSH--HHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCCCcccC--CCCCcEEEEEEEEec--CCeEEEEECCCcCccCCCCh--HHHHHHHHH
Confidence            478999999999999999999997643222  234444433333322  56899999999987543221  112221111


Q ss_pred             hccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      . ...+|++++|+|++ ... ....+...+.+     ...|+++|+||+|+..
T Consensus        77 ~-~~~~d~vi~V~D~t-~~e-~~~~~~~~l~~-----~~~p~ilv~NK~Dl~~  121 (272)
T 3b1v_A           77 L-SQRADSILNVVDAT-NLE-RNLYLTTQLIE-----TGIPVTIALNMIDVLD  121 (272)
T ss_dssp             H-TTCCSEEEEEEEGG-GHH-HHHHHHHHHHH-----TCSCEEEEEECHHHHH
T ss_pred             h-cCCCCEEEEEecCC-chH-hHHHHHHHHHh-----cCCCEEEEEEChhhCC
Confidence            1 14689999999998 321 12233333333     2378999999999864

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=99.62  E-value=8.1e-15  Score=103.74  Aligned_cols=123  Identities=19%  Similarity=0.102  Sum_probs=73.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCC-ccccCCCCccceeeEEEEEEeeCCc--eEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRA-FKSRASSSGVTSTCEMQRTVLKDGQ--VVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~-~~~~~~~~~~t~~~~~~~~~~~~~~--~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      ....+|+|+|.+|+|||||+|.+++... +.....+.+.+....  .+.. .+.  .+.++||+|...      +    .
T Consensus        35 ~~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~~~~~g~d~~~~--~i~~-~~~~~~l~~~Dt~g~~~------~----~  101 (211)
T 2g3y_A           35 NTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYER--TLMV-DGESATIILLDMWENKG------E----N  101 (211)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEE--EEEE-TTEEEEEEEECCTTTTH------H----H
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCCCCcCCccceeeEEE--EEEE-CCeeeEEEEeecCCCcc------h----h
Confidence            3457899999999999999999997432 222222222222222  2333 443  567899998542      1    1


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ......+++.++++++|++.+++-+.+. ..+...+.+... ....|+++|.||+|+....
T Consensus       102 ~~l~~~~~~~a~~~ilVydvt~~~sf~~~~~~~~~l~~~~~-~~~~piilVgNK~DL~~~r  161 (211)
T 2g3y_A          102 EWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQ-TEDIPIILVGNKSDLVRCR  161 (211)
T ss_dssp             HHHHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGG-GTTSCEEEEEECTTCGGGC
T ss_pred             hhHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCcEEEEEEChHHhcCc
Confidence            1223456788999999999984322222 233333333211 1237999999999987543

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.62  E-value=5.9e-15  Score=111.05  Aligned_cols=116  Identities=11%  Similarity=0.029  Sum_probs=75.8

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ...+|+|+|.+|+|||||++.|++.... ..    ..|.......... .+..+.+|||||.....           ...
T Consensus       164 ~~~kI~ivG~~~vGKSsLl~~l~~~~~~-~~----~pT~~~~~~~~~~-~~~~l~i~Dt~G~~~~~-----------~~~  226 (329)
T 3o47_A          164 KEMRILMVGLDAAGKTTILYKLKLGEIV-TT----IPTIGFNVETVEY-KNISFTVWDVGGQDKIR-----------PLW  226 (329)
T ss_dssp             CSEEEEEEESTTSSHHHHHHHTCSSCCE-EE----EEETTEEEEEEEE-TTEEEEEEECC-----C-----------CSH
T ss_pred             CcceEEEECCCCccHHHHHHHHhCCCCC-Cc----ccccceEEEEEec-CcEEEEEEECCCCHhHH-----------HHH
Confidence            3458999999999999999999886632 21    1244444555555 77899999999955432           222


Q ss_pred             HhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc--ccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK--VFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~  152 (173)
                      ..++..+|++|+|+|+++.-+...  ..+++.+.....  ...|+++|+||+|+...
T Consensus       227 ~~~~~~ad~vilV~D~~~~~s~~~--~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~  281 (329)
T 3o47_A          227 RHYFQNTQGLIFVVDSNDRERVNE--AREELMRMLAEDELRDAVLLVFANKQDLPNA  281 (329)
T ss_dssp             HHHHTTEEEEEEEEETTCSSSHHH--HHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             HHHhccCCEEEEEEECCchHHHHH--HHHHHHHHHhhhccCCCeEEEEEECccCCcc
Confidence            345678899999999985444332  222333332221  23789999999999865

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.61  E-value=1.8e-15  Score=117.95  Aligned_cols=130  Identities=18%  Similarity=0.138  Sum_probs=77.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHH-H
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIV-K   95 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~-~   95 (173)
                      ....+++++|++|+|||||+|.|++....... ...+.|.........+ .+..+.+|||||+........+....+. .
T Consensus       178 ~~~~kvaivG~~gvGKSTLln~l~g~~~~~v~-~~~gtT~d~~~~~i~~-~g~~~~l~Dt~G~~~~~~~~~~~~e~~~~~  255 (439)
T 1mky_A          178 TDAIKVAIVGRPNVGKSTLFNAILNKERALVS-PIPGTTRDPVDDEVFI-DGRKYVFVDTAGLRRKSRVEPRTVEKYSNY  255 (439)
T ss_dssp             CSCEEEEEECSTTSSHHHHHHHHHTSTTEEEC-CCC------CCEEEEE-TTEEEEESSCSCC-----------CCSCCH
T ss_pred             ccCceEEEECCCCCCHHHHHHHHhCCcccccC-CCCCCcCCceEEEEEE-CCEEEEEEECCCCccccccchhhHHHHHHH
Confidence            34689999999999999999999997642222 2223343333344555 7788999999998542211100000000 0


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .....+..+|++++++|+.+..+..+....+.+.+     ...++++|+||+|+.+.+
T Consensus       256 ~~~~~i~~ad~vllv~d~~~~~~~~~~~i~~~l~~-----~~~~~ilv~NK~Dl~~~~  308 (439)
T 1mky_A          256 RVVDSIEKADVVVIVLDATQGITRQDQRMAGLMER-----RGRASVVVFNKWDLVVHR  308 (439)
T ss_dssp             HHHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHH-----TTCEEEEEEECGGGSTTG
T ss_pred             HHHHHHhhCCEEEEEEeCCCCCCHHHHHHHHHHHH-----cCCCEEEEEECccCCCch
Confidence            00123445699999999987777666544444433     227899999999998754

>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission, nucleotide-binding, endocytosis, motor protein; HET: GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A

Probab=99.61  E-value=1.2e-14  Score=110.45  Aligned_cols=140  Identities=16%  Similarity=0.143  Sum_probs=78.7

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCC--Cccc-----------------------e----------------
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASS--SGVT-----------------------S----------------   56 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~--~~~t-----------------------~----------------   56 (173)
                      ..++|+++|.+|+|||||+|+|+|......+...  ..++                       +                
T Consensus        30 ~~~~I~vvG~~~~GKSSLln~L~g~~~~p~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~tt~~~v~~~i~~~~~~i~  109 (353)
T 2x2e_A           30 DLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNATTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVT  109 (353)
T ss_dssp             CCCEEEEECBTTSSHHHHHHTTTTSCCSCCCSSSCCCSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhCCCcCCCCCCcccccceEEEEEcCCccceeeeecCCcccCCHHHHHHHHHHHHHHhc
Confidence            4579999999999999999999997753222111  0000                       0                


Q ss_pred             --------eeEEEEEEeeCCceEEEEeCCCCCCCCCC--cHHHHHHHHHHHHhccCCc-eEEEEEeecCCCCCHHHHHHH
Q 043441           57 --------TCEMQRTVLKDGQVVNVIDTPGLFDFSAG--SEFVGMEIVKCIGLAKDGI-HAVLVGFSVRSRFPQEEEAAL  125 (173)
Q Consensus        57 --------~~~~~~~~~~~~~~~~v~DtpG~~~~~~~--~~~~~~~~~~~~~~~~~~~-~~ii~v~~~~~~~~~~~~~~~  125 (173)
                              ......+..+....+.+|||||+......  .+.....+...+..++..+ ++++++++++..+...+.  .
T Consensus       110 g~~~gi~~~~~~~~i~~~~~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~~--~  187 (353)
T 2x2e_A          110 GTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDA--L  187 (353)
T ss_dssp             TTTTCCCCCCEEEEEEETTCCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCHH--H
T ss_pred             ccCCCcccCceEEEEecCCCCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhHH--H
Confidence                    00001112212467999999999863221  1222233344444444344 566667777644444432  2


Q ss_pred             HHHHHHHcccccceEEEEEeCCCCCCCCcccHHHHhc
Q 043441          126 HSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLG  162 (173)
Q Consensus       126 ~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~  162 (173)
                      +.+......  ..++++|+||+|++... ....++++
T Consensus       188 ~i~~~~~~~--~~~~i~V~NK~Dl~~~~-~~~~~~~~  221 (353)
T 2x2e_A          188 KVAKEVDPQ--GQRTIGVITKLDLMDEG-TDARDVLE  221 (353)
T ss_dssp             HHHHHHCTT--CTTEEEEEECGGGSCTT-CCCHHHHT
T ss_pred             HHHHHhCcC--CCceEEEeccccccCcc-hhHHHHHh
Confidence            333433222  37899999999998653 12344444

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=99.61  E-value=6e-15  Score=101.97  Aligned_cols=124  Identities=19%  Similarity=0.183  Sum_probs=70.9

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .+|+++|.+|+|||||+|++++... ..... ++.+.....  ... .  .+.+|||||+.....-.......+......
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~-~~~~~-~~~t~~~~~--~~~-~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~   74 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGKKV-RRGKR-PGVTRKIIE--IEW-K--NHKIIDMPGFGFMMGLPKEVQERIKDEIVH   74 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSCCC-SSSSS-TTCTTSCEE--EEE-T--TEEEEECCCBSCCTTSCHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcCC-ccCCC-CCccceeEE--Eec-C--CEEEEECCCccccccCCHHHHHHHHHHHHH
Confidence            5799999999999999999998763 22222 233333222  222 2  788999999765433222223333333333


Q ss_pred             c----cCCceEEEEEeecCCCCCHHHHHHHHH--------HHHHHcccccceEEEEEeCCCCCCC
Q 043441          100 A----KDGIHAVLVGFSVRSRFPQEEEAALHS--------WQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~----~~~~~~ii~v~~~~~~~~~~~~~~~~~--------l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +    ...+++++++++.. .+......+.+.        +...... ...|+++|+||+|+...
T Consensus        75 ~~~~~~~~~~~v~~v~d~~-s~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~  137 (190)
T 2cxx_A           75 FIEDNAKNIDVAVLVVDGK-AAPEIIKRWEKRGEIPIDVEFYQFLRE-LDIPTIVAVNKLDKIKN  137 (190)
T ss_dssp             HHHHHGGGCCEEEEEEETT-HHHHHHHHHHHTTCCCHHHHHHHHHHH-TTCCEEEEEECGGGCSC
T ss_pred             HHHhhhccCCEEEEEEcch-hhhhHHHhhhccCccHHHHHHHHHHHh-cCCceEEEeehHhccCc
Confidence            2    33456777777765 222111122211        1111111 23789999999999875

>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding, hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1 c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*

Probab=99.61  E-value=1.3e-15  Score=119.65  Aligned_cols=121  Identities=21%  Similarity=0.255  Sum_probs=81.3

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCC-CCCCCcHHHH-HHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF-DFSAGSEFVG-MEIVKC   96 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~-~~~~~~~~~~-~~~~~~   96 (173)
                      +.+|+++|.+|+|||||+|+|++....... ...+.|.......+.. .+..+.+|||||+. +.....+... ....  
T Consensus       243 ~~kV~ivG~pnvGKSSLln~L~~~~~a~vs-~~~gTT~d~~~~~i~~-~g~~~~l~DTaG~~~~~~~~ve~~gi~~~~--  318 (482)
T 1xzp_A          243 GLRMVIVGKPNVGKSTLLNRLLNEDRAIVT-DIPGTTRDVISEEIVI-RGILFRIVDTAGVRSETNDLVERLGIERTL--  318 (482)
T ss_dssp             CEEEEEECCHHHHTCHHHHHHHHHTBCCCC-CSSCCSSCSCCEEEEE-TTEEEEEEESSCCCSSCCTTCCCCCHHHHH--
T ss_pred             CCEEEEECcCCCcHHHHHHHHHCCCCCccC-CCCCeeeeeEEEEEec-CCeEEEEEECCCccccchhhHHHHHHHHHH--
Confidence            378999999999999999999986532111 2233444444445555 78899999999998 5533222111 1112  


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                        .++..+|++++|+|+++..+.++...++.    +.   ..|+++|+||+|+...
T Consensus       319 --~~~~~aD~vl~VvD~s~~~s~~~~~il~~----l~---~~piivV~NK~DL~~~  365 (482)
T 1xzp_A          319 --QEIEKADIVLFVLDASSPLDEEDRKILER----IK---NKRYLVVINKVDVVEK  365 (482)
T ss_dssp             --HHHHHCSEEEEEEETTSCCCHHHHHHHHH----HT---TSSEEEEEEECSSCCC
T ss_pred             --HHhhcccEEEEEecCCCCCCHHHHHHHHH----hc---CCCEEEEEECcccccc
Confidence              23446799999999986767665544433    22   2789999999999754

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=99.60  E-value=4.4e-15  Score=102.64  Aligned_cols=117  Identities=16%  Similarity=0.104  Sum_probs=67.5

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCC-CccccCCCCccceeeEEEEEEe------eCCceEEEEeCCCCCCCCCCcHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRR-AFKSRASSSGVTSTCEMQRTVL------KDGQVVNVIDTPGLFDFSAGSEFVGM   91 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~-~~~~~~~~~~~t~~~~~~~~~~------~~~~~~~v~DtpG~~~~~~~~~~~~~   91 (173)
                      ..+|+++|++|+|||||++.+++.. .+....   ..|..........      .....+.+|||||...          
T Consensus         2 ~~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~---~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~----------   68 (184)
T 2zej_A            2 RMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQ---SATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREE----------   68 (184)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHTCC--------------CSEEEEEEEC---------CEEEEEEECSHHH----------
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCccCCCc---ceeccEEeEEeeeccccCCCCceEEEEEecCCCHH----------
Confidence            3689999999999999999999853 222211   1122122111111      1345789999999532          


Q ss_pred             HHHHHHHhccCCceEEEEEeecCCCCCHH--HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           92 EIVKCIGLAKDGIHAVLVGFSVRSRFPQE--EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        92 ~~~~~~~~~~~~~~~ii~v~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                       +......++++++++++|++.++..+..  ...++..+....   ...|+++|.||+|+...
T Consensus        69 -~~~~~~~~~~~~~~~i~v~d~~~~~~s~~~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~  127 (184)
T 2zej_A           69 -FYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARA---SSSPVILVGTHLDVSDE  127 (184)
T ss_dssp             -HHTTSHHHHHHSEEEEEEEEGGGCHHHHHTHHHHHHHHHHHC---TTCEEEEEEECGGGCCH
T ss_pred             -HHHhhHHHccCCcEEEEEEeCCcchhHHHHHHHHHHHHHhhC---CCCcEEEEEECCCcccc
Confidence             2222233455678999999997432211  234444444332   13789999999998754

>3p26_A Elongation factor 1 alpha-like protein; GTP/GDP binding domain, beta-barrel, translational GTPase, D structural genomics; 2.50A {Saccharomyces cerevisiae} PDB: 3p27_A*

Probab=99.58  E-value=9.8e-15  Score=115.08  Aligned_cols=121  Identities=15%  Similarity=0.187  Sum_probs=78.8

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCc-cc----------------------------cCCCCccceeeEEEEEEeeC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAF-KS----------------------------RASSSGVTSTCEMQRTVLKD   67 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~-~~----------------------------~~~~~~~t~~~~~~~~~~~~   67 (173)
                      .+..+|+++|.+++|||||+++|++.... ..                            .....+.|.......... .
T Consensus        31 k~~~ki~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~-~  109 (483)
T 3p26_A           31 LPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFST-H  109 (483)
T ss_dssp             CCEEEEEEESCGGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCSSCCCCEEEEEC-S
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCcceEeeeEEEec-C
Confidence            35579999999999999999999754110 00                            001124555555555666 7


Q ss_pred             CceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCC-------CCHHHHHHHHHHHHHHcccccceE
Q 043441           68 GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSR-------FPQEEEAALHSWQTLFGKKVFDYM  140 (173)
Q Consensus        68 ~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~  140 (173)
                      +..+.+|||||+.+           +...+...+..+|++++|+|+++.       +.......+..+... +   ..++
T Consensus       110 ~~~~~iiDTPG~~~-----------f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~-~---~~~i  174 (483)
T 3p26_A          110 RANFTIVDAPGHRD-----------FVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSL-G---IHNL  174 (483)
T ss_dssp             SCEEEEECCCCCGG-----------GHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHT-T---CCCE
T ss_pred             CceEEEEECCCcHH-----------HHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHc-C---CCcE
Confidence            78999999999853           233334566788999999999854       223333333333222 2   2569


Q ss_pred             EEEEeCCCCCCCC
Q 043441          141 IVVFTGGDELEDN  153 (173)
Q Consensus       141 ~iv~tk~D~~~~~  153 (173)
                      ++|+||+|+...+
T Consensus       175 IvviNK~Dl~~~~  187 (483)
T 3p26_A          175 IIAMNKMDNVDWS  187 (483)
T ss_dssp             EEEEECGGGGTTC
T ss_pred             EEEEECcCcccch
Confidence            9999999998743

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=99.36  E-value=1.5e-16  Score=111.75  Aligned_cols=120  Identities=18%  Similarity=0.019  Sum_probs=75.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      .+..+|+++|.+|+|||||++.+++.... ....+.............. ....+.+|||||....           ...
T Consensus        28 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~-~~~~~t~~~~~~~~~~~~~-~~~~l~i~Dt~G~~~~-----------~~~   94 (204)
T 3th5_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFP-GEYIPTVFDNYSANVMVDG-KPVNLGLWDTAGQEDY-----------DRL   94 (204)
Confidence            46789999999999999999999876532 2211111111111111111 2345679999996542           233


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...++..+|++++|+|+++..+...  ..+++.+....+   ..|+++|+||+|+...
T Consensus        95 ~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~~l~~~~~---~~piilv~NK~Dl~~~  149 (204)
T 3th5_A           95 RPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP---NTPIILVGTKLDLRDD  149 (204)
Confidence            3346678899999999975433333  245555554432   3789999999999754

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.57  E-value=2.7e-14  Score=108.66  Aligned_cols=129  Identities=19%  Similarity=0.190  Sum_probs=67.4

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCC-----CccceeeEEEEEEee-CC--ceEEEEeCCCCCCCCC-----
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASS-----SGVTSTCEMQRTVLK-DG--QVVNVIDTPGLFDFSA-----   84 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~-----~~~t~~~~~~~~~~~-~~--~~~~v~DtpG~~~~~~-----   84 (173)
                      ...+|+++|++|+|||||+|+|++...+..+..+     ...|........... .+  ..+.+|||||+.+...     
T Consensus        36 ~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e~~  115 (361)
T 2qag_A           36 FEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCF  115 (361)
T ss_dssp             CEECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEEC--------------
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEEEeccccccCccHHHH
Confidence            3467999999999999999999887665443211     112322222222211 22  2689999999965422     


Q ss_pred             --CcHHHHHHHHHHHHhc---------cCCceEEEEEeec-CCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           85 --GSEFVGMEIVKCIGLA---------KDGIHAVLVGFSV-RSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        85 --~~~~~~~~~~~~~~~~---------~~~~~~ii~v~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                        -...+..++..++...         -.++|+++|+++. ...+...+..+++.+    ..  ..|+++|+||+|++..
T Consensus       116 ~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~~~~l~~~d~~~~~~l----~~--~~piIlV~NK~Dl~~~  189 (361)
T 2qag_A          116 KTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVAFMKAI----HN--KVNIVPVIAKADTLTL  189 (361)
T ss_dssp             CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSSSSSCCHHHHHHHHHT----CS---SCEEEEEECCSSSCH
T ss_pred             HHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecCCCCcchhHHHHHHHh----cc--CCCEEEEEECCCCCCH
Confidence              2222222322333221         1235678888875 446666665554443    22  2789999999999865

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=99.57  E-value=6.8e-14  Score=98.37  Aligned_cols=127  Identities=18%  Similarity=0.260  Sum_probs=72.6

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCC-CCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCc---HHHH
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRAS-SSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGS---EFVG   90 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~---~~~~   90 (173)
                      ...++.+++++|++|||||||+|.|++.... .... ..+.+.....  ... .+ .+.++||||+.......   +.+.
T Consensus        22 ~~~~~~~v~lvG~~g~GKSTLl~~l~g~~~~-~~~~~~~G~~~~~~~--~~~-~~-~~~l~Dt~G~~~~~~~~~~~~~~~   96 (210)
T 1pui_A           22 PSDTGIEVAFAGRSNAGKSSALNTLTNQKSL-ARTSKTPGRTQLINL--FEV-AD-GKRLVDLPGYGYAEVPEEMKRKWQ   96 (210)
T ss_dssp             SCSCSEEEEEEECTTSSHHHHHTTTCCC--------------CCEEE--EEE-ET-TEEEEECCCCC------CCHHHHH
T ss_pred             CCCCCcEEEEECCCCCCHHHHHHHHhCCCcc-ccccCCCccceeeEE--EEe-cC-CEEEEECcCCcccccCHHHHHHHH
Confidence            3456789999999999999999999987621 1111 1222222221  222 22 67899999986532111   1122


Q ss_pred             HHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           91 MEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        91 ~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..+...+ .....++.+++++++....+..+....+++..     ...+.+++.||+|++..
T Consensus        97 ~~~~~~~-~~~~~~~~~~~v~d~~~~~~~~~~~~~~~~~~-----~~~~~~~v~nK~D~~s~  152 (210)
T 1pui_A           97 RALGEYL-EKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVD-----SNIAVLVLLTKADKLAS  152 (210)
T ss_dssp             HHHHHHH-HHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH-----TTCCEEEEEECGGGSCH
T ss_pred             HHHHHHH-HhhhcccEEEEEEECCCCCchhHHHHHHHHHH-----cCCCeEEEEecccCCCc
Confidence            1122222 22357799999999986666544444444432     22678999999999864

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=99.56  E-value=2.3e-14  Score=100.18  Aligned_cols=119  Identities=17%  Similarity=0.136  Sum_probs=72.4

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCc--eEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ--VVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      ...+++++|++|||||||++.|++....... .+ ..........+.. .+.  .+.+|||||.......          
T Consensus         4 ~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~-~~-t~~~~~~~~~i~~-~g~~~~~~i~Dt~g~~~~~~~----------   70 (199)
T 2f9l_A            4 YLFKVVLIGDSGVGKSNLLSRFTRNEFNLES-KS-TIGVEFATRSIQV-DGKTIKAQIWDTAGQERYRRI----------   70 (199)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSCCCC----C-CCSCEEEEEEEEE-TTEEEEEEEEECSSGGGTTCC----------
T ss_pred             ceEEEEEECcCCCCHHHHHHHHhcCCCCCCC-CC-ccceeEEEEEEEE-CCEEEEEEEEECCCchhhhhh----------
Confidence            4578999999999999999999986532111 11 1112222233334 443  5678999996543211          


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                       ...++..++++++|++..+..+... ..++..+.....  ...++++++||+|+...
T Consensus        71 -~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~~i~~v~nK~Dl~~~  125 (199)
T 2f9l_A           71 -TSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHAD--SNIVIMLVGNKSDLRHL  125 (199)
T ss_dssp             -CHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSC--TTCEEEEEEECTTCGGG
T ss_pred             -hHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcC--CCCeEEEEEECcccccc
Confidence             1234557799999999874333222 234444433211  23789999999998754

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=99.56  E-value=5.6e-14  Score=115.07  Aligned_cols=132  Identities=14%  Similarity=0.144  Sum_probs=82.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC--------------------------------------------
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSS--------------------------------------------   52 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~--------------------------------------------   52 (173)
                      -..++|+++|.+++||||++|+|+|...+..+....                                            
T Consensus        49 i~lp~I~vvG~~saGKSSllnaL~g~~~LP~g~g~~Tr~Pl~l~l~~~~~~~~~~l~~~~~~~~~~~~v~~~I~~~~~~~  128 (772)
T 3zvr_A           49 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  128 (772)
T ss_dssp             GCCSEEEEEECTTTCHHHHHHHHHSSCCSCCSSSCSCSSCEEEEEEECSSCEEECSTTTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCCccCcCCccccccceEEEeecCCcchhheeccCCcccCCHHHHHHHHHHHHhhh
Confidence            356899999999999999999999987543332110                                            


Q ss_pred             -----ccceeeEEEEEEeeCCceEEEEeCCCCCCCCC--CcHHHHHHHHHHHHhc-cCCceEEEEEeecCCCCCHHHH-H
Q 043441           53 -----GVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA--GSEFVGMEIVKCIGLA-KDGIHAVLVGFSVRSRFPQEEE-A  123 (173)
Q Consensus        53 -----~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~--~~~~~~~~~~~~~~~~-~~~~~~ii~v~~~~~~~~~~~~-~  123 (173)
                           +.+.......+..+....++++||||+.....  ..+.....+...+..+ ...+|++++|+|++..+...+. .
T Consensus       129 ~g~~~~is~~~i~l~I~~P~~~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~  208 (772)
T 3zvr_A          129 TGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALK  208 (772)
T ss_dssp             HCSTTCCCSCCEEEEEEETTCCSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHH
T ss_pred             cCCCCcccccceEEEEecCCCCceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHH
Confidence                 00111112222333445789999999997431  1121122222222222 2678999999999866666664 4


Q ss_pred             HHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441          124 ALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus       124 ~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      +++.+...     ..|+++|+||+|++...
T Consensus       209 ll~~L~~~-----g~pvIlVlNKiDlv~~~  233 (772)
T 3zvr_A          209 IAKEVDPQ-----GQRTIGVITKLDLMDEG  233 (772)
T ss_dssp             HHHHHCTT-----CSSEEEEEECTTSSCTT
T ss_pred             HHHHHHhc-----CCCEEEEEeCcccCCcc
Confidence            44443321     27899999999999654

>1zun_B Sulfate adenylate transferase, subunit 1/adenylylsulfate kinase; beta barrel, switch domain, heterodimer, pyrophosphate, G protein; HET: GDP AGS; 2.70A {Pseudomonas syringae PV} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.56  E-value=6e-14  Score=109.23  Aligned_cols=120  Identities=13%  Similarity=0.146  Sum_probs=78.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCC--ccc------------cC-----------------CCCccceeeEEEEEEe
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRA--FKS------------RA-----------------SSSGVTSTCEMQRTVL   65 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~--~~~------------~~-----------------~~~~~t~~~~~~~~~~   65 (173)
                      ....+++++|..++|||||+++|++...  +..            +.                 ...+.|..........
T Consensus        22 ~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~~~~E~~rGiTi~~~~~~~~~  101 (434)
T 1zun_B           22 KEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFST  101 (434)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEEC
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhccChhHHHCCcEEEeeeeEeec
Confidence            4558999999999999999999975431  000            00                 0012344434444444


Q ss_pred             eCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEe
Q 043441           66 KDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFT  145 (173)
Q Consensus        66 ~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~t  145 (173)
                       .+..+.+|||||+.+.       ...+    ...+..+|++++|+|+++.........+..+... +   ..++++|+|
T Consensus       102 -~~~~~~iiDtpGh~~f-------~~~~----~~~~~~aD~~ilVvDa~~g~~~qt~~~l~~~~~~-~---~~~iIvviN  165 (434)
T 1zun_B          102 -AKRKFIIADTPGHEQY-------TRNM----ATGASTCDLAIILVDARYGVQTQTRRHSYIASLL-G---IKHIVVAIN  165 (434)
T ss_dssp             -SSEEEEEEECCCSGGG-------HHHH----HHHHTTCSEEEEEEETTTCSCHHHHHHHHHHHHT-T---CCEEEEEEE
T ss_pred             -CCceEEEEECCChHHH-------HHHH----HHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHc-C---CCeEEEEEE
Confidence             6678999999996542       1222    2356788999999999877666555555444332 2   146999999


Q ss_pred             CCCCCCC
Q 043441          146 GGDELED  152 (173)
Q Consensus       146 k~D~~~~  152 (173)
                      |+|+...
T Consensus       166 K~Dl~~~  172 (434)
T 1zun_B          166 KMDLNGF  172 (434)
T ss_dssp             CTTTTTS
T ss_pred             cCcCCcc
Confidence            9999864

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.55  E-value=6.6e-14  Score=109.11  Aligned_cols=121  Identities=18%  Similarity=0.194  Sum_probs=79.6

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc-----------------------------CCCCccceeeEEEEEEe
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR-----------------------------ASSSGVTSTCEMQRTVL   65 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~-----------------------------~~~~~~t~~~~~~~~~~   65 (173)
                      ......+++++|.+++|||||++.|++.......                             ....+.|..........
T Consensus        13 ~~k~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~~~   92 (439)
T 3j2k_7           13 PKKEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYFET   92 (439)
T ss_pred             CCCceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEeEEEEec
Confidence            3456689999999999999999999653211000                             01134566666666666


Q ss_pred             eCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCC-------HHHHHHHHHHHHHHcccccc
Q 043441           66 KDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFP-------QEEEAALHSWQTLFGKKVFD  138 (173)
Q Consensus        66 ~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~-------~~~~~~~~~l~~~~~~~~~~  138 (173)
                       .+..+.+|||||+.+           +...+...+..+|++++|+|+++...       ......+..+...   . ..
T Consensus        93 -~~~~~~iiDTPGh~~-----------f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~~---~-v~  156 (439)
T 3j2k_7           93 -EKKHFTILDAPGHKS-----------FVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTA---G-VK  156 (439)
T ss_pred             -CCeEEEEEECCChHH-----------HHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHHc---C-CC
Confidence             677999999999653           33333455667899999999985542       2223333322222   1 13


Q ss_pred             eEEEEEeCCCCCC
Q 043441          139 YMIVVFTGGDELE  151 (173)
Q Consensus       139 ~~~iv~tk~D~~~  151 (173)
                      ++++++||+|+..
T Consensus       157 ~iIvviNK~Dl~~  169 (439)
T 3j2k_7          157 HLIVLINKMDDPT  169 (439)
T ss_pred             eEEEEeecCCCcc
Confidence            4999999999864

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.55  E-value=1.6e-14  Score=118.16  Aligned_cols=123  Identities=18%  Similarity=0.187  Sum_probs=78.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCcc-------------ceee-------------------------
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGV-------------TSTC-------------------------   58 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~-------------t~~~-------------------------   58 (173)
                      .+..+|+++|.+|+|||||+|+|+|......+..+...             +...                         
T Consensus        67 ~~~~~V~VvG~~naGKSSLlNaLlg~~~~~v~~~p~T~~~~~i~~g~~~~~t~~~~~g~~~~~~~~~~i~~~~~i~~~~~  146 (695)
T 2j69_A           67 QGVFRLLVLGDMKRGKSTFLNALIGENLLPSDVNPCTAVLTVLRYGPEKKVTIHFNDGKSPQQLDFQNFKYKYTIDPAEA  146 (695)
T ss_dssp             HCCEEEEEECCTTSCHHHHHHHHHTSSCSCCCCCTTTCCCEEEEECSSCEEEEEESSSCCCCEEEHHHHHHHSCCCHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCCCCCccceEEEEeCCCCeEEEEEcCCCcccccChhhhhhhhcCCHHHH
Confidence            35689999999999999999999998764443322110             0000                         


Q ss_pred             --------------EEEEEEeeCC----ceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHH
Q 043441           59 --------------EMQRTVLKDG----QVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQE  120 (173)
Q Consensus        59 --------------~~~~~~~~~~----~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~  120 (173)
                                    ....+.+ ..    ..+.+|||||+.+...        ....+..++..+|++++|+++++..+..
T Consensus       147 ~~l~~~~~~~~~~v~~i~i~~-p~~~l~~~l~LiDTPGl~~~~~--------~~~~~~~~i~~aD~vL~Vvda~~~~s~~  217 (695)
T 2j69_A          147 KKLEQEKKQAFPDVDYAVVEY-PLTLLQKGIEIVDSPGLNDTEA--------RNELSLGYVNNCHAILFVMRASQPCTLG  217 (695)
T ss_dssp             HHHHTSSCCSCTTEEEEEEEE-CCHHHHTTEEEEECCCHHHHHT--------CHHHHTHHHHSSSEEEEEEETTSTTCHH
T ss_pred             HHHhhccccccccceEEEEEc-cchhccCCeEEEECCCCCchhh--------HHHHHHHHHHhCCEEEEEEeCCCccchh
Confidence                          0000011 00    3689999999875211        2233344566789999999998777776


Q ss_pred             HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          121 EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       121 ~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +...+.   +.+.. ...|+++|+||+|+...
T Consensus       218 e~~~l~---~~l~~-~~~~iiiVlNK~Dl~~~  245 (695)
T 2j69_A          218 ERRYLE---NYIKG-RGLTVFFLVNAWDQVRE  245 (695)
T ss_dssp             HHHHHH---HHTTT-SCCCEEEEEECGGGGGG
T ss_pred             HHHHHH---HHHHh-hCCCEEEEEECcccccc
Confidence            654432   22221 12679999999998754

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.55  E-value=3.6e-14  Score=105.90  Aligned_cols=121  Identities=12%  Similarity=0.073  Sum_probs=75.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      +++++|.+|+||||+++.+.+... .........|.......+.  ....+.+|||||......+.  +      ....+
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~-~~~~~~~~~Tig~~~~~v~--~~v~LqIWDTAGQErf~~~~--l------~~~~y   69 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQ-PLDTLYLESTSNPSLEHFS--TLIDLAVMELPGQLNYFEPS--Y------DSERL   69 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCC-SGGGTTCCCCCSCCCEEEC--SSSCEEEEECCSCSSSCCCS--H------HHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCC-CCccceecCeeeeeeEEEc--cEEEEEEEECCCchhccchh--h------hhhhh
Confidence            589999999999999998876542 2211222334333332221  45789999999988753210  1      11246


Q ss_pred             cCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          101 KDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +++++++++|+|.++++......+.+++.+........|++++.||+|+...
T Consensus        70 yr~a~~~IlV~Ditd~~~~~~~~l~~~l~~~~~~~~~ipillvgNK~DL~~~  121 (331)
T 3r7w_B           70 FKSVGALVYVIDSQDEYINAITNLAMIIEYAYKVNPSINIEVLIHKVDGLSE  121 (331)
T ss_dssp             HTTCSEEEEECCCSSCTTHHHHHHHHHHHHHHHHCTTCEEEEECCCCCSSCS
T ss_pred             ccCCCEEEEEEECCchHHHHHHHHHHHHHHHhhcCCCCcEEEEEECcccCch
Confidence            7899999999999876322222332333322111123799999999999865

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.55  E-value=4.7e-14  Score=113.85  Aligned_cols=121  Identities=15%  Similarity=0.188  Sum_probs=80.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccC-----------------------------CCCccceeeEEEEEEee
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA-----------------------------SSSGVTSTCEMQRTVLK   66 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~-----------------------------~~~~~t~~~~~~~~~~~   66 (173)
                      ..+..+|+++|.+++|||||+|+|++........                             ...+.|.......... 
T Consensus       164 ~k~~lkV~ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~~~~~~~~-  242 (611)
T 3izq_1          164 ALPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFST-  242 (611)
T ss_dssp             CCCCCEEEEECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSCSCCEEEC-
T ss_pred             cCCceEEEEEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEeeeeEEEec-
Confidence            3457899999999999999999998753211100                             0124455555555666 


Q ss_pred             CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCC-------CCHHHHHHHHHHHHHHcccccce
Q 043441           67 DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSR-------FPQEEEAALHSWQTLFGKKVFDY  139 (173)
Q Consensus        67 ~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~  139 (173)
                      .+..+.+|||||+..           +...+...+..+|++|+|+++++.       ........+..+... +   ..+
T Consensus       243 ~~~~~~iiDTPG~e~-----------f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~l-g---i~~  307 (611)
T 3izq_1          243 HRANFTIVDAPGHRD-----------FVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSL-G---IHN  307 (611)
T ss_dssp             SSCEEEEEECCSSSC-----------HHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHTT-T---CCE
T ss_pred             CCceEEEEECCCCcc-----------cHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHHc-C---CCe
Confidence            778999999999864           344445678889999999999732       122222222222221 1   256


Q ss_pred             EEEEEeCCCCCCC
Q 043441          140 MIVVFTGGDELED  152 (173)
Q Consensus       140 ~~iv~tk~D~~~~  152 (173)
                      +++|+||+|+...
T Consensus       308 iIVVvNKiDl~~~  320 (611)
T 3izq_1          308 LIIAMNKMDNVDW  320 (611)
T ss_dssp             EEEEEECTTTTTT
T ss_pred             EEEEEecccccch
Confidence            9999999999874

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.55  E-value=9.4e-15  Score=116.05  Aligned_cols=120  Identities=14%  Similarity=0.157  Sum_probs=82.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcc----------------cc----CCCCccceeeEEEEEEeeCCceEEEEeC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFK----------------SR----ASSSGVTSTCEMQRTVLKDGQVVNVIDT   76 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~----------------~~----~~~~~~t~~~~~~~~~~~~~~~~~v~Dt   76 (173)
                      ...++|+++|.+|+|||||+|+|+......                ..    ....+.|.........+ .+..+.+|||
T Consensus        11 ~~~r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~-~~~~i~liDT   89 (528)
T 3tr5_A           11 AMRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTSVMQFPY-KDYLINLLDT   89 (528)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCSSSSSEEEEEE-TTEEEEEECC
T ss_pred             hcCCEEEEECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCeeEEEeEEEEEe-CCEEEEEEEC
Confidence            356899999999999999999997211100                00    00123344444455566 7789999999


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           77 PGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        77 pG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ||+.+...           ....+++.+|++++|+|+++.........++.+...     ..|+++++||+|+...+
T Consensus        90 PG~~df~~-----------~~~~~l~~aD~allVvDa~~g~~~~t~~~~~~~~~~-----~iPiivviNK~Dl~~~~  150 (528)
T 3tr5_A           90 PGHADFTE-----------DTYRTLTAVDSALMVIDAAKGVEPRTIKLMEVCRLR-----HTPIMTFINKMDRDTRP  150 (528)
T ss_dssp             CCSTTCCH-----------HHHHGGGGCSEEEEEEETTTCSCHHHHHHHHHHHTT-----TCCEEEEEECTTSCCSC
T ss_pred             CCchhHHH-----------HHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHHc-----CCCEEEEEeCCCCcccc
Confidence            99876421           123456678999999999977777766665544432     27899999999997653

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=99.53  E-value=2e-14  Score=100.09  Aligned_cols=121  Identities=18%  Similarity=0.116  Sum_probs=69.8

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCC-CccccCCCCccceeeEEEEEEeeCCc--eEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRR-AFKSRASSSGVTSTCEMQRTVLKDGQ--VVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~-~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      ...+|+++|.+|+|||||+|.+++.. .+.....+.+.+...  ..... ++.  .+.++||+|.....          .
T Consensus         5 ~~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~-~~~~~~l~~~Dt~~~~~~~----------~   71 (192)
T 2cjw_A            5 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYE--RTLMV-DGESATIILLDMWENKGEN----------E   71 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHSCCC----GGGCTTEEE--EEEEE-TTEEEEEEEECCCCC--------------C
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCcCCcCccccccceeEEE--EEEEE-CCeEEEEEEEEeccCcchh----------h
Confidence            45799999999999999999998632 122221112222222  22333 443  56789999965310          0


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .....+++.++++++|++.++.-+... ..+.+.+.+.... ...|+++|.||+|+...
T Consensus        72 ~~~~~~~~~~~~~i~v~dv~~~~s~~~~~~~~~~l~~~~~~-~~~piilV~NK~Dl~~~  129 (192)
T 2cjw_A           72 WLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQT-EDIPIILVGNKSDLVRX  129 (192)
T ss_dssp             TTGGGHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTTT-SCCCEEEEEECTTCGGG
T ss_pred             hHHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCC-CCCeEEEEEechhhhcc
Confidence            011234456799999999984433222 2344444443211 23689999999998754

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.53  E-value=1.1e-15  Score=121.22  Aligned_cols=118  Identities=15%  Similarity=0.215  Sum_probs=82.2

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      +.++|+++|.+++|||||+++|++......  ...+.|............+..+.+|||||+..+.....          
T Consensus         3 r~pkV~IvG~~~vGKTSLl~~L~~~~~~~~--~~~giT~~i~~~~v~~~~g~~i~~iDTPGhe~f~~~~~----------   70 (537)
T 3izy_P            3 RSPVVTIMGHVDHGKTTLLDKLRKTQVAAM--EAGGITQHIGAFLVSLPSGEKITFLDTPGHAAFSAMRA----------   70 (537)
T ss_dssp             CCCBCEEEESTTTTHHHHHHHHHHHHHHHS--SSCCBCCCTTSCCBCSSCSSCCBCEECSSSCCTTTSBB----------
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcccc--cCCceeEEEeEEEEEeCCCCEEEEEECCChHHHHHHHH----------
Confidence            467899999999999999999987553222  22334444333333332456899999999876533222          


Q ss_pred             HhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                       ..+..+|++++|+++.+.........++.+...   .  .|+++++||+|+...+
T Consensus        71 -~~~~~aD~vILVVDa~dg~~~qt~e~l~~~~~~---~--vPiIVViNKiDl~~~~  120 (537)
T 3izy_P           71 -RGTQVTDIVILVVAADDGVMKQTVESIQHAKDA---H--VPIVLAINKCDKAEAD  120 (537)
T ss_dssp             -SSSBSBSSCEEECBSSSCCCHHHHHHHHHHHTT---T--CCEEECCBSGGGTTTS
T ss_pred             -HHHccCCEEEEEEECCCCccHHHHHHHHHHHHc---C--CcEEEEEecccccccc
Confidence             466788999999999877766665555444432   2  6899999999987543

>1wb1_A Translation elongation factor SELB; selenocysteine, protein synthesis, selenium, ribosome; HET: GDP DXC; 3.0A {Methanococcus maripaludis} SCOP: b.43.3.1 b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1wb2_A* 1wb3_A*

Probab=99.53  E-value=1.1e-13  Score=108.93  Aligned_cols=119  Identities=15%  Similarity=0.197  Sum_probs=79.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCc---c--ccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAF---K--SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGM   91 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~---~--~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~   91 (173)
                      .+..+++++|..++|||||+++|++....   +  ......+.|.........+ .+..+.+|||||+.           
T Consensus        17 m~~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~-~~~~i~iiDtPGh~-----------   84 (482)
T 1wb1_A           17 FKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKL-ENYRITLVDAPGHA-----------   84 (482)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEE-TTEEEEECCCSSHH-----------
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEE-CCEEEEEEECCChH-----------
Confidence            45689999999999999999999986510   0  0111223455544445555 67899999999953           


Q ss_pred             HHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           92 EIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        92 ~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ++...+...+..+|++++|+|+++.........+..+...     ..|.++++||+|+...
T Consensus        85 ~~~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~~~~~~-----~ip~IvviNK~Dl~~~  140 (482)
T 1wb1_A           85 DLIRAVVSAADIIDLALIVVDAKEGPKTQTGEHMLILDHF-----NIPIIVVITKSDNAGT  140 (482)
T ss_dssp             HHHHHHHHHTTSCCEEEEEEETTTCSCHHHHHHHHHHHHT-----TCCBCEEEECTTSSCH
T ss_pred             HHHHHHHHHHhhCCEEEEEEecCCCccHHHHHHHHHHHHc-----CCCEEEEEECCCcccc
Confidence            3444444567788999999999876666665555544432     2567999999999863

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=99.52  E-value=3.2e-14  Score=106.63  Aligned_cols=118  Identities=19%  Similarity=0.108  Sum_probs=76.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCc--eEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ--VVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      ....+|+++|.+|+|||||++.+++.... ....+  .+.......... .+.  .+.+|||||.....           
T Consensus       153 ~~~~~i~i~G~~~~GKssli~~~~~~~~~-~~~~~--t~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~-----------  217 (332)
T 2wkq_A          153 KELIKCVVVGDGAVGKTCLLISYTTNAFP-GEYIP--TVFDNYSANVMV-DGKPVNLGLWDTAGLEDYD-----------  217 (332)
T ss_dssp             TTCEEEEEEESTTSSHHHHHHHHHHSCCC-CSCCC--CSEEEEEEEEEE-TTEEEEEEEEEECCCGGGT-----------
T ss_pred             cceeEEEEECCCCCChHHHHHHHHhCCCC-cccCC--cccceeEEEEEE-CCEEEEEEEEeCCCchhhh-----------
Confidence            45589999999999999999999876532 22111  111111222233 444  45599999976422           


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHHH--HHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEEE--AALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .....++..+|++++|+|+++..+....  .+++.+....+   ..|+++|+||+|+...
T Consensus       218 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~p~ilv~nK~Dl~~~  274 (332)
T 2wkq_A          218 RLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCP---NTPIILVGTKLDLRDD  274 (332)
T ss_dssp             TTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCT---TSCEEEEEECHHHHTC
T ss_pred             HHHHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhCC---CCcEEEEEEchhcccc
Confidence            2233567889999999999844333221  34455555432   3799999999998754

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.52  E-value=7.8e-14  Score=111.24  Aligned_cols=123  Identities=14%  Similarity=0.070  Sum_probs=75.9

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEE----EEEee---CCceEEEEeCCCCCCCCCCcHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ----RTVLK---DGQVVNVIDTPGLFDFSAGSEF   88 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~----~~~~~---~~~~~~v~DtpG~~~~~~~~~~   88 (173)
                      .....+|+++|.+|+|||||+|.+++...........+.+......    .....   .+..+.+|||||......... 
T Consensus        38 ~~~~~kV~lvG~~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~~~~~~~-  116 (535)
T 3dpu_A           38 HLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQ-  116 (535)
T ss_dssp             CCCEEEEEEESSSCSSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCTTTTTCH-
T ss_pred             cccceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHHHHHHHHH-
Confidence            4567899999999999999999999876321111111111111100    01110   256899999999665433222 


Q ss_pred             HHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCc
Q 043441           89 VGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNE  154 (173)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~  154 (173)
                                .+++.++++++|+|++ .. .....+++.+.+..+   ..|+++|+||+|+.....
T Consensus       117 ----------~~l~~~d~ii~V~D~s-~~-~~~~~~~~~l~~~~~---~~pvilV~NK~Dl~~~~~  167 (535)
T 3dpu_A          117 ----------FFMTRSSVYMLLLDSR-TD-SNKHYWLRHIEKYGG---KSPVIVVMNKIDENPSYN  167 (535)
T ss_dssp             ----------HHHHSSEEEEEEECGG-GG-GGHHHHHHHHHHHSS---SCCEEEEECCTTTCTTCC
T ss_pred             ----------HHccCCcEEEEEEeCC-Cc-hhHHHHHHHHHHhCC---CCCEEEEEECCCcccccc
Confidence                      2344689999999997 33 334567777766533   279999999999986543

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=99.51  E-value=1.4e-13  Score=95.66  Aligned_cols=119  Identities=18%  Similarity=0.166  Sum_probs=72.5

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCc--eEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ--VVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      ...+++++|++|||||||++.+++........  +..........+.. .+.  .+.+|||||........         
T Consensus        28 ~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~--~t~~~~~~~~~i~~-~g~~~~~~i~Dt~g~~~~~~~~---------   95 (191)
T 1oix_A           28 YLFKVVLIGDSGVGKSNLLSRFTRNEFNLESK--STIGVEFATRSIQV-DGKTIKAQIWDTAGLERYRAIT---------   95 (191)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHSCCCCSCC--CCCSEEEEEEEEEE-TTEEEEEEEEEECSCCSSSCCC---------
T ss_pred             cceEEEEECcCCCCHHHHHHHHhcCCCCCCCC--CccceEEEEEEEEE-CCEEEEEEEEECCCCcchhhhh---------
Confidence            45799999999999999999999866422111  11222222233444 554  45679999986532221         


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                        ..++..++++++|+|..+..+... ..+++.+.+..  ....++++++||+|+.+.
T Consensus        96 --~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~~i~~v~nK~Dl~~~  149 (191)
T 1oix_A           96 --SAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHA--DSNIVIMLVGNKSDLRHL  149 (191)
T ss_dssp             --HHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHS--CTTCEEEEEEECGGGGGG
T ss_pred             --HHHhhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhc--CCCCcEEEEEECcccccc
Confidence              123456788999999873322111 23333333321  123789999999998653

>1d2e_A Elongation factor TU (EF-TU); G-protein, beta-barrel, RNA binding protein; HET: GDP; 1.94A {Bos taurus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1xb2_A* 2hcj_A* 2hdn_A*

Probab=99.51  E-value=2.4e-13  Score=104.68  Aligned_cols=117  Identities=15%  Similarity=0.138  Sum_probs=78.9

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCC------ccc----c----CCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRA------FKS----R----ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   83 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~------~~~----~----~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~   83 (173)
                      +..+|+++|..++|||||+++|++...      +..    .    ....+.|.......... .+..+.+|||||+.   
T Consensus         2 ~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~~~~~~~~-~~~~~~iiDtpG~~---   77 (397)
T 1d2e_A            2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYST-AARHYAHTDCPGHA---   77 (397)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEEC-SSCEEEEEECSSHH---
T ss_pred             CeEEEEEEeCCCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEeeeEEecc-CCeEEEEEECCChH---
Confidence            347899999999999999999987311      000    0    00123444444434444 56789999999954   


Q ss_pred             CCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccce-EEEEEeCCCCCC
Q 043441           84 AGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDY-MIVVFTGGDELE  151 (173)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~~iv~tk~D~~~  151 (173)
                              ++...+...+..+|++++|+|+++.........+..+...     ..| +++++||+|+..
T Consensus        78 --------~f~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~~~~~~-----~vp~iivviNK~Dl~~  133 (397)
T 1d2e_A           78 --------DYVKNMITGTAPLDGCILVVAANDGPMPQTREHLLLARQI-----GVEHVVVYVNKADAVQ  133 (397)
T ss_dssp             --------HHHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHHHHHT-----TCCCEEEEEECGGGCS
T ss_pred             --------HHHHHHHhhHhhCCEEEEEEECCCCCCHHHHHHHHHHHHc-----CCCeEEEEEECcccCC
Confidence                    2334444667889999999999876665555555444332     145 789999999985

>3sjy_A Translation initiation factor 2 subunit gamma; zinc finger, initiate translation, tRNA binding, mRNA bindin binding; HET: GCP GDP; 2.00A {Sulfolobus solfataricus P2} PDB: 3pen_A* 3sjz_A* 2qn6_A* 2aho_A 2qmu_A* 2plf_A* 3v11_A* 3i1f_A* 3cw2_A 2pmd_A* 3p3m_A* 3qsy_A*

Probab=99.50  E-value=1.1e-13  Score=106.79  Aligned_cols=121  Identities=13%  Similarity=0.132  Sum_probs=75.3

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccce--------------ee-----EEEEEEeeCCceEEEEe
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTS--------------TC-----EMQRTVLKDGQVVNVID   75 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~--------------~~-----~~~~~~~~~~~~~~v~D   75 (173)
                      ...+..+|+++|.+|+|||||+|+|++..... .......+.              ..     ....... ....+.++|
T Consensus         4 ~~~~~~~I~vvG~~~~GKSTLi~~L~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~iiD   81 (403)
T 3sjy_A            4 KVQPEVNIGVVGHVDHGKTTLVQAITGIWTSK-KLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPK-FLRRISFID   81 (403)
T ss_dssp             CCCCCCEEEEECSTTSSHHHHHHHHHSCCCCS-SSEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCE-EEEEEEEEE
T ss_pred             ccCCCcEEEEECCCCCCHHHHHHHHhCccccc-ccCccccceeeccccccccceeccccccccccccccc-ccceEEEEE
Confidence            34567899999999999999999999853211 000000000              00     0000000 226889999


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCC-CHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           76 TPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRF-PQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        76 tpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      |||..+           +.......+..+|++++|+++++.. .......+..+... +.   .|+++|+||+|+.+.
T Consensus        82 tPGh~~-----------~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~-~~---~~iivviNK~Dl~~~  144 (403)
T 3sjy_A           82 APGHEV-----------LMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGII-GV---KNLIIVQNKVDVVSK  144 (403)
T ss_dssp             CCCCGG-----------GHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHH-TC---CCEEEEEECGGGSCH
T ss_pred             CCCcHH-----------HHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHc-CC---CCEEEEEECccccch
Confidence            999643           2223334566789999999998665 44445555444433 22   589999999999865

>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation of protein synthesis, cryo-eletron microscopy, translation/RNA complex; 13.80A {Escherichia coli}

Probab=99.50  E-value=8.9e-15  Score=115.15  Aligned_cols=117  Identities=15%  Similarity=0.187  Sum_probs=79.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ++.++|+++|..++|||||+++|++.......  ..+.|.........+ ++..+.+|||||+.++....          
T Consensus         2 ~R~~~V~IvGhvd~GKTTLl~~L~~~~v~~~e--~~GIT~~i~~~~v~~-~~~~i~~iDTPGhe~f~~~~----------   68 (501)
T 1zo1_I            2 PRAPVVTIMGHVDHGKTSLLEYIRSTKVASGE--AGGITQHIGAYHVET-ENGMITFLDTPGHAAFTSMR----------   68 (501)
T ss_dssp             CCCCCEEEEESTTSSSHHHHHHHHHHHHSBTT--BCCCCCCSSCCCCCT-TSSCCCEECCCTTTCCTTSB----------
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHcCCCcccc--CCCeeEeEEEEEEEE-CCEEEEEEECCCcHHHHHHH----------
Confidence            45689999999999999999999874422111  122333333333444 56789999999987754332          


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                       ...+..+|++++|+++++.........+..+...     ..|+++++||+|+...
T Consensus        69 -~~~~~~aD~aILVVda~~g~~~qT~e~l~~~~~~-----~vPiIVviNKiDl~~~  118 (501)
T 1zo1_I           69 -ARGAQATDIVVLVVAADDGVMPQTIEAIQHAKAA-----QVPVVVAVNKIDKPEA  118 (501)
T ss_dssp             -CSSSBSCSSEEEEEETTTBSCTTTHHHHHHHHHT-----TCCEEEEEECSSSSTT
T ss_pred             -HHHHhhCCEEEEEeecccCccHHHHHHHHHHHhc-----CceEEEEEEecccccc
Confidence             2456678999999999865555444444444331     2689999999999754

>2c78_A Elongation factor TU-A; hydrolase, GTPase, translation elongation factor, protein synthesis, antibiotic, GTP-binding, nucleotide-binding; HET: GNP PUL; 1.4A {Thermus thermophilus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 2y0u_Z* 2y0w_Z* 2y0y_Z* 2y10_Z* 2y12_Z* 2y14_Z* 2y16_Z* 2y18_Z* 2wrn_Z* 2wrq_Z* 2c77_A* 1aip_A 1exm_A* 1ha3_A* 2xqd_Z* 3fic_Z* 4abr_Z* 1b23_P* 1ob5_A* 1ttt_A* ...

Probab=99.50  E-value=6.2e-14  Score=108.25  Aligned_cols=119  Identities=13%  Similarity=0.120  Sum_probs=79.1

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCC-------Ccccc--C------CCCccceeeEEEEEEeeCCceEEEEeCCCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRR-------AFKSR--A------SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF   80 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~-------~~~~~--~------~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~   80 (173)
                      .....+|+++|.+++|||||+++|++..       .+...  .      ...+.|.......... .+..+.+|||||+.
T Consensus         8 ~~~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~-~~~~~~iiDtpG~~   86 (405)
T 2c78_A            8 TKPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYET-AKRHYSHVDCPGHA   86 (405)
T ss_dssp             -CCEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEEC-SSCEEEEEECCCSG
T ss_pred             CCCeEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeEecc-CCeEEEEEECCChH
Confidence            3456899999999999999999998731       11000  0      0123344444344444 56789999999977


Q ss_pred             CCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccce-EEEEEeCCCCCC
Q 043441           81 DFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDY-MIVVFTGGDELE  151 (173)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~~iv~tk~D~~~  151 (173)
                      +.           .......+..+|++++|+|+++.........+..+...     ..| +++++||+|+..
T Consensus        87 ~f-----------~~~~~~~~~~aD~~ilVvda~~g~~~qt~~~l~~~~~~-----~ip~iivviNK~Dl~~  142 (405)
T 2c78_A           87 DY-----------IKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQV-----GVPYIVVFMNKVDMVD  142 (405)
T ss_dssp             GG-----------HHHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHHHHHT-----TCCCEEEEEECGGGCC
T ss_pred             HH-----------HHHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHHHHHc-----CCCEEEEEEECccccC
Confidence            42           22223456688999999999877666555555544432     145 889999999985

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.49  E-value=2.3e-13  Score=111.34  Aligned_cols=121  Identities=23%  Similarity=0.275  Sum_probs=80.1

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccc--c-C-------------CCCccceeeEEEEEEeeCCceEEEEeCCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKS--R-A-------------SSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   79 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~--~-~-------------~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~   79 (173)
                      .....+|+++|.+|+|||||+|+|++......  + .             ...+.|.........+ .+..+.+|||||+
T Consensus         7 ~~~~~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~~~~~~~-~~~~i~liDTPG~   85 (693)
T 2xex_A            7 LEKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSAATTAAW-EGHRVNIIDTPGH   85 (693)
T ss_dssp             STTEEEEEEECCGGGTHHHHHHHHHHHHSSCC-------------------------CCSEEEEEE-TTEEEEEECCCCC
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeeeeEEEEE-CCeeEEEEECcCC
Confidence            45678999999999999999999984211000  0 0             0122333334444555 6788999999999


Q ss_pred             CCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           80 FDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .+..       .+..    .+++.+|++++|+|+++.........++.+.+.     ..|+++|+||+|+...+
T Consensus        86 ~df~-------~~~~----~~l~~aD~~llVvDa~~g~~~~~~~~~~~~~~~-----~~p~ilviNK~Dl~~~~  143 (693)
T 2xex_A           86 VDFT-------VEVE----RSLRVLDGAVTVLDAQSGVEPQTETVWRQATTY-----GVPRIVFVNKMDKLGAN  143 (693)
T ss_dssp             SSCC-------HHHH----HHHHHCSEEEEEEETTTBSCHHHHHHHHHHHHT-----TCCEEEEEECTTSTTCC
T ss_pred             cchH-------HHHH----HHHHHCCEEEEEECCCCCCcHHHHHHHHHHHHc-----CCCEEEEEECCCccccc
Confidence            8642       1222    233457999999999877777766665554442     27899999999998753

>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET: GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W* 3zvo_Y* 3uoq_W*

Probab=99.49  E-value=1.2e-13  Score=109.86  Aligned_cols=120  Identities=15%  Similarity=0.156  Sum_probs=77.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc--------------------CCCCccceeeEEEEEEeeCCceEEEEeC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR--------------------ASSSGVTSTCEMQRTVLKDGQVVNVIDT   76 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~--------------------~~~~~~t~~~~~~~~~~~~~~~~~v~Dt   76 (173)
                      ....+|+++|.+|+|||||+++|++.......                    ....+.|.........+ .+..+.+|||
T Consensus        11 ~~~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~-~~~~i~liDT   89 (529)
T 2h5e_A           11 AKRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQFPY-HDCLVNLLDT   89 (529)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHHSCC-------------------------------CCTTEEEEEE-TTEEEEEECC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEEEE-CCeEEEEEEC
Confidence            35689999999999999999999853211000                    00112233333344455 7789999999


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           77 PGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        77 pG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ||+.+..       ...    ..++..+|++++|+|+++.........++.+..     ...|+++++||+|+...+
T Consensus        90 PG~~df~-------~~~----~~~l~~aD~~IlVvDa~~g~~~~t~~~~~~~~~-----~~ipiivviNK~Dl~~~~  150 (529)
T 2h5e_A           90 PGHEDFS-------EDT----YRTLTAVDCCLMVIDAAKGVEDRTRKLMEVTRL-----RDTPILTFMNKLDRDIRD  150 (529)
T ss_dssp             CCSTTCC-------HHH----HHGGGGCSEEEEEEETTTCSCHHHHHHHHHHTT-----TTCCEEEEEECTTSCCSC
T ss_pred             CCChhHH-------HHH----HHHHHHCCEEEEEEeCCccchHHHHHHHHHHHH-----cCCCEEEEEcCcCCcccc
Confidence            9987642       112    245667899999999986665554444333322     127899999999998764

>1wxq_A GTP-binding protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 2.60A {Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2

Probab=99.49  E-value=1.9e-13  Score=105.08  Aligned_cols=91  Identities=13%  Similarity=0.019  Sum_probs=45.9

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEe--------------------eC---CceEEEEeC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL--------------------KD---GQVVNVIDT   76 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~--------------------~~---~~~~~v~Dt   76 (173)
                      .+|+++|.+|+|||||+|+|++... ... ..+..|..........                    ..   ...+.+|||
T Consensus         1 ~kI~ivG~pnvGKSTL~n~L~~~~~-~~~-~~p~tT~~~~~g~~~~~~~~~~~~l~~~~~p~~~~~~~~~~~~~i~lvDt   78 (397)
T 1wxq_A            1 MEIGVVGKPNVGKSTFFSAATLVDV-EIA-NYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDV   78 (397)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC----------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEEC
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCC-ccc-CCCCcccCCceEEEeeccCCchHHhhhhcccccccccCCcceEEEEEEEC
Confidence            3789999999999999999998762 111 1112222211111000                    01   246899999


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCC
Q 043441           77 PGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSR  116 (173)
Q Consensus        77 pG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~  116 (173)
                      ||+.......+    .+.+.+...++.+|++++|+|+++.
T Consensus        79 pG~~~~a~~~~----~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           79 AGLVPGAHEGR----GLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             C-------------------CCCSSTTCSEEEEEEETTCC
T ss_pred             CCcccchhhhh----hHHHHHHHHHhcCCEEEEEEecccc
Confidence            99975322112    2222223567899999999999753

>1s0u_A EIF-2-gamma, translation initiation factor 2 gamma subunit; GTPase, EF-1A, tRNA; 2.40A {Methanocaldococcus jannaschii} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.49  E-value=1.9e-12  Score=100.06  Aligned_cols=122  Identities=13%  Similarity=0.222  Sum_probs=76.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc-CCCCccceeeEEEEEEee--------------C--------CceEEE
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR-ASSSGVTSTCEMQRTVLK--------------D--------GQVVNV   73 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~-~~~~~~t~~~~~~~~~~~--------------~--------~~~~~v   73 (173)
                      .+..+|+++|..++|||||+++|++....... ....+.|....+......              .        ...+.+
T Consensus         6 ~~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~i   85 (408)
T 1s0u_A            6 QAEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVSF   85 (408)
T ss_dssp             CCCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEEEE
T ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEEEE
Confidence            45689999999999999999999975321111 111223433222211110              0        157999


Q ss_pred             EeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCC-CHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           74 IDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRF-PQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        74 ~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      |||||+.           .+...+...+..+|++++|+++++.. .......+..+.. ++.   .|+++++||+|+...
T Consensus        86 iDtPGh~-----------~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~-l~~---~~iivv~NK~Dl~~~  150 (408)
T 1s0u_A           86 VDSPGHE-----------TLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMALEI-LGI---DKIIIVQNKIDLVDE  150 (408)
T ss_dssp             EECSSHH-----------HHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHHHHHH-TTC---CCEEEEEECTTSSCT
T ss_pred             EECCCHH-----------HHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHHHHHH-cCC---CeEEEEEEccCCCCH
Confidence            9999943           33344445667889999999998665 4444444443332 221   579999999999865


Q ss_pred             C
Q 043441          153 N  153 (173)
Q Consensus       153 ~  153 (173)
                      +
T Consensus       151 ~  151 (408)
T 1s0u_A          151 K  151 (408)
T ss_dssp             T
T ss_pred             H
Confidence            3

>1dar_A EF-G, elongation factor G; ribosomal translocase, translational GTPase; HET: GDP; 2.40A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 PDB: 1elo_A 1ktv_A 2om7_L* 2wri_Y* 2wrk_Y* 2xsy_Y* 2xuy_Y* 2j7k_A* 2efg_A* 1jqm_B 1efg_A* 1fnm_A* 1pn6_A 2bm1_A* 2bm0_A* 2bv3_A* 3izp_E 1zn0_B 1jqs_C 2bcw_C ...

Probab=99.49  E-value=4.8e-13  Score=109.44  Aligned_cols=122  Identities=20%  Similarity=0.254  Sum_probs=79.5

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCC-c------cccC---------CCCccceeeEEEEEEeeCCceEEEEeCCC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRA-F------KSRA---------SSSGVTSTCEMQRTVLKDGQVVNVIDTPG   78 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~-~------~~~~---------~~~~~t~~~~~~~~~~~~~~~~~v~DtpG   78 (173)
                      ......+|+++|.+|+|||||+++|+.... +      ..+.         ...+.|.........+ .+..+.+|||||
T Consensus         8 ~~~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~~~~~~~-~~~~i~liDTPG   86 (691)
T 1dar_A            8 DLKRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFW-KDHRINIIDTPG   86 (691)
T ss_dssp             CGGGEEEEEEEECTTSCHHHHHHHHHHHHCC----------------------------CCEEEEEE-TTEEEEEECCCS
T ss_pred             ccccccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccceEEEEE-CCeEEEEEECcC
Confidence            345678999999999999999999983110 0      0000         0123444444455555 678999999999


Q ss_pred             CCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           79 LFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      +.+.       ..+..    .+++.+|++++|+|+++.........+..+.+.     ..|+++++||+|+...+
T Consensus        87 ~~df-------~~~~~----~~l~~aD~~ilVvDa~~g~~~~t~~~~~~~~~~-----~~p~ivviNKiD~~~~~  145 (691)
T 1dar_A           87 HVDF-------TIEVE----RSMRVLDGAIVVFDSSQGVEPQSETVWRQAEKY-----KVPRIAFANKMDKTGAD  145 (691)
T ss_dssp             STTC-------HHHHH----HHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHT-----TCCEEEEEECTTSTTCC
T ss_pred             ccch-------HHHHH----HHHHHCCEEEEEEECCCCcchhhHHHHHHHHHc-----CCCEEEEEECCCcccCC
Confidence            8753       12222    334456999999999877776665555544432     27899999999998763

>1kk1_A EIF2gamma; initiation of translation; HET: GNP; 1.80A {Pyrococcus abyssi} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1kjz_A* 1kk2_A* 1kk3_A* 1kk0_A* 2d74_A 2dcu_A*

Probab=99.48  E-value=9.8e-13  Score=101.71  Aligned_cols=122  Identities=13%  Similarity=0.214  Sum_probs=76.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccc-cCCCCccceeeEEEEEEeeC----------------------CceEE
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKS-RASSSGVTSTCEMQRTVLKD----------------------GQVVN   72 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~-~~~~~~~t~~~~~~~~~~~~----------------------~~~~~   72 (173)
                      ..+..+|+++|..++|||||+++|++...... .....+.|....+....+..                      ...+.
T Consensus         7 ~~~~~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~   86 (410)
T 1kk1_A            7 RQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVS   86 (410)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEE
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccEEE
Confidence            34568999999999999999999997532110 11112234333322211100                      15799


Q ss_pred             EEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCC-CHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           73 VIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRF-PQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        73 v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      +|||||+.           .+..........+|++++|+++++.. .......+..+... +.   .++++++||+|+..
T Consensus        87 iiDtPGh~-----------~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~~-~~---~~iivviNK~Dl~~  151 (410)
T 1kk1_A           87 FIDAPGHE-----------ALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQII-GQ---KNIIIAQNKIELVD  151 (410)
T ss_dssp             EEECSSHH-----------HHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHH-TC---CCEEEEEECGGGSC
T ss_pred             EEECCChH-----------HHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHHHHHHc-CC---CcEEEEEECccCCC
Confidence            99999953           23333344556779999999998665 44444444444332 22   57999999999986


Q ss_pred             C
Q 043441          152 D  152 (173)
Q Consensus       152 ~  152 (173)
                      .
T Consensus       152 ~  152 (410)
T 1kk1_A          152 K  152 (410)
T ss_dssp             H
T ss_pred             H
Confidence            4

>1jny_A EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-1; GTPase, alpha/beta structure, protein biosynthesis, translation; HET: GDP; 1.80A {Sulfolobus solfataricus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1skq_A* 3agj_A*

Probab=99.48  E-value=1.3e-13  Score=107.44  Aligned_cols=119  Identities=22%  Similarity=0.274  Sum_probs=72.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCC-Ccccc----------------------------CCCCccceeeEEEEEEeeC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRR-AFKSR----------------------------ASSSGVTSTCEMQRTVLKD   67 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~-~~~~~----------------------------~~~~~~t~~~~~~~~~~~~   67 (173)
                      .+..+++++|..++|||||+++|++.. .+...                            -...+.|.......... .
T Consensus         4 k~~~~I~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~giTi~~~~~~~~~-~   82 (435)
T 1jny_A            4 KPHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFET-K   82 (435)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEEC-S
T ss_pred             CCEEEEEEEeCCCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcCceeEeeEEEEec-C
Confidence            355899999999999999999998641 11100                            00123454444445555 6


Q ss_pred             CceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCC-------CCHHHHHHHHHHHHHHcccccceE
Q 043441           68 GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSR-------FPQEEEAALHSWQTLFGKKVFDYM  140 (173)
Q Consensus        68 ~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~  140 (173)
                      +..+.+|||||+.+           +...+...+..+|++++|+|+++.       ........+..+... +   ..++
T Consensus        83 ~~~~~iiDtpG~~~-----------f~~~~~~~~~~aD~~ilVvDa~~gsfe~~~~~~~qt~~~~~~~~~~-~---~~~i  147 (435)
T 1jny_A           83 KYFFTIIDAPGHRD-----------FVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTM-G---LDQL  147 (435)
T ss_dssp             SCEEEECCCSSSTT-----------HHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHT-T---CTTC
T ss_pred             CeEEEEEECCCcHH-----------HHHHHHhhhhhcCEEEEEEECCCCccccccccchHHHHHHHHHHHc-C---CCeE
Confidence            77899999999875           222334577889999999999853       111222222222221 1   1468


Q ss_pred             EEEEeCCCCCC
Q 043441          141 IVVFTGGDELE  151 (173)
Q Consensus       141 ~iv~tk~D~~~  151 (173)
                      ++++||+|+..
T Consensus       148 ivviNK~Dl~~  158 (435)
T 1jny_A          148 IVAVNKMDLTE  158 (435)
T ss_dssp             EEEEECGGGSS
T ss_pred             EEEEEcccCCC
Confidence            99999999986

>1f60_A Elongation factor EEF1A; protein-protein complex, translation; 1.67A {Saccharomyces cerevisiae} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1g7c_A* 1ije_A* 1ijf_A* 2b7b_A* 2b7c_A

Probab=99.47  E-value=1.4e-13  Score=107.89  Aligned_cols=121  Identities=17%  Similarity=0.168  Sum_probs=74.9

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCC-Cccc-------------cC---------------CCCccceeeEEEEEEeeCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRR-AFKS-------------RA---------------SSSGVTSTCEMQRTVLKDG   68 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~-~~~~-------------~~---------------~~~~~t~~~~~~~~~~~~~   68 (173)
                      +..+++++|.+++|||||+|+|++.. .+..             +.               ...+.|.......... .+
T Consensus         6 ~~~~i~iiG~~~~GKSTLi~~Ll~~~~~~~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTi~~~~~~~~~-~~   84 (458)
T 1f60_A            6 SHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFET-PK   84 (458)
T ss_dssp             EEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEEC-SS
T ss_pred             ceeEEEEEcCCCCCHHHHHHHHHHHcCCcChHHHHHhhhhHHhcCCcchhhhhhhccchhHHhcCcEEEEEEEEEec-CC
Confidence            45899999999999999999998631 1100             00               0123444444444555 67


Q ss_pred             ceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHH----HHHHHHHHHHHcccccceEEEEE
Q 043441           69 QVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEE----EAALHSWQTLFGKKVFDYMIVVF  144 (173)
Q Consensus        69 ~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~~iv~  144 (173)
                      ..+.+|||||+.+           +...+...+..+|++++|+|+++......    .+..+.+....... ..++++++
T Consensus        85 ~~~~iiDtPGh~~-----------f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~~~-v~~iivvi  152 (458)
T 1f60_A           85 YQVTVIDAPGHRD-----------FIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLG-VRQLIVAV  152 (458)
T ss_dssp             EEEEEEECCCCTT-----------HHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHTT-CCEEEEEE
T ss_pred             ceEEEEECCCcHH-----------HHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHHcC-CCeEEEEE
Confidence            7899999999663           33334467789999999999983321100    02222222211111 13599999


Q ss_pred             eCCCCCC
Q 043441          145 TGGDELE  151 (173)
Q Consensus       145 tk~D~~~  151 (173)
                      ||+|+..
T Consensus       153 NK~Dl~~  159 (458)
T 1f60_A          153 NKMDSVK  159 (458)
T ss_dssp             ECGGGGT
T ss_pred             Ecccccc
Confidence            9999984

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=99.46  E-value=6.6e-13  Score=102.51  Aligned_cols=126  Identities=15%  Similarity=0.120  Sum_probs=74.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      ..++|+|++|||||||+++|++......+.  ...|.......+.......+.++||||+.+.......+...+.    .
T Consensus       158 ~~VgLVG~~gAGKSTLL~~Lsg~~~~i~~~--~ftTl~p~~G~V~~~~~~~~~l~DtpGli~~a~~~~~L~~~fl----~  231 (416)
T 1udx_A          158 ADVGLVGYPNAGKSSLLAAMTRAHPKIAPY--PFTTLSPNLGVVEVSEEERFTLADIPGIIEGASEGKGLGLEFL----R  231 (416)
T ss_dssp             CSEEEECCGGGCHHHHHHHHCSSCCEECCC--TTCSSCCEEEEEECSSSCEEEEEECCCCCCCGGGSCCSCHHHH----H
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCccccCc--ccceecceeeEEEecCcceEEEEeccccccchhhhhhhhHHHH----H
Confidence            458999999999999999999875422221  1222233333344412378999999999763221111112222    2


Q ss_pred             ccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...+++.++++++++ .-...+ ..+.+.+......-...|.++|+||+|....
T Consensus       232 ~~era~~lL~vvDls-~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~~  284 (416)
T 1udx_A          232 HIARTRVLLYVLDAA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEE  284 (416)
T ss_dssp             HHTSSSEEEEEEETT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCH
T ss_pred             HHHHHHhhhEEeCCc-cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhhH
Confidence            235679999999996 222222 2333333332111123789999999998754

>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP, 50S subunit, cryo-EM, REAL-space refinement, ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H

Probab=99.45  E-value=1.4e-12  Score=106.90  Aligned_cols=121  Identities=20%  Similarity=0.251  Sum_probs=79.2

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCC-ccc------cC---------CCCccceeeEEEEEEeeCC-------ceEE
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRA-FKS------RA---------SSSGVTSTCEMQRTVLKDG-------QVVN   72 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~-~~~------~~---------~~~~~t~~~~~~~~~~~~~-------~~~~   72 (173)
                      .....+|+++|..|+|||||++.|+.... +..      +.         ...+.|.........+ .+       ..+.
T Consensus         7 ~~~~~~I~IiG~~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~~~~~~-~~~~~~~~~~~i~   85 (704)
T 2rdo_7            7 IARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTAFW-SGMAKQYEPHRIN   85 (704)
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeeceEEEEE-CCccccCCceeEE
Confidence            45678999999999999999999974311 100      00         0123344444444444 44       7899


Q ss_pred             EEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           73 VIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        73 v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +|||||..++.       .+.    ..+++.+|++|+|+|+++.........++.+..   .  ..|+++++||+|+...
T Consensus        86 liDTPG~~df~-------~~~----~~~l~~aD~aIlVvDa~~gv~~qt~~~~~~~~~---~--~ip~ilviNKiD~~~~  149 (704)
T 2rdo_7           86 IIDTPGHVDFT-------IEV----ERSMRVLDGAVMVYCAVGGVQPQSETVWRQANK---Y--KVPRIAFVNKMDRMGA  149 (704)
T ss_pred             EEeCCCccchH-------HHH----HHHHHHCCEEEEEEeCCCCCcHHHHHHHHHHHH---c--CCCEEEEEeCCCcccc
Confidence            99999987531       122    234556799999999986665555444443332   1  2789999999999876


Q ss_pred             C
Q 043441          153 N  153 (173)
Q Consensus       153 ~  153 (173)
                      +
T Consensus       150 ~  150 (704)
T 2rdo_7          150 N  150 (704)
T ss_pred             c
Confidence            3

>1g7s_A Translation initiation factor IF2/EIF5B; translational GTPase; HET: GDP; 2.00A {Methanothermobacterthermautotrophicus} SCOP: b.43.3.1 b.43.3.1 c.20.1.1 c.37.1.8 PDB: 1g7r_A* 1g7t_A*

Probab=99.45  E-value=3e-13  Score=108.69  Aligned_cols=116  Identities=16%  Similarity=0.186  Sum_probs=76.8

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-----------------CCceEEEEeCCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-----------------DGQVVNVIDTPGLF   80 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-----------------~~~~~~v~DtpG~~   80 (173)
                      +.++|+++|.+++|||||+++|++.......  +.+.|.........+.                 ....+.+|||||+.
T Consensus         4 r~~~V~IvGh~d~GKTTLl~~L~~~~v~~~e--~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe   81 (594)
T 1g7s_A            4 RSPIVSVLGHVDHGKTTLLDHIRGSAVASRE--AGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHE   81 (594)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHHHSCC------CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTS
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhcccCcccc--CCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcH
Confidence            4579999999999999999999875432111  1112211111111110                 11258999999998


Q ss_pred             CCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           81 DFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      ++.....           ..++.+|++++|+|+++.+.......++.+...     ..|+++++||+|+..
T Consensus        82 ~F~~~~~-----------r~~~~aD~aILVvDa~~Gv~~qT~e~l~~l~~~-----~vPiIVViNKiDl~~  136 (594)
T 1g7s_A           82 AFTTLRK-----------RGGALADLAILIVDINEGFKPQTQEALNILRMY-----RTPFVVAANKIDRIH  136 (594)
T ss_dssp             CCTTSBC-----------SSSBSCSEEEEEEETTTCCCHHHHHHHHHHHHT-----TCCEEEEEECGGGST
T ss_pred             HHHHHHH-----------HHHhhCCEEEEEEECCCCccHhHHHHHHHHHHc-----CCeEEEEeccccccc
Confidence            7643322           356678999999999977777666666655432     278999999999974

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.44  E-value=2.2e-12  Score=99.68  Aligned_cols=129  Identities=17%  Similarity=0.145  Sum_probs=68.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCC----CCccceeeEEEEEEe---eCCceEEEEeCCCCCCCCCCc---H
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRAS----SSGVTSTCEMQRTVL---KDGQVVNVIDTPGLFDFSAGS---E   87 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~----~~~~t~~~~~~~~~~---~~~~~~~v~DtpG~~~~~~~~---~   87 (173)
                      -...|+|+|++|+|||||+|.|+|......+..    ....+..........   .....+.++||||+.......   .
T Consensus        30 vsf~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~~~~~~~Ltv~Dt~g~~~~~~~~~~~~  109 (418)
T 2qag_C           30 FEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQ  109 (418)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC------CEEEEEEECC-----------CH
T ss_pred             CCEEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEecCCcccceeeeechhhhhhccchhhHH
Confidence            345789999999999999999999765322210    001122211111111   012368999999998642211   1


Q ss_pred             HHHH----HHHHH-------HHhccCC--ceEEEEEeecC-CCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           88 FVGM----EIVKC-------IGLAKDG--IHAVLVGFSVR-SRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        88 ~~~~----~~~~~-------~~~~~~~--~~~ii~v~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .+..    .+...       +...+.+  +|+++++++.+ ..++..+..+++.+.    .  ..++++|+||+|++..
T Consensus       110 ~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~L~----~--~v~iIlVinK~Dll~~  182 (418)
T 2qag_C          110 PVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLH----E--KVNIIPLIAKADTLTP  182 (418)
T ss_dssp             HHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHHHT----T--TSEEEEEEESTTSSCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHHHh----c--cCcEEEEEEcccCccH
Confidence            1111    11111       1223333  45667776664 477777766655553    2  2789999999999864

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.43  E-value=4.6e-13  Score=102.18  Aligned_cols=101  Identities=13%  Similarity=0.185  Sum_probs=70.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      +++++|.+++|||||+++|+          ..+.|.........+ .+..+.+|||||+.+.       ...+.    ..
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~----------~~giTi~~~~~~~~~-~~~~i~iiDtPGh~~f-------~~~~~----~~   80 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG----------KKGTSSDITMYNNDK-EGRNMVFVDAHSYPKT-------LKSLI----TA   80 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS----------EEEEESSSEEEEECS-SSSEEEEEECTTTTTC-------HHHHH----HH
T ss_pred             EEEEECCCCCCHHHHHHHHH----------hCCEEEEeeEEEEec-CCeEEEEEECCChHHH-------HHHHH----HH
Confidence            89999999999999999998          123344444445555 6678999999998753       22233    33


Q ss_pred             cCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceE-EEEEe-CCCC
Q 043441          101 KDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYM-IVVFT-GGDE  149 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-~iv~t-k~D~  149 (173)
                      ++.+|++++|+| ...........+..+... +    .|. ++++| |+|+
T Consensus        81 ~~~aD~ailVvd-~~g~~~qt~e~~~~~~~~-~----i~~~ivvvNNK~Dl  125 (370)
T 2elf_A           81 LNISDIAVLCIP-PQGLDAHTGECIIALDLL-G----FKHGIIALTRSDST  125 (370)
T ss_dssp             HHTCSEEEEEEC-TTCCCHHHHHHHHHHHHT-T----CCEEEEEECCGGGS
T ss_pred             HHHCCEEEEEEc-CCCCcHHHHHHHHHHHHc-C----CCeEEEEEEeccCC
Confidence            457799999999 656555555555444432 2    344 88898 9998

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=99.40  E-value=1.1e-12  Score=95.97  Aligned_cols=127  Identities=20%  Similarity=0.198  Sum_probs=72.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC-----ccceeeEEEEEEe---eCCceEEEEeCCCCCCCCCCc---HH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSS-----GVTSTCEMQRTVL---KDGQVVNVIDTPGLFDFSAGS---EF   88 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~-----~~t~~~~~~~~~~---~~~~~~~v~DtpG~~~~~~~~---~~   88 (173)
                      .+++++|++|||||||+|.|+|......+....     ..+..........   .-...+.++|+||+.......   +.
T Consensus         3 f~v~lvG~nGaGKSTLln~L~g~~~~~~G~i~~~g~~i~~~~~~~~i~~v~q~~~~~~~ltv~d~~~~g~~~~~~~~~~~   82 (270)
T 3sop_A            3 FNIMVVGQSGLGKSTLVNTLFKSQVSRKASSWNREEKIPKTVEIKAIGHVIEEGGVKMKLTVIDTPGFGDQINNENCWEP   82 (270)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHHHC------------CCCCCSCCEEEESCC----CCEEEEECCCC--CCSBCTTCSHH
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCCCCCCccccCCcccCcceeeeeeEEEeecCCCcCCceEEechhhhhhcccHHHHHH
Confidence            579999999999999999999866544442111     1111111111111   012368999999997643211   12


Q ss_pred             HH----HHHHHHHHh----------ccCCceEEEEEeec-CCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           89 VG----MEIVKCIGL----------AKDGIHAVLVGFSV-RSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        89 ~~----~~~~~~~~~----------~~~~~~~ii~v~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +.    .++......          ...++++.+++++. +..++..+...++.+.+.      .++++|++|+|.+..
T Consensus        83 i~~~~~~~~~~~~~~~LS~G~~qrv~iaRal~~lllldep~~gL~~lD~~~l~~L~~~------~~vI~Vi~K~D~lt~  155 (270)
T 3sop_A           83 IEKYINEQYEKFLKEEVNIARKKRIPDTRVHCCLYFISPTGHSLRPLDLEFMKHLSKV------VNIIPVIAKADTMTL  155 (270)
T ss_dssp             HHHHHHHHHHHHHHHHSCTTCCSSCCCCSCCEEEEEECCCSSSCCHHHHHHHHHHHTT------SEEEEEETTGGGSCH
T ss_pred             HHHHHHHHHHhhhHHhcCcccchhhhhheeeeeeEEEecCCCcCCHHHHHHHHHHHhc------CcEEEEEeccccCCH
Confidence            21    112221111          22345777888875 357888887776666543      679999999999975

>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus} PDB: 2ywf_A* 2ywg_A* 2ywh_A*

Probab=99.40  E-value=1.1e-12  Score=105.33  Aligned_cols=120  Identities=21%  Similarity=0.265  Sum_probs=71.5

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCC-ccc-c--C---------CCCccceeeEEEEEEee--C--CceEEEEeCCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRA-FKS-R--A---------SSSGVTSTCEMQRTVLK--D--GQVVNVIDTPGLF   80 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~-~~~-~--~---------~~~~~t~~~~~~~~~~~--~--~~~~~v~DtpG~~   80 (173)
                      ..++++++|..++|||||+++|+.... ... +  .         ...+.|.........+.  +  ...+.+|||||+.
T Consensus         5 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPGh~   84 (600)
T 2ywe_A            5 NVRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPGHV   84 (600)
T ss_dssp             GEEEEEEECC--CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECTTSCEEEEEEECCCCSG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCCcH
Confidence            457999999999999999999975211 000 0  0         01123333222233331  1  2478899999987


Q ss_pred             CCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           81 DFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ++       ..++.    .++..+|++++|+|+++.........+....+   .  ..|+++++||+|+...+
T Consensus        85 dF-------~~ev~----r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~---~--~ipiIvviNKiDl~~a~  141 (600)
T 2ywe_A           85 DF-------SYEVS----RALAACEGALLLIDASQGIEAQTVANFWKAVE---Q--DLVIIPVINKIDLPSAD  141 (600)
T ss_dssp             GG-------HHHHH----HHHHTCSEEEEEEETTTBCCHHHHHHHHHHHH---T--TCEEEEEEECTTSTTCC
T ss_pred             hH-------HHHHH----HHHHhCCEEEEEEECCCCccHHHHHHHHHHHH---C--CCCEEEEEeccCccccC
Confidence            53       22233    33456799999999987766655443333222   2  27899999999998653

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.39  E-value=1e-12  Score=105.62  Aligned_cols=120  Identities=19%  Similarity=0.226  Sum_probs=69.2

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCC-cccc------------CCCCccceeeEEEEEEee--C--CceEEEEeCCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRA-FKSR------------ASSSGVTSTCEMQRTVLK--D--GQVVNVIDTPGLF   80 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~-~~~~------------~~~~~~t~~~~~~~~~~~--~--~~~~~v~DtpG~~   80 (173)
                      ..++++++|..++|||||+++|+.... ....            -...+.|.........+.  +  ...+.+|||||+.
T Consensus         3 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh~   82 (599)
T 3cb4_D            3 NIRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGHV   82 (599)
T ss_dssp             TEEEEEEECCC----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCCG
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCch
Confidence            457999999999999999999975221 0000            001233443333444442  1  2578899999987


Q ss_pred             CCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           81 DFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ++       ..+...    ++..+|++++|+|+++.........+....+   .  ..|+++++||+|+...+
T Consensus        83 dF-------~~ev~~----~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~---~--~ipiIvViNKiDl~~a~  139 (599)
T 3cb4_D           83 DF-------SYEVSR----SLAACEGALLVVDAGQGVEAQTLANCYTAME---M--DLEVVPVLNKIDLPAAD  139 (599)
T ss_dssp             GG-------HHHHHH----HHHHCSEEEEEEETTTCCCTHHHHHHHHHHH---T--TCEEEEEEECTTSTTCC
T ss_pred             HH-------HHHHHH----HHHHCCEEEEEEECCCCCCHHHHHHHHHHHH---C--CCCEEEeeeccCccccc
Confidence            53       223333    3445699999999987776655444333322   2  27899999999998753

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.39  E-value=4.5e-12  Score=101.16  Aligned_cols=120  Identities=17%  Similarity=0.230  Sum_probs=85.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCc------------------c--ccCCCCccceeeEEEEEEeeCCceEEEEeC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAF------------------K--SRASSSGVTSTCEMQRTVLKDGQVVNVIDT   76 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~------------------~--~~~~~~~~t~~~~~~~~~~~~~~~~~v~Dt   76 (173)
                      .+.++|+|+|-.++|||||..+|+-....                  +  ..-...+.|.........+ ++..+.++||
T Consensus        29 ~r~RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGITI~s~~~~~~~-~~~~iNlIDT  107 (548)
T 3vqt_A           29 ARRRTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQFPY-RDRVVNLLDT  107 (548)
T ss_dssp             HTEEEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC--------------------CTTTEEEEEE-TTEEEEEECC
T ss_pred             cccceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCCcEeeceEEEEE-CCEEEEEEeC
Confidence            46789999999999999999988621100                  0  0012235566666677777 8899999999


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           77 PGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        77 pG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ||..++.       .+..+.+.    -+|+.++|+|+.+.........++...+.   .  .|.++++||+|+...+
T Consensus       108 PGHvDF~-------~Ev~raL~----~~DgAvlVvda~~GV~~qT~~v~~~a~~~---~--lp~i~fINK~Dr~~ad  168 (548)
T 3vqt_A          108 PGHQDFS-------EDTYRVLT----AVDSALVVIDAAKGVEAQTRKLMDVCRMR---A--TPVMTFVNKMDREALH  168 (548)
T ss_dssp             CCGGGCS-------HHHHHHHH----SCSEEEEEEETTTBSCHHHHHHHHHHHHT---T--CCEEEEEECTTSCCCC
T ss_pred             CCcHHHH-------HHHHHHHH----hcCceEEEeecCCCcccccHHHHHHHHHh---C--CceEEEEecccchhcc
Confidence            9999873       34444443    45999999999988888877776665553   2  7899999999998764

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.38  E-value=5.5e-14  Score=113.12  Aligned_cols=121  Identities=18%  Similarity=0.191  Sum_probs=59.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccc--------------c---------------CCCCccceeeEEEEEEee
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKS--------------R---------------ASSSGVTSTCEMQRTVLK   66 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~--------------~---------------~~~~~~t~~~~~~~~~~~   66 (173)
                      ..+..+|+++|.+++|||||++.|++......              +               -...+.|.......... 
T Consensus       174 ~k~~~~I~iiG~~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~GiTid~~~~~~~~-  252 (592)
T 3mca_A          174 PKPVVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERARGVTMDVASTTFES-  252 (592)
T ss_dssp             CCCEEEEEEECCSSSTHHHHHHHHHHHHHCC-------------------------------------------------
T ss_pred             CCCccEEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcCCeeEEeeEEEEEe-
Confidence            34567899999999999999999964210000              0               00224455555555555 


Q ss_pred             CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCC-----C--CHHHHHHHHHHHHHHcccccce
Q 043441           67 DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSR-----F--PQEEEAALHSWQTLFGKKVFDY  139 (173)
Q Consensus        67 ~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~-----~--~~~~~~~~~~l~~~~~~~~~~~  139 (173)
                      .+..+.+|||||+.+....           +...+..+|++|+|+++++.     +  .......+..+... +   ..+
T Consensus       253 ~~~~i~iiDTPGh~~f~~~-----------~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~l-g---ip~  317 (592)
T 3mca_A          253 DKKIYEIGDAPGHRDFISG-----------MIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRAL-G---ISE  317 (592)
T ss_dssp             ------CCEEESSSEEEEE-----------CCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHHS-S---CCC
T ss_pred             CCeEEEEEECCChHHHHHH-----------HHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHHc-C---CCe
Confidence            5678999999998753211           12345678999999999743     2  33333443333332 2   135


Q ss_pred             EEEEEeCCCCCCC
Q 043441          140 MIVVFTGGDELED  152 (173)
Q Consensus       140 ~~iv~tk~D~~~~  152 (173)
                      +++|+||+|+...
T Consensus       318 iIvviNKiDl~~~  330 (592)
T 3mca_A          318 IVVSVNKLDLMSW  330 (592)
T ss_dssp             EEEEEECGGGGTT
T ss_pred             EEEEEeccccccc
Confidence            8999999998763

>2dy1_A Elongation factor G; translocation, GTP complex, structural genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1wdt_A*

Probab=99.38  E-value=3.7e-12  Score=103.89  Aligned_cols=117  Identities=26%  Similarity=0.256  Sum_probs=79.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCc--cccCC--------------CCccceeeEEEEEEeeCCceEEEEeCCCCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAF--KSRAS--------------SSGVTSTCEMQRTVLKDGQVVNVIDTPGLF   80 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~--~~~~~--------------~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~   80 (173)
                      ....+++++|.+|+|||||++.|++....  ..+..              ..+.+...+...... ....+.+|||||..
T Consensus         7 ~~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~-~~~~~nliDTpG~~   85 (665)
T 2dy1_A            7 AMIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLF-RGHRVFLLDAPGYG   85 (665)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEE-TTEEEEEEECCCSG
T ss_pred             CCCcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEee-CCEEEEEEeCCCcc
Confidence            46789999999999999999999843211  00100              012344444445555 67789999999976


Q ss_pred             CCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCC
Q 043441           81 DFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDEL  150 (173)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~  150 (173)
                      +.       ..+..    .+++.+|++++|+|+.+........+++.+...     ..|+++++||+|+.
T Consensus        86 ~f-------~~~~~----~~l~~ad~~ilVvD~~~g~~~qt~~~~~~~~~~-----~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           86 DF-------VGEIR----GALEAADAALVAVSAEAGVQVGTERAWTVAERL-----GLPRMVVVTKLDKG  139 (665)
T ss_dssp             GG-------HHHHH----HHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHT-----TCCEEEEEECGGGC
T ss_pred             ch-------HHHHH----HHHhhcCcEEEEEcCCcccchhHHHHHHHHHHc-----cCCEEEEecCCchh
Confidence            52       12233    334456999999999877777766666555542     27899999999998

>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA polymerase, translation, transferase-RNA complex; HET: GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A* 3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G* 1efu_B

Probab=99.38  E-value=7e-12  Score=106.20  Aligned_cols=119  Identities=14%  Similarity=0.145  Sum_probs=77.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCC------ccc--------cCCCCccceeeEEEEEEeeCCceEEEEeCCCCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRA------FKS--------RASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   81 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~------~~~--------~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~   81 (173)
                      ..+..+|+++|..++|||||+++|++...      +..        .....+.|.......... .+..+.+|||||+. 
T Consensus       293 ~k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~~-~~~kI~IIDTPGHe-  370 (1289)
T 3avx_A          293 TKPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDT-PTRHYAHVDCPGHA-  370 (1289)
T ss_dssp             CCCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEEC-SSCEEEEEECCCHH-
T ss_pred             cCCeeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEcC-CCEEEEEEECCChH-
Confidence            34568999999999999999999986310      000        001123333333333343 56789999999955 


Q ss_pred             CCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccce-EEEEEeCCCCCC
Q 043441           82 FSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDY-MIVVFTGGDELE  151 (173)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~~iv~tk~D~~~  151 (173)
                                ++.......+..+|++|+|+|+++.........+..+... +    .| +++++||+|+..
T Consensus       371 ----------dF~~~mi~gas~AD~aILVVDAtdGv~~QTrEhL~ll~~l-g----IP~IIVVINKiDLv~  426 (1289)
T 3avx_A          371 ----------DYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLGRQV-G----VPYIIVFLNKCDMVD  426 (1289)
T ss_dssp             ----------HHHHHHHHTSCCCSEEEEEEETTTCSCTTHHHHHHHHHHH-T----CSCEEEEEECCTTCC
T ss_pred             ----------HHHHHHHHHHhhCCEEEEEEcCCccCcHHHHHHHHHHHHc-C----CCeEEEEEeeccccc
Confidence                      3344445678899999999999876665555555544432 1    45 789999999985

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.38  E-value=3.8e-12  Score=98.23  Aligned_cols=128  Identities=15%  Similarity=0.188  Sum_probs=69.9

Q ss_pred             CCccE--EEEEcCCCCCHHHHHHHHhCCCCccccCC--CCccceeeEEEEEEeeCC---ceEEEEeCCCCCCCCCCc---
Q 043441           17 NGVRT--VVFVGRTGNGKSATGNSILGRRAFKSRAS--SSGVTSTCEMQRTVLKDG---QVVNVIDTPGLFDFSAGS---   86 (173)
Q Consensus        17 ~~~~~--i~lvG~~g~GKStlin~l~~~~~~~~~~~--~~~~t~~~~~~~~~~~~~---~~~~v~DtpG~~~~~~~~---   86 (173)
                      .++..  ++|+|++|||||||+|.|+|.........  ....+.  ....+.....   ..+.++|+||+.......   
T Consensus        38 ~~Gei~~vaLvG~nGaGKSTLln~L~G~~l~g~~~~~~~~~~~~--~~i~~v~Q~~~l~~~ltv~D~~~~g~~~~~~~~~  115 (427)
T 2qag_B           38 SQGFCFNILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQL--QSNTYDLQESNVRLKLTIVSTVGFGDQINKEDSY  115 (427)
T ss_dssp             C-CCEEEEEEECSTTSSSHHHHHHHHTSCC-------CCSSCEE--EEEEEEEEC--CEEEEEEEEEECCCC-CCHHHHS
T ss_pred             cCCCeeEEEEECCCCCCHHHHHHHHhCccccCCcCCCCCccceE--eeEEEEeecCccccccchhhhhhhhhccccchhh
Confidence            34445  99999999999999999999753221111  111111  1122211111   268999999998642211   


Q ss_pred             HH----HHHHHHHHHHhc---------cCC--ce-EEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCC
Q 043441           87 EF----VGMEIVKCIGLA---------KDG--IH-AVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDEL  150 (173)
Q Consensus        87 ~~----~~~~~~~~~~~~---------~~~--~~-~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~  150 (173)
                      ..    +..++...+...         ..+  +| +++|++++...++..+...++.+.    ..  .++++|+||+|.+
T Consensus       116 ~~i~~~i~~q~~~~L~e~~~i~r~l~~~~d~rVh~~v~fI~d~~~~l~~~Dieilk~L~----~~--~~vI~Vi~KtD~L  189 (427)
T 2qag_B          116 KPIVEFIDAQFEAYLQEELKIRRVLHTYHDSRIHVCLYFIAPTGHSLKSLDLVTMKKLD----SK--VNIIPIIAKADAI  189 (427)
T ss_dssp             HHHHHHHHHHHHHHHHHC--CCCCCCCSCC--CCEEEEEECCCC---CHHHHHHHHHTC----SC--SEEEEEESCGGGS
T ss_pred             hHHHHHHHHHHHHHHHHHHhhhhhhcccccccccEEEEEEeCCCCCCCHHHHHHHHHHh----hC--CCEEEEEcchhcc
Confidence            11    122222222221         112  34 366677777677777766555543    22  7899999999999


Q ss_pred             CC
Q 043441          151 ED  152 (173)
Q Consensus       151 ~~  152 (173)
                      ..
T Consensus       190 t~  191 (427)
T 2qag_B          190 SK  191 (427)
T ss_dssp             CH
T ss_pred             ch
Confidence            75

>1r5b_A Eukaryotic peptide chain release factor GTP-bindi subunit; translation termination, peptide release, GTPase, translatio; 2.35A {Schizosaccharomyces pombe} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1r5n_A* 1r5o_A* 3e20_A

Probab=99.35  E-value=9.3e-13  Score=103.40  Aligned_cols=121  Identities=17%  Similarity=0.128  Sum_probs=65.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCC-Cccc-------------c---------------CCCCccceeeEEEEEEeeC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRR-AFKS-------------R---------------ASSSGVTSTCEMQRTVLKD   67 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~-~~~~-------------~---------------~~~~~~t~~~~~~~~~~~~   67 (173)
                      .+..+|+++|..++|||||++.|+... .+..             +               -...+.|.......... .
T Consensus        41 k~~~~i~iiG~vd~GKSTLi~~Ll~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~~~D~~~~er~~giTi~~~~~~~~~-~  119 (467)
T 1r5b_A           41 KEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFET-E  119 (467)
T ss_dssp             CEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEEC-S
T ss_pred             CCeeEEEEEECCCCCHHHHHHHHHHHhCCCChHHHHHHHhHHHhcCCcchhhhhhcccchhhhhcCceEEeeeEEEec-C
Confidence            456789999999999999999997421 0100             0               00123444444444555 6


Q ss_pred             CceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHH----HHHHHHHHHHHHcccccce-EEE
Q 043441           68 GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQE----EEAALHSWQTLFGKKVFDY-MIV  142 (173)
Q Consensus        68 ~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~-~~i  142 (173)
                      +..+.+|||||+.+.           ...+...+..+|++|+|+|+++..-..    ..++.+.+......  ..| +++
T Consensus       120 ~~~~~iiDtPGh~~f-----------~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~--~vp~iiv  186 (467)
T 1r5b_A          120 HRRFSLLDAPGHKGY-----------VTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQ--GINHLVV  186 (467)
T ss_dssp             SEEEEECCCCC----------------------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHT--TCSSEEE
T ss_pred             CeEEEEEECCCcHHH-----------HHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHc--CCCEEEE
Confidence            788999999997642           222334567889999999998542100    01122222222111  144 999


Q ss_pred             EEeCCCCCC
Q 043441          143 VFTGGDELE  151 (173)
Q Consensus       143 v~tk~D~~~  151 (173)
                      ++||+|+..
T Consensus       187 viNK~Dl~~  195 (467)
T 1r5b_A          187 VINKMDEPS  195 (467)
T ss_dssp             EEECTTSTT
T ss_pred             EEECccCCC
Confidence            999999964

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=99.33  E-value=1.6e-11  Score=91.18  Aligned_cols=130  Identities=21%  Similarity=0.152  Sum_probs=62.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC-----ccceeeEEEEEEe---eCCceEEEEeCCCCCCCCC---C
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSS-----GVTSTCEMQRTVL---KDGQVVNVIDTPGLFDFSA---G   85 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~-----~~t~~~~~~~~~~---~~~~~~~v~DtpG~~~~~~---~   85 (173)
                      .-..+|+|+|++|+|||||+|.|++...+.......     ..+..........   .....+.++||||+.....   .
T Consensus        16 ~~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~~~ltv~Dt~g~~~~~~~~e~   95 (301)
T 2qnr_A           16 GFEFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDC   95 (301)
T ss_dssp             --CEEEEEEEETTSSHHHHHHHHHC------------------------CEEEEC---CCEEEEEEEEC-----------
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcccCcchhhhhhhhhhcCcHHH
Confidence            344788999999999999999999863332211110     0111111111111   0234789999999953211   0


Q ss_pred             cHHHHHHHH----HHHHh---------ccCCceEEEEEeecCC-CCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           86 SEFVGMEIV----KCIGL---------AKDGIHAVLVGFSVRS-RFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        86 ~~~~~~~~~----~~~~~---------~~~~~~~ii~v~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                      .......+.    ..+..         ...++++++++.+.+. .+...+..   .++.. ...  .++++|+||+|+..
T Consensus        96 ~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~~~Ld~~~~~---~l~~l-~~~--~~iilV~~K~Dl~~  169 (301)
T 2qnr_A           96 FKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVA---FMKAI-HNK--VNIVPVIAKADTLT  169 (301)
T ss_dssp             CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSSSSCCHHHHH---HHHHH-TTT--SCEEEEECCGGGSC
T ss_pred             HHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCcccCCCHHHHH---HHHHH-Hhc--CCEEEEEEeCCCCC
Confidence            111111111    11111         1223456777776543 47776643   34443 222  68999999999986


Q ss_pred             C
Q 043441          152 D  152 (173)
Q Consensus       152 ~  152 (173)
                      .
T Consensus       170 ~  170 (301)
T 2qnr_A          170 L  170 (301)
T ss_dssp             H
T ss_pred             H
Confidence            4

>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation; HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A* 1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T* 2zit_A* 1u2r_A* 3b78_A* 3b8h_A*

Probab=99.30  E-value=4.1e-12  Score=105.94  Aligned_cols=118  Identities=24%  Similarity=0.280  Sum_probs=75.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccC--------------CCCccceeeEEEEEEee---------------C
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA--------------SSSGVTSTCEMQRTVLK---------------D   67 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~--------------~~~~~t~~~~~~~~~~~---------------~   67 (173)
                      ....+|+++|..++|||||+++|++........              ...+.|.........+.               .
T Consensus        17 ~~~rnI~IiG~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~~   96 (842)
T 1n0u_A           17 TNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGN   96 (842)
T ss_dssp             GGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSS
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEecccccccccccccccCC
Confidence            456799999999999999999998642111000              01122332222233331               1


Q ss_pred             CceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCC
Q 043441           68 GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGG  147 (173)
Q Consensus        68 ~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~  147 (173)
                      +..+.+|||||+.++..       +..    .+++.+|++++|+|+.+.........+..+..   .  ..|+++++||+
T Consensus        97 ~~~i~liDTPG~~df~~-------~~~----~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~~---~--~~p~ilviNK~  160 (842)
T 1n0u_A           97 SFLINLIDSPGHVDFSS-------EVT----AALRVTDGALVVVDTIEGVCVQTETVLRQALG---E--RIKPVVVINKV  160 (842)
T ss_dssp             EEEEEEECCCCCCSSCH-------HHH----HHHHTCSEEEEEEETTTBSCHHHHHHHHHHHH---T--TCEEEEEEECH
T ss_pred             CceEEEEECcCchhhHH-------HHH----HHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHH---c--CCCeEEEEECC
Confidence            45789999999987531       122    34456799999999987777666544433322   2  27899999999


Q ss_pred             CCC
Q 043441          148 DEL  150 (173)
Q Consensus       148 D~~  150 (173)
                      |+.
T Consensus       161 D~~  163 (842)
T 1n0u_A          161 DRA  163 (842)
T ss_dssp             HHH
T ss_pred             Ccc
Confidence            987

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens}

Probab=99.26  E-value=2.7e-12  Score=93.26  Aligned_cols=49  Identities=18%  Similarity=0.179  Sum_probs=32.1

Q ss_pred             CceEEEEEeecCCC--CCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          103 GIHAVLVGFSVRSR--FPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       103 ~~~~ii~v~~~~~~--~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ++|++++|+|+++.  .+.+. ..++..+.+.... ...|+++|.||+|+...
T Consensus       162 ~ad~vilV~D~t~~~~~s~~~~~~~l~~i~~~~~~-~~~piilV~NK~Dl~~~  213 (255)
T 3c5h_A          162 LVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAK-TKKPIVVVLTKCDEGVE  213 (255)
T ss_dssp             ECCEEEEEEECBC----CHHHHHHHHHHHHHHHHH-TTCCEEEEEECGGGBCH
T ss_pred             cCCEEEEEEECCCCchhhHHHHHHHHHHHHHHhcc-CCCCEEEEEEccccccc
Confidence            58999999999854  34332 3455555443211 23799999999998654

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.24  E-value=1e-10  Score=96.15  Aligned_cols=121  Identities=26%  Similarity=0.299  Sum_probs=82.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCc-------ccc---------CCCCccceeeEEEEEEee------CCceEEEE
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAF-------KSR---------ASSSGVTSTCEMQRTVLK------DGQVVNVI   74 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~-------~~~---------~~~~~~t~~~~~~~~~~~------~~~~~~v~   74 (173)
                      ++.++|+|+|..++|||||..+|+-....       ..+         -...+.|.........+.      ++..+.++
T Consensus        11 ~~IRNi~IiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~~~~~~D~~~~E~eRGITI~s~~~s~~~~~~~~~~~~~~iNlI   90 (709)
T 4fn5_A           11 NRYRNIGICAHVDAGKTTTTERVLFYTGVNHKLGEVHDGAATTDWMVQEQERGITITSAAVTTFWKGSRGQYDNYRVNVI   90 (709)
T ss_dssp             GGEEEEEEECCSSSCHHHHHHHHHHHHHHHHHC------------------------CCEEEEEECCTTSCSCCEEEEEE
T ss_pred             HHCeEEEEEcCCCCCHHHHHHHHHHhcCCCCcCceecCCCccCCChHHHHHcCCeEEeeeEEEEeccCcCCCCCEEEEEE
Confidence            56789999999999999999988631110       001         112345555555555552      13478999


Q ss_pred             eCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           75 DTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        75 DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ||||+.++       ..+..+.+..+    |+.++|+|+.+......+..++...+.   .  .|.++++||+|+...+
T Consensus        91 DTPGHvDF-------~~Ev~~aLr~~----DgavlvVDaveGV~~qT~~v~~~a~~~---~--lp~i~~iNKiDr~~a~  153 (709)
T 4fn5_A           91 DTPGHVDF-------TIEVERSLRVL----DGAVVVFCGTSGVEPQSETVWRQANKY---G--VPRIVYVNKMDRQGAN  153 (709)
T ss_dssp             CCCSCTTC-------HHHHHHHHHHC----SEEEEEEETTTCSCHHHHHHHHHHHHH---T--CCEEEEEECSSSTTCC
T ss_pred             eCCCCccc-------HHHHHHHHHHh----CeEEEEEECCCCCchhHHHHHHHHHHc---C--CCeEEEEccccccCcc
Confidence            99999987       44566555555    999999999988888877776665554   2  7899999999998763

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.22  E-value=1e-11  Score=100.85  Aligned_cols=118  Identities=18%  Similarity=0.266  Sum_probs=84.8

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHh---CCCCc----cccCC---------CCccceeeEEEEEEeeCCceEEEEeCCCCCCC
Q 043441           19 VRTVVFVGRTGNGKSATGNSIL---GRRAF----KSRAS---------SSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   82 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~---~~~~~----~~~~~---------~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~   82 (173)
                      .++|+++|..++|||||..+|+   |...-    ..+..         ..+.|.........+ ++..+.++||||+.++
T Consensus         2 IRNi~IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~~~~-~~~~iNlIDTPGH~DF   80 (638)
T 3j25_A            2 IINIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQW-ENTKVNIIDTPGHMDF   80 (638)
T ss_dssp             CCCCEEECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCCCBC-SSCBCCCEECCCSSST
T ss_pred             eeEEEEEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEEEEE-CCEEEEEEECCCcHHH
Confidence            4689999999999999999885   21110    00100         014555556666677 7888999999999986


Q ss_pred             CCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           83 SAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                             ..+..+.    ++-+|+.++|+|+.+......+..++...+.   .  .|.++++||+|+...+
T Consensus        81 -------~~Ev~ra----L~~~DgavlVVDa~~GV~~qT~~v~~~a~~~---~--lp~i~~INKmDr~~a~  135 (638)
T 3j25_A           81 -------LAEVYRS----LSVLDGAILLISAKDGVQAQTRILFHALRKM---G--IPTIFFINKIDQNGID  135 (638)
T ss_dssp             -------HHHHHHH----HTTCSEEECCEESSCTTCSHHHHHHHHHHHH---T--CSCEECCEECCSSSCC
T ss_pred             -------HHHHHHH----HHHhCEEEEEEeCCCCCcHHHHHHHHHHHHc---C--CCeEEEEeccccccCC
Confidence                   3345544    4456999999999888887777766666554   2  6889999999998764

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.22  E-value=5.2e-13  Score=101.83  Aligned_cols=124  Identities=18%  Similarity=0.170  Sum_probs=69.7

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCcc-----ccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFK-----SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~-----~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      ..+++++|.+|+|||||+|+|++.....     .....++.|.....  ...  ...+.++||||+.+.....+.+..+.
T Consensus       160 ~~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~~--~~~--~~~~~liDtPG~~~~~~~~~~l~~~~  235 (368)
T 3h2y_A          160 GKDVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLID--IPL--DEESSLYDTPGIINHHQMAHYVGKQS  235 (368)
T ss_dssp             TSCEEEEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC----CEEE--EES--SSSCEEEECCCBCCTTSGGGGSCHHH
T ss_pred             cceEEEecCCCCChhHHHHHHHhhhccccccceecCCCCCeecceEE--EEe--cCCeEEEeCCCcCcHHHHHHHhhHHH
Confidence            4689999999999999999999863211     11122333433332  222  23488999999987653333232222


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...+. ....++.++++++....+-......++.+..     ...|+++++||.|++..
T Consensus       236 l~~~~-~~~~i~~~~~~l~~~~~~~~g~l~~~d~l~~-----~~~~~~~v~nk~d~~~~  288 (368)
T 3h2y_A          236 LKLIT-PTKEIKPMVFQLNEEQTLFFSGLARFDYVSG-----GRRAFTCHFSNRLTIHR  288 (368)
T ss_dssp             HHHHS-CSSCCCCEEEEECTTEEEEETTTEEEEEEES-----SSEEEEEEECTTSCEEE
T ss_pred             HHHhc-cccccCceEEEEcCCCEEEEcceEEEEEecC-----CCceEEEEecCcccccc
Confidence            22221 2346677788887731111111111111211     22689999999999965

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=99.20  E-value=1.3e-10  Score=93.93  Aligned_cols=129  Identities=18%  Similarity=0.141  Sum_probs=70.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCc-cccCCCCcccee----------e-E----------------------------
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAF-KSRASSSGVTST----------C-E----------------------------   59 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~-~~~~~~~~~t~~----------~-~----------------------------   59 (173)
                      +.++|+|++||||||+++.|+|...+ .+|.........          . .                            
T Consensus        46 p~iaIvG~nGsGKSTLL~~I~Gl~~P~~sG~vt~~g~~i~~~~~~~~~~~~~~i~~v~Q~~~l~~~~tv~e~i~~~~~~~  125 (608)
T 3szr_A           46 PAIAVIGDQSSGKSSVLEALSGVALPRGSGIVTRCPLVLKLKKLVNEDKWRGKVSYQDYEIEISDASEVEKEINKAQNAI  125 (608)
T ss_dssp             CCEECCCCTTSCHHHHHHHHHSCC-------CCCSCEEEEEEECSSSSCCEEEESCC---CCCCCHHHHHTTHHHHHHHH
T ss_pred             CeEEEECCCCChHHHHHHHHhCCCCCCCCCeEEEcCEEEEEecCCccccceeEEeeecccccCCCHHHHHHHHHHHHHHh
Confidence            45999999999999999999997533 233222211110          0 0                            


Q ss_pred             ------------EEEEEeeCCceEEEEeCCCCCCC--CCCcHHHHHHHHHHHHhccCCce-EEEEEeecCCCCCHHHHHH
Q 043441           60 ------------MQRTVLKDGQVVNVIDTPGLFDF--SAGSEFVGMEIVKCIGLAKDGIH-AVLVGFSVRSRFPQEEEAA  124 (173)
Q Consensus        60 ------------~~~~~~~~~~~~~v~DtpG~~~~--~~~~~~~~~~~~~~~~~~~~~~~-~ii~v~~~~~~~~~~~~~~  124 (173)
                                  ...........+.++|.||+...  .........++...+..+..... .+++++.....+.  ....
T Consensus       126 ~~~~~~~s~~~i~l~i~~~~~p~LlLlDePGi~~~~t~~LD~~~~~~i~~li~~~l~~~~~iil~vvt~~~d~a--~~~~  203 (608)
T 3szr_A          126 AGEGMGISHELITLEISSRDVPDLTLIDLPGITRVAVGNQPADIGYKIKTLIKKYIQRQETISLVVVPSNVDIA--TTEA  203 (608)
T ss_dssp             HCSSSCCCSCCEEEEEEESSSCCEEEEECCC------CCSSCSHHHHHHHHHHHHTTSSSCCEEEEEESSSCTT--TCHH
T ss_pred             cCCccccchHHHHHHhcCCCCCceeEeeCCCccccccCCCCHHHHHHHHHHHHHHHhcCCCCceEEEeccchhc--cHHH
Confidence                        00011112246899999998753  22233345566666666544444 4444555432332  2234


Q ss_pred             HHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          125 LHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       125 ~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ++.+.+.-...  .++++|+||+|++..
T Consensus       204 l~la~~v~~~g--~rtI~VlTK~Dlv~~  229 (608)
T 3szr_A          204 LSMAQEVDPEG--DRTIGILTKPDLVDK  229 (608)
T ss_dssp             HHHHHHHCSSC--CSEEEEEECGGGSSS
T ss_pred             HHHHHHHhhcC--CceEEEecchhhcCc
Confidence            44455543222  689999999999965

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=99.19  E-value=2.4e-11  Score=92.98  Aligned_cols=94  Identities=18%  Similarity=0.086  Sum_probs=49.6

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeC----------------CceEEEEeCCC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD----------------GQVVNVIDTPG   78 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~----------------~~~~~v~DtpG   78 (173)
                      ......+++++|.+|+|||||+|+|++...  .....+..|.......+..+.                ...+.++||||
T Consensus        18 ~i~~~~kvgIVG~pnvGKSTL~n~Ltg~~~--~~~~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpG   95 (396)
T 2ohf_A           18 RFGTSLKIGIVGLPNVGKSTFFNVLTNSQA--SAENFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIAG   95 (396)
T ss_dssp             CSSSCCCEEEECCSSSSHHHHHHHHHC---------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECCC
T ss_pred             hccCCCEEEEECCCCCCHHHHHHHHHCCCc--cccCCCccccCceeEEEEECCccceeeccccCcccccccccEEEECCC
Confidence            445678999999999999999999998763  111122233322222222211                23589999999


Q ss_pred             CCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecC
Q 043441           79 LFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVR  114 (173)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~  114 (173)
                      +.......+.+...+    ...++.+|++++|+|+.
T Consensus        96 l~~~as~~~glg~~~----l~~ir~aD~Il~VvD~~  127 (396)
T 2ohf_A           96 LVKGAHNGQGLGNAF----LSHISACDGIFHLTRAF  127 (396)
T ss_dssp             -----------CCHH----HHHHHTSSSEEEEEEC-
T ss_pred             cccccchhhHHHHHH----HHHHHhcCeEEEEEecC
Confidence            987543222222222    34556789999999986

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2

Probab=99.19  E-value=1.3e-11  Score=93.48  Aligned_cols=90  Identities=16%  Similarity=0.045  Sum_probs=54.1

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeC----------------CceEEEEeCCCCCCCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD----------------GQVVNVIDTPGLFDFS   83 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~----------------~~~~~v~DtpG~~~~~   83 (173)
                      .+++++|.+|+|||||+|+|++.......  .+..|.......+.++.                ...+.++||||+....
T Consensus         3 ~kI~IVG~pnvGKSTL~n~Lt~~~~~v~~--~p~tTi~p~~g~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~~~a   80 (363)
T 1jal_A            3 FKCGIVGLPNVGKSTLFNALTKAGIEAAN--YPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGA   80 (363)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC--------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccC--CCCceECceEEEEecCCcccceeeeeecccceeeeEEEEEECCCCcccc
Confidence            68999999999999999999986621111  11223222222222211                2479999999998642


Q ss_pred             CCcHHHHHHHHHHHHhccCCceEEEEEeecCC
Q 043441           84 AGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRS  115 (173)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~  115 (173)
                      ...+.+..++.    ..++.+|++++|+|+++
T Consensus        81 ~~~~gl~~~fl----~~ir~ad~il~VvD~~~  108 (363)
T 1jal_A           81 SKGEGLGNKFL----ANIRETDAIGHVVRCFE  108 (363)
T ss_dssp             HHHGGGTCCHH----HHHHTCSEEEEEEECSC
T ss_pred             cccchHHHHHH----HHHHhcCeEEEEEecCC
Confidence            11111222222    23567899999999974

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=99.19  E-value=4.8e-13  Score=102.07  Aligned_cols=123  Identities=20%  Similarity=0.165  Sum_probs=72.0

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCC-----CCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGR-----RAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~-----~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      ..+++++|.+|+|||||+|+|++.     ..... ...++.|.....  ...  ...+.++||||+.......+.+..+.
T Consensus       162 ~~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~-~~~~gtT~~~~~--~~~--~~~~~liDtPG~~~~~~~~~~l~~~~  236 (369)
T 3ec1_A          162 GGDVYVVGCTNVGKSTFINRIIEEATGKGNVITT-SYFPGTTLDMIE--IPL--ESGATLYDTPGIINHHQMAHFVDARD  236 (369)
T ss_dssp             TSCEEEECCTTSSHHHHHHHHHHHHHHTTCCCEE-EECTTSSCEEEE--EEC--STTCEEEECCSCCCCSSGGGGSCTTT
T ss_pred             cCcEEEEcCCCCchHHHHHHHHhhccCCccceee-cCCCCeEEeeEE--EEe--CCCeEEEeCCCcCcHHHHHHHHhHHH
Confidence            468999999999999999999986     21111 122334444333  222  33489999999987643333332222


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...+. ...+++.++++++....+-......++.+..     ...++++++||.|.+..
T Consensus       237 l~~~~-~~~~i~~~~~~l~~~~~~~~g~l~~l~~l~~-----~~~~~~~v~~k~d~~~~  289 (369)
T 3ec1_A          237 LKIIT-PKREIHPRVYQLNEGQTLFFGGLARLDYIKG-----GRRSFVCYMANELTVHR  289 (369)
T ss_dssp             HHHHS-CSSCCCCEEEEECTTEEEEETTTEEEEEEES-----SSEEEEEEECTTSCEEE
T ss_pred             HHHHh-cccccCceEEEEcCCceEEECCEEEEEEccC-----CCceEEEEecCCccccc
Confidence            22221 1256788899988842211111111111111     22689999999999864

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=99.18  E-value=5.4e-11  Score=91.15  Aligned_cols=96  Identities=15%  Similarity=0.039  Sum_probs=61.7

Q ss_pred             CCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC-----------------ceEEEEe
Q 043441           13 TSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG-----------------QVVNVID   75 (173)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-----------------~~~~v~D   75 (173)
                      -.....+.+++++|++|||||||+|+|++....... ..+..|.......+.. .+                 ..+.++|
T Consensus        14 lg~v~~g~~vgiVG~pnaGKSTL~n~Ltg~~~a~~~-~~p~tTi~p~~G~v~v-~~~r~~~l~~~~~~~~~v~~~i~lvD   91 (392)
T 1ni3_A           14 WGRPGNNLKTGIVGMPNVGKSTFFRAITKSVLGNPA-NYPYATIDPEEAKVAV-PDERFDWLCEAYKPKSRVPAFLTVFD   91 (392)
T ss_dssp             CSSSSSCCEEEEEECSSSSHHHHHHHHHHSTTTSTT-CCSSCCCCTTEEEEEE-CCHHHHHHHHHHCCSEEECEEEEEEC
T ss_pred             hccccCCCEEEEECCCCCCHHHHHHHHHCCCccccc-CCCceeecceeeeeee-CCcchhhhhhhcccccccCcceEEEe
Confidence            334566789999999999999999999986531111 1222233332223333 22                 3579999


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecC
Q 043441           76 TPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVR  114 (173)
Q Consensus        76 tpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~  114 (173)
                      +||+.......+.+...+.    ..++.+|++++++++.
T Consensus        92 ~pGl~~~~s~~e~L~~~fl----~~ir~~d~il~Vvd~~  126 (392)
T 1ni3_A           92 IAGLTKGASTGVGLGNAFL----SHVRAVDAIYQVVRAF  126 (392)
T ss_dssp             TGGGCCCCCSSSSSCHHHH----HHHTTCSEEEEEEECC
T ss_pred             ccccccCCcHHHHHHHHHH----HHHHHHHHHHHHHhcc
Confidence            9999876544443333333    3345779999999985

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.15  E-value=7.2e-11  Score=89.42  Aligned_cols=25  Identities=24%  Similarity=0.069  Sum_probs=23.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .....++|+|++|||||||+|.|++
T Consensus        72 ~~~~~v~lvG~pgaGKSTLln~L~~   96 (349)
T 2www_A           72 PLAFRVGLSGPPGAGKSTFIEYFGK   96 (349)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             cCceEEEEEcCCCCCHHHHHHHHHH
Confidence            4578999999999999999999986

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=99.11  E-value=1.2e-10  Score=88.55  Aligned_cols=90  Identities=19%  Similarity=0.122  Sum_probs=55.9

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee--------------------CCceEEEEeCCCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK--------------------DGQVVNVIDTPGL   79 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~--------------------~~~~~~v~DtpG~   79 (173)
                      .+++++|.+|+|||||+|+|++.......  .+..|..........+                    ....+.++||||+
T Consensus         2 ~~v~IVG~pnvGKSTL~n~L~~~~~~v~~--~p~~Ti~pn~g~~~v~~~~l~~~~~~~~~~~~~~~~~~~~i~lvDtpGl   79 (368)
T 2dby_A            2 LAVGIVGLPNVGKSTLFNALTRANALAAN--YPFATIDKNVGVVPLEDERLYALQRTFAKGERVPPVVPTHVEFVDIAGL   79 (368)
T ss_dssp             CSEEEECCSSSSHHHHHHHHHHHHTTCSS--CCGGGGSTTEEEEECCCHHHHHHHHHHCBTTBCCCEECCEEEEEECCSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCcccC--CCCceeccceeeEecChHHHHHHHHHhcccccccccCCceEEEEECCCc
Confidence            46899999999999999999985421111  1112222111111110                    2357999999999


Q ss_pred             CCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCC
Q 043441           80 FDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRS  115 (173)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~  115 (173)
                      .......+.+..++..    .++.+|++++|+|+.+
T Consensus        80 ~~~a~~~~~lg~~fl~----~ir~ad~ii~VvD~~~  111 (368)
T 2dby_A           80 VKGAHKGEGLGNQFLA----HIREVAAIAHVLRCFP  111 (368)
T ss_dssp             CCCCCSSSCTTHHHHH----HHHTCSEEEEEEECCC
T ss_pred             cccccccchHHHHHHH----HHHhCCEEEEEEECCC
Confidence            8765433333334443    3456799999999974

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=99.09  E-value=5.6e-10  Score=89.48  Aligned_cols=110  Identities=19%  Similarity=0.154  Sum_probs=62.9

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCC-ccccCCCCccceeeEEEEEE--eeCCceEEEEeCCCCCCCCC-CcHHHH
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRA-FKSRASSSGVTSTCEMQRTV--LKDGQVVNVIDTPGLFDFSA-GSEFVG   90 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~-~~~~~~~~~~t~~~~~~~~~--~~~~~~~~v~DtpG~~~~~~-~~~~~~   90 (173)
                      ...+..+|+|+|.+|+|||||+|+|+|... +..+....+.|.........  ...+..+.++||||+.+... ......
T Consensus        34 i~~~~~~VaivG~pnvGKStLiN~L~g~~~~~~~~~tt~~~T~gi~~~~~~~~~~~~~~i~LiDTpGi~~~~~~~~~~~~  113 (592)
T 1f5n_A           34 ITQPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGDVEKGDNQNDS  113 (592)
T ss_dssp             CCSBEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCCGGGCCCTTHH
T ss_pred             ccCCCcEEEEECCCCCCHHHHHHhHcCCCCccccCCCCCCceeEEEEeecccccCCCceEEEecCCCcCcccccchhHHH
Confidence            345678899999999999999999999764 22221222333332211111  11467899999999997533 121111


Q ss_pred             HHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHH
Q 043441           91 MEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQT  130 (173)
Q Consensus        91 ~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~  130 (173)
                       .+...+ ....  .  ++++++...++..+...+..+.+
T Consensus       114 -~~fala-~lls--s--~lv~n~~~~i~~~dl~~l~~v~e  147 (592)
T 1f5n_A          114 -WIFALA-VLLS--S--TFVYNSIGTINQQAMDQLYYVTE  147 (592)
T ss_dssp             -HHHHHH-HHHC--S--EEEEEEESCSSHHHHHTTHHHHT
T ss_pred             -HHHHHH-HHhc--C--eEEEECCCCccHHHHHHHHHHHH
Confidence             222111 1111  2  45566655788877665555444

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=99.08  E-value=1.4e-09  Score=85.89  Aligned_cols=122  Identities=15%  Similarity=0.147  Sum_probs=70.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHh------CCCCccccCCC-Cccc----------eeeEEEEE----------------
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSIL------GRRAFKSRASS-SGVT----------STCEMQRT----------------   63 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~------~~~~~~~~~~~-~~~t----------~~~~~~~~----------------   63 (173)
                      .+..+|+++|.+|+||||+++.|+      |.......... .+..          ........                
T Consensus        99 ~~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D~~r~aa~~qL~~~~~~~~i~v~~~~~~~dp~~i~~~al~~  178 (504)
T 2j37_W           99 GKQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICADTFRAGAFDQLKQNATKARIPFYGSYTEMDPVIIASEGVEK  178 (504)
T ss_dssp             S--EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSSHHHHHHHHHHHHHTCCEEECCCCSCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEeccccchhHHHHHHHHhhccCceEEccCCCCCHHHHHHHHHHH
Confidence            456789999999999999999998      55432111100 0000          00111110                


Q ss_pred             -EeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccce-EE
Q 043441           64 -VLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDY-MI  141 (173)
Q Consensus        64 -~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~~  141 (173)
                       .. .+..+++|||||....   ...+..++.......  .+|.+++|+|+.....  .....+.+.+.      .+ ..
T Consensus       179 ~~~-~~~DvvIIDTpG~~~~---~~~l~~el~~~~~~i--~pd~vllVvDa~~g~~--~~~~a~~~~~~------~~i~g  244 (504)
T 2j37_W          179 FKN-ENFEIIIVDTSGRHKQ---EDSLFEEMLQVANAI--QPDNIVYVMDASIGQA--CEAQAKAFKDK------VDVAS  244 (504)
T ss_dssp             HHH-TTCCEEEEEECCCCTT---CHHHHHHHHHHHHHH--CCSEEEEEEETTCCTT--HHHHHHHHHHH------HCCCC
T ss_pred             HHH-CCCcEEEEeCCCCccc---chhHHHHHHHHHhhh--cCceEEEEEecccccc--HHHHHHHHHhh------cCceE
Confidence             01 4557999999998753   223344444443322  6789999999975433  22333333332      45 48


Q ss_pred             EEEeCCCCCCC
Q 043441          142 VVFTGGDELED  152 (173)
Q Consensus       142 iv~tk~D~~~~  152 (173)
                      +|+||+|....
T Consensus       245 vVlNK~D~~~~  255 (504)
T 2j37_W          245 VIVTKLDGHAK  255 (504)
T ss_dssp             EEEECTTSCCC
T ss_pred             EEEeCCccccc
Confidence            99999998754

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=99.06  E-value=5.3e-10  Score=82.28  Aligned_cols=66  Identities=21%  Similarity=0.301  Sum_probs=42.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSE   87 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~   87 (173)
                      ....+++++|.+|+|||||+|+|++......+. .++.|...+.  ..  .+..+.++||||+.......+
T Consensus       118 ~~~~~v~~vG~~nvGKSsliN~l~~~~~~~~~~-~~g~T~~~~~--~~--~~~~~~l~DtpG~~~~~~~~~  183 (282)
T 1puj_A          118 PRAIRALIIGIPNVGKSTLINRLAKKNIAKTGD-RPGITTSQQW--VK--VGKELELLDTPGILWPKFEDE  183 (282)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTSCCC-------------CC--EE--ETTTEEEEECCCCCCSCCCCH
T ss_pred             CCCceEEEEecCCCchHHHHHHHhcCceeecCC-CCCeeeeeEE--EE--eCCCEEEEECcCcCCCCCCCH
Confidence            456799999999999999999999977543332 2234444432  22  245789999999998755443

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=99.04  E-value=2.6e-10  Score=86.08  Aligned_cols=26  Identities=19%  Similarity=0.143  Sum_probs=23.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .....+++++|++|+||||++|.|++
T Consensus        53 ~~~~~~i~i~G~~g~GKSTl~~~l~~   78 (341)
T 2p67_A           53 CGNTLRLGVTGTPGAGKSTFLEAFGM   78 (341)
T ss_dssp             CSCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             cCCCEEEEEEcCCCCCHHHHHHHHHH
Confidence            35678999999999999999999964

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=99.02  E-value=4.2e-10  Score=85.44  Aligned_cols=63  Identities=19%  Similarity=0.065  Sum_probs=39.7

Q ss_pred             CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeC
Q 043441           67 DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTG  146 (173)
Q Consensus        67 ~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk  146 (173)
                      .+..++++||||+.+.          ..    .....+|.+++|++.... ...     +.+....   ...|.++|+||
T Consensus       170 ~~~~~iiiDTpGi~~~----------~~----~~~~~aD~vl~V~d~~~~-~~~-----~~l~~~~---~~~p~ivVlNK  226 (355)
T 3p32_A          170 AGFDVILIETVGVGQS----------EV----AVANMVDTFVLLTLARTG-DQL-----QGIKKGV---LELADIVVVNK  226 (355)
T ss_dssp             TTCCEEEEEECSCSSH----------HH----HHHTTCSEEEEEEESSTT-CTT-----TTCCTTS---GGGCSEEEEEC
T ss_pred             CCCCEEEEeCCCCCcH----------HH----HHHHhCCEEEEEECCCCC-ccH-----HHHHHhH---hhcCCEEEEEC
Confidence            4568999999997641          11    123678999999998622 111     1111111   12589999999


Q ss_pred             CCCCCC
Q 043441          147 GDELED  152 (173)
Q Consensus       147 ~D~~~~  152 (173)
                      +|+...
T Consensus       227 ~Dl~~~  232 (355)
T 3p32_A          227 ADGEHH  232 (355)
T ss_dssp             CCGGGH
T ss_pred             CCCcCh
Confidence            998743

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=99.02  E-value=1e-09  Score=79.50  Aligned_cols=76  Identities=14%  Similarity=-0.050  Sum_probs=42.0

Q ss_pred             eEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHH-HHHHHHHHHcccccceEEEEEeCCC
Q 043441           70 VVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEA-ALHSWQTLFGKKVFDYMIVVFTGGD  148 (173)
Q Consensus        70 ~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~~iv~tk~D  148 (173)
                      .++++||||..+.     .....+...+...+.. +++++++|+....+..+.. ......... .....|+++|+||+|
T Consensus       110 d~iiiDtpG~~~~-----~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~-~~~~~p~~iv~NK~D  182 (262)
T 1yrb_A          110 DYVLIDTPGQMET-----FLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLID-LRLGATTIPALNKVD  182 (262)
T ss_dssp             SEEEEECCSSHHH-----HHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHH-HHHTSCEEEEECCGG
T ss_pred             CEEEEeCCCccch-----hhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHh-cccCCCeEEEEeccc
Confidence            7899999997642     1111111112223355 8899999986444444322 111111111 112368999999999


Q ss_pred             CCCC
Q 043441          149 ELED  152 (173)
Q Consensus       149 ~~~~  152 (173)
                      +...
T Consensus       183 ~~~~  186 (262)
T 1yrb_A          183 LLSE  186 (262)
T ss_dssp             GCCH
T ss_pred             cccc
Confidence            8754

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=99.00  E-value=2.2e-09  Score=82.75  Aligned_cols=120  Identities=20%  Similarity=0.153  Sum_probs=69.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCcccee-eEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTST-CEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....++|+|++|||||||+|.|+|......+....+.+.. .............+.++|+||+......    ..++...
T Consensus        68 ~~~~valvG~nGaGKSTLln~L~Gl~~p~~GsI~~~g~~~t~~~~v~q~~~~~~ltv~D~~g~~~~~~~----~~~~L~~  143 (413)
T 1tq4_A           68 SVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFWDLPGIGSTNFP----PDTYLEK  143 (413)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECSSCTTEEEEECCCGGGSSCC----HHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhCCCCccCceEEECCeecceeEEeccccccCCeeehHhhcccchHHH----HHHHHHH
Confidence            3458999999999999999999997655555433322211 0111111112246899999998743221    1222222


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDEL  150 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~  150 (173)
                      ..  ....+.+++ ++.. ..........+.+...     ..|+++|+||.|.+
T Consensus       144 ~~--L~~~~~~~~-lS~G-~~~kqrv~la~aL~~~-----~~p~~lV~tkpdll  188 (413)
T 1tq4_A          144 MK--FYEYDFFII-ISAT-RFKKNDIDIAKAISMM-----KKEFYFVRTKVDSD  188 (413)
T ss_dssp             TT--GGGCSEEEE-EESS-CCCHHHHHHHHHHHHT-----TCEEEEEECCHHHH
T ss_pred             cC--CCccCCeEE-eCCC-CccHHHHHHHHHHHhc-----CCCeEEEEecCccc
Confidence            22  222344444 6665 4445555555555442     27899999998876

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=98.97  E-value=8.1e-11  Score=88.74  Aligned_cols=26  Identities=27%  Similarity=0.275  Sum_probs=23.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...+..++++|++|||||||+|.|++
T Consensus        52 ~~~g~~v~i~G~~GaGKSTLl~~l~g   77 (337)
T 2qm8_A           52 TGRAIRVGITGVPGVGKSTTIDALGS   77 (337)
T ss_dssp             CCCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             cCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            45678999999999999999999984

>4fid_A G protein alpha subunit; RAS-like domain, all-helical domain, GTP binding, nucleotide signaling protein, transducer, lipoprotein; HET: MLY MSE GDP; 2.62A {Entamoeba histolytica}

Probab=98.95  E-value=1.3e-08  Score=76.50  Aligned_cols=84  Identities=10%  Similarity=0.033  Sum_probs=57.5

Q ss_pred             eeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCC-------C-CCHHHHHHHHH
Q 043441           56 STCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRS-------R-FPQEEEAALHS  127 (173)
Q Consensus        56 ~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~-------~-~~~~~~~~~~~  127 (173)
                      .......... ++..+.+|||+|..           .++..+..++++++++|+|++.++       . -...-....++
T Consensus       149 iGi~~~~~~~-~~v~l~iwDtaGQe-----------~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~  216 (340)
T 4fid_A          149 TGIHEYDFVV-KDIPFHLIDVGGQR-----------SERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAV  216 (340)
T ss_dssp             CSCEEEEEES-SSCEEEEEECCSCH-----------HHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHH
T ss_pred             eeeEEEEEEe-eeeeeccccCCCcc-----------cccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHH
Confidence            3334445555 67889999999943           566677789999999999999971       1 11222345555


Q ss_pred             HHHHHccc--ccceEEEEEeCCCCCC
Q 043441          128 WQTLFGKK--VFDYMIVVFTGGDELE  151 (173)
Q Consensus       128 l~~~~~~~--~~~~~~iv~tk~D~~~  151 (173)
                      +.+.....  ...|+++++||+|+..
T Consensus       217 ~~~i~~~~~~~~~piiLv~NK~DL~~  242 (340)
T 4fid_A          217 FKDIMTNEFLKGAVKLIFLNKMDLFE  242 (340)
T ss_dssp             HHHHHHCGGGTTSEEEEEEECHHHHH
T ss_pred             HHHHhhhhccCCCeEEEEEECchhhh
Confidence            55554432  2369999999999874

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=98.94  E-value=1.2e-08  Score=76.45  Aligned_cols=85  Identities=12%  Similarity=0.059  Sum_probs=58.5

Q ss_pred             ceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecC-------CCCC-HHHHHHHH
Q 043441           55 TSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVR-------SRFP-QEEEAALH  126 (173)
Q Consensus        55 t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~-------~~~~-~~~~~~~~  126 (173)
                      |.......... ++..+.+|||.|..           ..+..+..++++++++|+|++.+       +.-+ ..-...++
T Consensus       154 TiGi~~~~~~~-~~v~l~iwDtgGQe-----------~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~  221 (327)
T 3ohm_A          154 TTGIIEYPFDL-QSVIFRMVDVGGQR-----------SERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKA  221 (327)
T ss_dssp             CCSEEEEEEEE-TTEEEEEEEECCSH-----------HHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHH
T ss_pred             eeeEEEEEEEe-eceeeEEEEcCCch-----------hHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHH
Confidence            33444455555 77899999999943           56666678999999999999775       2211 22245556


Q ss_pred             HHHHHHccc--ccceEEEEEeCCCCCC
Q 043441          127 SWQTLFGKK--VFDYMIVVFTGGDELE  151 (173)
Q Consensus       127 ~l~~~~~~~--~~~~~~iv~tk~D~~~  151 (173)
                      ++.+.....  ...|+++++||+|+..
T Consensus       222 ~~~~i~~~~~~~~~~iiL~~NK~DL~~  248 (327)
T 3ohm_A          222 LFRTIITYPWFQNSSVILFLNKKDLLE  248 (327)
T ss_dssp             HHHHHHTSGGGTTCEEEEEEECHHHHH
T ss_pred             HHHHHhhhhccCCceEEEEEECchhhh
Confidence            666665433  2369999999999864

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.87  E-value=2.1e-09  Score=78.28  Aligned_cols=60  Identities=30%  Similarity=0.397  Sum_probs=39.7

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~   84 (173)
                      .+++++|.+|+|||||+|+|++......+. ..+.|...+..  .  .+..+.++||||+.....
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~~~~~-~~g~T~~~~~~--~--~~~~~~l~DtpG~~~~~~  159 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRASSVGA-QPGITKGIQWF--S--LENGVKILDTPGILYKNI  159 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC-----------CCSCEE--E--CTTSCEEESSCEECCCCC
T ss_pred             hheEEeCCCCCCHHHHHHHHhcccccccCC-CCCCccceEEE--E--eCCCEEEEECCCcccCcC
Confidence            589999999999999999999877543332 22344433322  2  345789999999998654

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=98.82  E-value=5.4e-08  Score=75.52  Aligned_cols=123  Identities=15%  Similarity=0.108  Sum_probs=69.8

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHh------CCCCccccCCCC-c----------cceeeEEEEEE---------------e
Q 043441           18 GVRTVVFVGRTGNGKSATGNSIL------GRRAFKSRASSS-G----------VTSTCEMQRTV---------------L   65 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~------~~~~~~~~~~~~-~----------~t~~~~~~~~~---------------~   65 (173)
                      ++..++++|++|+||||++..|.      |..+..-...+. +          .......+...               .
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D~~R~aa~eqL~~~~~~~gvpv~~~~~~~dp~~i~~~al~~a  178 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSDTWRPGAYHQLRQLLDRYHIEVFGNPQEKDAIKLAKEGVDYF  178 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCCSSTHHHHHHHHHHGGGTCEEECCTTCCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHH
Confidence            56899999999999999999886      332211000000 0          00000011000               0


Q ss_pred             -eCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEE
Q 043441           66 -KDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVF  144 (173)
Q Consensus        66 -~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~  144 (173)
                       ..+..++++||||....   ...+..++..+....  .+|.+++|+|+...  .......+.+.+.     .....+|+
T Consensus       179 ~~~~~DvVIIDTaGrl~~---d~~lm~el~~i~~~~--~pd~vlLVvDA~~g--q~a~~~a~~f~~~-----~~i~gVIl  246 (443)
T 3dm5_A          179 KSKGVDIIIVDTAGRHKE---DKALIEEMKQISNVI--HPHEVILVIDGTIG--QQAYNQALAFKEA-----TPIGSIIV  246 (443)
T ss_dssp             HHTTCSEEEEECCCCSSC---CHHHHHHHHHHHHHH--CCSEEEEEEEGGGG--GGHHHHHHHHHHS-----CTTEEEEE
T ss_pred             HhCCCCEEEEECCCcccc---hHHHHHHHHHHHHhh--cCceEEEEEeCCCc--hhHHHHHHHHHhh-----CCCeEEEE
Confidence             02357899999997652   234555555443333  46889999999732  2333333333332     14577999


Q ss_pred             eCCCCCCC
Q 043441          145 TGGDELED  152 (173)
Q Consensus       145 tk~D~~~~  152 (173)
                      ||+|....
T Consensus       247 TKlD~~~~  254 (443)
T 3dm5_A          247 TKLDGSAK  254 (443)
T ss_dssp             ECCSSCSS
T ss_pred             ECCCCccc
Confidence            99998754

>1cip_A Protein (guanine nucleotide-binding protein alpha-1 subunit); GTPase, hydrolase; HET: GNP; 1.50A {Rattus norvegicus} SCOP: a.66.1.1 c.37.1.8 PDB: 1agr_A* 1bof_A* 1gdd_A* 1gfi_A* 1gia_A* 1gp2_A* 3ffa_A* 3ffb_A* 1gg2_A* 1git_A* 1svs_A* 1svk_A* 2zjz_A* 2zjy_A* 3ums_A* 2pz2_A* 2pz3_A* 1as0_A* 1as2_A* 1as3_A* ...

Probab=98.81  E-value=2.7e-08  Score=75.37  Aligned_cols=81  Identities=10%  Similarity=0.083  Sum_probs=55.0

Q ss_pred             eEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCC--------CHHHHHHHHHHH
Q 043441           58 CEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRF--------PQEEEAALHSWQ  129 (173)
Q Consensus        58 ~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~--------~~~~~~~~~~l~  129 (173)
                      ........ ++..+.+|||+|...           ++..+..++++++++|||++.++.-        ...-.....++.
T Consensus       183 i~~~~~~~-~~~~l~iwDt~GQe~-----------~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~  250 (353)
T 1cip_A          183 IVETHFTF-KDLHFKMFDVGGQRS-----------ERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFD  250 (353)
T ss_dssp             EEEEEEEE-TTEEEEEEEECCSGG-----------GGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHH
T ss_pred             eEEEEEee-CCeeEEEEeCCCchh-----------hhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHH
Confidence            33444455 677899999999653           3344457899999999999998421        122344555555


Q ss_pred             HHHccc--ccceEEEEEeCCCCC
Q 043441          130 TLFGKK--VFDYMIVVFTGGDEL  150 (173)
Q Consensus       130 ~~~~~~--~~~~~~iv~tk~D~~  150 (173)
                      +.....  ...|+++++||.|+.
T Consensus       251 ~i~~~~~~~~~piiLv~NK~DL~  273 (353)
T 1cip_A          251 SICNNKWFTDTSIILFLNKKDLF  273 (353)
T ss_dssp             HHHTCGGGTTSEEEEEEECHHHH
T ss_pred             HHHcCccccCCcEEEEEECcCch
Confidence            554432  236999999999986

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=98.73  E-value=6.7e-08  Score=71.78  Aligned_cols=127  Identities=14%  Similarity=0.061  Sum_probs=68.9

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccC------CC-Ccc----------ceeeEEEEEE----------------
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRA------SS-SGV----------TSTCEMQRTV----------------   64 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~------~~-~~~----------t~~~~~~~~~----------------   64 (173)
                      ++..++++|++||||||+++.|.+......+.      .. ...          .....+....                
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~~~g~V~l~g~D~~r~~a~~ql~~~~~~~~i~~v~q~~~~~p~~~v~~~v~~~  180 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDSAALAYDAVQAM  180 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCCSSTTTTHHHHHHHHHHTCCEECCCTTCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeecCCChhHHHHHHHHHHhcCceEEEeCCCCCHHHHHHHHHHHH
Confidence            57899999999999999999997533211110      00 000          0000010000                


Q ss_pred             eeCCceEEEEeCCCCCCCCCCc-HHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEE
Q 043441           65 LKDGQVVNVIDTPGLFDFSAGS-EFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVV  143 (173)
Q Consensus        65 ~~~~~~~~v~DtpG~~~~~~~~-~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv  143 (173)
                      ...+....++||+|........ .++.+.....+......++.+++++|+...  ......++.+.+..     ...+++
T Consensus       181 ~~~~~d~~llDt~G~~~~~~~~~~eLs~~r~~iaRal~~~P~~~lLvLDa~t~--~~~~~~~~~~~~~~-----~~t~ii  253 (304)
T 1rj9_A          181 KARGYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTG--QNGLEQAKKFHEAV-----GLTGVI  253 (304)
T ss_dssp             HHHTCSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBC--THHHHHHHHHHHHH-----CCSEEE
T ss_pred             HhCCCCEEEecCCCCCCchHHHHHHHHHHHHHHHHhhcCCCCeEEEEEcHHHH--HHHHHHHHHHHHHc-----CCcEEE
Confidence            0012356799999986532111 222222222333456678888889998633  22233333333332     458899


Q ss_pred             EeCCCCCC
Q 043441          144 FTGGDELE  151 (173)
Q Consensus       144 ~tk~D~~~  151 (173)
                      +||.|...
T Consensus       254 vTh~d~~a  261 (304)
T 1rj9_A          254 VTKLDGTA  261 (304)
T ss_dssp             EECTTSSC
T ss_pred             EECCcccc
Confidence            99998764

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=98.73  E-value=2.7e-08  Score=77.13  Aligned_cols=124  Identities=15%  Similarity=0.131  Sum_probs=69.5

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHh------CCCCccccCC-CCc----------cceeeEEEEE---------------Ee
Q 043441           18 GVRTVVFVGRTGNGKSATGNSIL------GRRAFKSRAS-SSG----------VTSTCEMQRT---------------VL   65 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~------~~~~~~~~~~-~~~----------~t~~~~~~~~---------------~~   65 (173)
                      ++..++++|++|+||||++..|.      |..+..-... ..+          ..........               ..
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~~D~~r~~a~eqL~~~~~~~gv~~~~~~~~~dp~~i~~~al~~a  175 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAADVYRPAAYDQLLQLGNQIGVQVYGEPNNQNPIEIAKKGVDIF  175 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEEECCSCHHHHHHHHHHHHTTTCCEECCTTCSCHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecCccchhHHHHHHHHHHhcCCceeeccccCCHHHHHHHHHHHH
Confidence            57889999999999999999886      3222110000 000          0000000000               00


Q ss_pred             -eCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEE
Q 043441           66 -KDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVF  144 (173)
Q Consensus        66 -~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~  144 (173)
                       ..+..++++||||..... .......++.......  .++.+++|+|+...  .+.....+.+.+..     ....+|+
T Consensus       176 ~~~~~DvvIIDTaGr~~~~-~d~~lm~el~~i~~~~--~pd~vlLVlDa~~g--q~a~~~a~~f~~~~-----~~~gVIl  245 (433)
T 3kl4_A          176 VKNKMDIIIVDTAGRHGYG-EETKLLEEMKEMYDVL--KPDDVILVIDASIG--QKAYDLASRFHQAS-----PIGSVII  245 (433)
T ss_dssp             TTTTCSEEEEEECCCSSSC-CTTHHHHHHHHHHHHH--CCSEEEEEEEGGGG--GGGHHHHHHHHHHC-----SSEEEEE
T ss_pred             HhcCCCEEEEECCCCcccc-CCHHHHHHHHHHHHhh--CCcceEEEEeCccc--hHHHHHHHHHhccc-----CCcEEEE
Confidence             024578899999975411 1233455555554444  46888999999732  22233334444332     5588999


Q ss_pred             eCCCCCC
Q 043441          145 TGGDELE  151 (173)
Q Consensus       145 tk~D~~~  151 (173)
                      ||+|.-.
T Consensus       246 TKlD~~a  252 (433)
T 3kl4_A          246 TKMDGTA  252 (433)
T ss_dssp             ECGGGCS
T ss_pred             ecccccc
Confidence            9999764

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=98.72  E-value=2.6e-08  Score=78.12  Aligned_cols=125  Identities=14%  Similarity=0.132  Sum_probs=68.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCC-------CCcc------c----eeeEEEEEE--------------
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRAS-------SSGV------T----STCEMQRTV--------------   64 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~-------~~~~------t----~~~~~~~~~--------------   64 (173)
                      ...+..++|+|++||||||+++.|.+......+..       ....      .    ....+....              
T Consensus       290 i~~GeVI~LVGpNGSGKTTLl~~LAgll~~~~G~V~l~g~D~~r~aa~eQL~~~~~r~~I~vV~Q~~~~~p~~tV~e~l~  369 (503)
T 2yhs_A          290 GKAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDAIQ  369 (503)
T ss_dssp             SCTTEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEECCCTTCHHHHHHHHHHHHHHTCCEECCSTTCCHHHHHHHHHH
T ss_pred             ccCCeEEEEECCCcccHHHHHHHHHHHhhhcCCeEEEecCcccchhhHHHHHHHHHhcCceEEecccCcCHHHHHHHHHH
Confidence            45678999999999999999999876332111110       0000      0    000010000              


Q ss_pred             --eeCCceEEEEeCCCCCCCCCCcHHHHHHHHH---HHHhc-cCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccc
Q 043441           65 --LKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK---CIGLA-KDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFD  138 (173)
Q Consensus        65 --~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~---~~~~~-~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~  138 (173)
                        ...+..++++||+|....   ...+..++.+   .++.. ...++.+++++|+...  .+....++.+.+.+     .
T Consensus       370 ~a~~~~~DvVLIDTaGrl~~---~~~lm~EL~kiv~iar~l~~~~P~evLLvLDattG--q~al~~ak~f~~~~-----~  439 (503)
T 2yhs_A          370 AAKARNIDVLIADTAGRLQN---KSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTG--QNAVSQAKLFHEAV-----G  439 (503)
T ss_dssp             HHHHTTCSEEEECCCCSCCC---HHHHHHHHHHHHHHHHTTCTTCSSEEEEEEEGGGT--HHHHHHHHHHHHHT-----C
T ss_pred             HHHhcCCCEEEEeCCCccch---hhhHHHHHHHHHHHHHHhccCCCCeeEEEecCccc--HHHHHHHHHHHhhc-----C
Confidence              002346889999998753   2333333333   33322 2346788889998633  22233334444332     3


Q ss_pred             eEEEEEeCCCCC
Q 043441          139 YMIVVFTGGDEL  150 (173)
Q Consensus       139 ~~~iv~tk~D~~  150 (173)
                      ...+|+||.|..
T Consensus       440 itgvIlTKLD~t  451 (503)
T 2yhs_A          440 LTGITLTKLDGT  451 (503)
T ss_dssp             CSEEEEECGGGC
T ss_pred             CCEEEEEcCCCc
Confidence            477899999974

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=98.69  E-value=1.2e-08  Score=71.98  Aligned_cols=25  Identities=28%  Similarity=0.441  Sum_probs=22.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ..++++++|.+|+||||+++.|++.
T Consensus        29 ~~~~i~i~G~~g~GKTTl~~~l~~~   53 (221)
T 2wsm_A           29 GTVAVNIMGAIGSGKTLLIERTIER   53 (221)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHH
Confidence            4578999999999999999999864

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=98.67  E-value=1.8e-08  Score=75.57  Aligned_cols=123  Identities=15%  Similarity=0.074  Sum_probs=66.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCcc-----------------ceeeEEEEEE---------------
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGV-----------------TSTCEMQRTV---------------   64 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~-----------------t~~~~~~~~~---------------   64 (173)
                      .++..++++|++||||||+++.|.+......+......                 .....+....               
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~~~g~V~l~g~D~~r~~a~eql~~~~~~~gv~~v~q~~~~~p~~~v~e~l~~  206 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKNHGFSVVIAASDTFRAGAIEQLEEHAKRIGVKVIKHSYGADPAAVAYDAIQH  206 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSTTHHHHHHHHHHHTTCEEECCCTTCCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEeecccccchHHHHHHHHHHcCceEEeccccCCHHHHHHHHHHH
Confidence            56789999999999999999999864322111100000                 0000000000               


Q ss_pred             -eeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEE
Q 043441           65 -LKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVV  143 (173)
Q Consensus        65 -~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv  143 (173)
                       ...+..+.++||+|......   ....++.......  .+|..++++|+...  ..-...++.+.+..     ....++
T Consensus       207 ~~~~~~d~vliDtaG~~~~~~---~l~~eL~~i~ral--~~de~llvLDa~t~--~~~~~~~~~~~~~~-----~it~ii  274 (328)
T 3e70_C          207 AKARGIDVVLIDTAGRSETNR---NLMDEMKKIARVT--KPNLVIFVGDALAG--NAIVEQARQFNEAV-----KIDGII  274 (328)
T ss_dssp             HHHHTCSEEEEEECCSCCTTT---CHHHHHHHHHHHH--CCSEEEEEEEGGGT--THHHHHHHHHHHHS-----CCCEEE
T ss_pred             HHhccchhhHHhhccchhHHH---HHHHHHHHHHHHh--cCCCCEEEEecHHH--HHHHHHHHHHHHhc-----CCCEEE
Confidence             00123567899999865322   2333444433333  35778888888633  22222333333221     457899


Q ss_pred             EeCCCCCC
Q 043441          144 FTGGDELE  151 (173)
Q Consensus       144 ~tk~D~~~  151 (173)
                      +||.|.-.
T Consensus       275 lTKlD~~a  282 (328)
T 3e70_C          275 LTKLDADA  282 (328)
T ss_dssp             EECGGGCS
T ss_pred             EeCcCCcc
Confidence            99999743

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=98.66  E-value=1.6e-07  Score=71.05  Aligned_cols=32  Identities=19%  Similarity=0.263  Sum_probs=27.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .++..++|+|++|||||||++.|.|.....+|
T Consensus        28 ~~Ge~~~llGpsGsGKSTLLr~iaGl~~p~~G   59 (359)
T 3fvq_A           28 DPGEILFIIGASGCGKTTLLRCLAGFEQPDSG   59 (359)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTSSCCSEE
T ss_pred             cCCCEEEEECCCCchHHHHHHHHhcCCCCCCc
Confidence            56788999999999999999999997765544

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=98.65  E-value=8.7e-08  Score=69.48  Aligned_cols=33  Identities=21%  Similarity=0.113  Sum_probs=27.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|+|...+..|
T Consensus        38 i~~Gei~~l~G~NGsGKSTLlk~l~Gl~~p~~G   70 (256)
T 1vpl_A           38 IEEGEIFGLIGPNGAGKTTTLRIISTLIKPSSG   70 (256)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             EcCCcEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            356788999999999999999999997654444

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=98.65  E-value=4.6e-08  Score=75.96  Aligned_cols=121  Identities=15%  Similarity=0.073  Sum_probs=66.7

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCC------CccccCCCC----------------------c-cceee-EE--EEE-E
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRR------AFKSRASSS----------------------G-VTSTC-EM--QRT-V   64 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~------~~~~~~~~~----------------------~-~t~~~-~~--~~~-~   64 (173)
                      .+..|+++|++|+||||+++.|.+..      .......+.                      . .+... ..  ... .
T Consensus        98 ~~~vI~ivG~~GvGKTTla~~La~~l~~~G~kVllv~~D~~r~~a~~qL~~~~~~~gv~v~~~~~~~~dp~~i~~~~l~~  177 (432)
T 2v3c_C           98 KQNVILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAADTYRPAAYEQLKQLAEKIHVPIYGDETRTKSPVDIVKEGMEK  177 (432)
T ss_dssp             SCCCEEEECCSSSSTTHHHHHHHHHHHHHHCCEEEECCSCCCTTGGGSSHHHHHHSSCCEECCSSSCCSSSTTHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeccccCchHHHHHHHhhhccCcceEecCCCCCCHHHHHHHHHHH
Confidence            45789999999999999999987621      110000000                      0 00000 00  000 0


Q ss_pred             eeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccc-e-EEE
Q 043441           65 LKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFD-Y-MIV  142 (173)
Q Consensus        65 ~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~-~~i  142 (173)
                      . .+..++++||||....   ...+..++..+ . ....+|.+++|+++....  .   ..+.+ +.+...  . + ..+
T Consensus       178 ~-~~~D~vIIDT~G~~~~---~~~l~~~l~~i-~-~~~~~d~vllVvda~~g~--~---~~~~~-~~~~~~--~~~i~gv  243 (432)
T 2v3c_C          178 F-KKADVLIIDTAGRHKE---EKGLLEEMKQI-K-EITNPDEIILVIDGTIGQ--Q---AGIQA-KAFKEA--VGEIGSI  243 (432)
T ss_dssp             T-SSCSEEEEECCCSCSS---HHHHHHHHHHT-T-SSSCCSEEEEEEEGGGGG--G---HHHHH-HHHHTT--SCSCEEE
T ss_pred             h-hCCCEEEEcCCCCccc---cHHHHHHHHHH-H-HHhcCcceeEEeeccccH--H---HHHHH-HHHhhc--ccCCeEE
Confidence            1 3457899999998752   23333344322 1 233689999999986332  2   22222 223222  3 4 889


Q ss_pred             EEeCCCCCCC
Q 043441          143 VFTGGDELED  152 (173)
Q Consensus       143 v~tk~D~~~~  152 (173)
                      |+||+|....
T Consensus       244 VlnK~D~~~~  253 (432)
T 2v3c_C          244 IVTKLDGSAK  253 (432)
T ss_dssp             EEECSSSCST
T ss_pred             EEeCCCCccc
Confidence            9999998643

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=98.63  E-value=4e-08  Score=71.67  Aligned_cols=32  Identities=22%  Similarity=0.232  Sum_probs=27.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .++..++|+|++|||||||++.|.|.....+|
T Consensus        35 ~~Ge~~~liG~nGsGKSTLl~~l~Gl~~p~~G   66 (266)
T 4g1u_C           35 ASGEMVAIIGPNGAGKSTLLRLLTGYLSPSHG   66 (266)
T ss_dssp             ETTCEEEEECCTTSCHHHHHHHHTSSSCCSSC
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCCCCCCc
Confidence            46788999999999999999999997654444

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=98.62  E-value=1.2e-07  Score=72.23  Aligned_cols=32  Identities=38%  Similarity=0.426  Sum_probs=27.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .++..++|+|++|||||||++.|.|.....+|
T Consensus        27 ~~Ge~~~llGpsGsGKSTLLr~iaGl~~p~~G   58 (381)
T 3rlf_A           27 HEGEFVVFVGPSGCGKSTLLRMIAGLETITSG   58 (381)
T ss_dssp             CTTCEEEEECCTTSSHHHHHHHHHTSSCCSEE
T ss_pred             CCCCEEEEEcCCCchHHHHHHHHHcCCCCCCe
Confidence            56788999999999999999999997765444

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=98.62  E-value=1.4e-07  Score=71.50  Aligned_cols=129  Identities=13%  Similarity=0.111  Sum_probs=69.9

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccC------CCCcc-------c----eeeEEEEEEe-------------
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA------SSSGV-------T----STCEMQRTVL-------------   65 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~------~~~~~-------t----~~~~~~~~~~-------------   65 (173)
                      ..++..++++|++||||||+++.|.+......+.      .....       .    ....+.....             
T Consensus       154 ~~~g~vi~lvG~nGsGKTTll~~Lag~l~~~~G~V~l~g~D~~r~~a~eql~~~~~r~~i~~v~q~~~~~~p~~tv~e~l  233 (359)
T 2og2_A          154 FRKPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMAAGDTFRAAASDQLEIWAERTGCEIVVAEGDKAKAATVLSKAV  233 (359)
T ss_dssp             SSSSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEECCCCSCHHHHHHHHHHHHHHTCEEECCSSSSCCHHHHHHHHH
T ss_pred             cCCCeEEEEEcCCCChHHHHHHHHHhhccccCCEEEEecccccccchhHHHHHHHHhcCeEEEEecccccChhhhHHHHH
Confidence            4567899999999999999999997743221111      00000       0    0011111000             


Q ss_pred             ----eCCceEEEEeCCCCCCCCCCc-HHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceE
Q 043441           66 ----KDGQVVNVIDTPGLFDFSAGS-EFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYM  140 (173)
Q Consensus        66 ----~~~~~~~v~DtpG~~~~~~~~-~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  140 (173)
                          ..+....++||.|........ .++.++...++......++-+++++|++..++...  .++.+.+..     ...
T Consensus       234 ~~~~~~~~d~~lldt~Gl~~~~~~~~~eLSkqr~~iaral~~~P~e~lLvLDpttglD~~~--~~~~~~~~~-----g~t  306 (359)
T 2og2_A          234 KRGKEEGYDVVLCDTSGRLHTNYSLMEELIACKKAVGKIVSGAPNEILLVLDGNTGLNMLP--QAREFNEVV-----GIT  306 (359)
T ss_dssp             HHHHHTTCSEEEEECCCCSSCCHHHHHHHHHHHHHHHHHSTTCCSEEEEEEEGGGGGGGHH--HHHHHHHHT-----CCC
T ss_pred             HHHHhCCCHHHHHHhcCCChhhhhHHHHHHHHHHHHHHHHhcCCCceEEEEcCCCCCCHHH--HHHHHHHhc-----CCe
Confidence                012346799999987532111 22333333333445667887778888654443332  223333221     457


Q ss_pred             EEEEeCCCCCC
Q 043441          141 IVVFTGGDELE  151 (173)
Q Consensus       141 ~iv~tk~D~~~  151 (173)
                      ++++||.|...
T Consensus       307 ~iiiThlD~~~  317 (359)
T 2og2_A          307 GLILTKLDGSA  317 (359)
T ss_dssp             EEEEESCTTCS
T ss_pred             EEEEecCcccc
Confidence            89999998754

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=98.61  E-value=1.6e-07  Score=69.66  Aligned_cols=129  Identities=13%  Similarity=0.111  Sum_probs=69.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccC------CCCcc-------c----eeeEEEEEEe-------------
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA------SSSGV-------T----STCEMQRTVL-------------   65 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~------~~~~~-------t----~~~~~~~~~~-------------   65 (173)
                      ..++..++++|++||||||+++.|.+......+.      .....       .    ....+.....             
T Consensus        97 ~~~g~vi~lvG~nGsGKTTll~~Lag~l~~~~g~V~l~g~d~~r~~a~~ql~~~~~~~~i~~v~q~~~~~~~~~~v~e~l  176 (302)
T 3b9q_A           97 FRKPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMAAGDTFRAAASDQLEIWAERTGCEIVVAEGDKAKAATVLSKAV  176 (302)
T ss_dssp             SSSCEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEECCCCSCHHHHHHHHHHHHHHTCEEECCC--CCCHHHHHHHHH
T ss_pred             cCCCcEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeecccchhHHHHHHHHHHhcCceEEEecCCccCHHHHHHHHH
Confidence            4567899999999999999999997643221111      00000       0    0011110000             


Q ss_pred             ----eCCceEEEEeCCCCCCCCCCc-HHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceE
Q 043441           66 ----KDGQVVNVIDTPGLFDFSAGS-EFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYM  140 (173)
Q Consensus        66 ----~~~~~~~v~DtpG~~~~~~~~-~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  140 (173)
                          ..+....++||.|........ .++.++....+......++-+++++|++..++...  .++.+.+..     ...
T Consensus       177 ~~~~~~~~d~~lldt~gl~~~~~~~~~eLSkqr~~iaral~~~P~e~lLvLDptsglD~~~--~~~~~~~~~-----g~t  249 (302)
T 3b9q_A          177 KRGKEEGYDVVLCDTSGRLHTNYSLMEELIACKKAVGKIVSGAPNEILLVLDGNTGLNMLP--QAREFNEVV-----GIT  249 (302)
T ss_dssp             HHHHHTTCSEEEECCCCCSSCCHHHHHHHHHHHHHHHTTSTTCCSEEEEEEEGGGGGGGHH--HHHHHHHHT-----CCC
T ss_pred             HHHHHcCCcchHHhcCCCCcchhHHHHHHHHHHHHHHHhhccCCCeeEEEEeCCCCcCHHH--HHHHHHHhc-----CCC
Confidence                012346789999987532111 22232333333345567887777888654443332  223333221     357


Q ss_pred             EEEEeCCCCCC
Q 043441          141 IVVFTGGDELE  151 (173)
Q Consensus       141 ~iv~tk~D~~~  151 (173)
                      ++++||.|...
T Consensus       250 ~iiiThlD~~~  260 (302)
T 3b9q_A          250 GLILTKLDGSA  260 (302)
T ss_dssp             EEEEECCSSCS
T ss_pred             EEEEeCCCCCC
Confidence            89999998764

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=98.60  E-value=4.8e-07  Score=64.27  Aligned_cols=32  Identities=22%  Similarity=0.098  Sum_probs=26.8

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++..++++|++|||||||++.|.|...+..|
T Consensus        28 ~~Ge~~~iiG~nGsGKSTLl~~l~Gl~~p~~G   59 (224)
T 2pcj_A           28 KKGEFVSIIGASGSGKSTLLYILGLLDAPTEG   59 (224)
T ss_dssp             ETTCEEEEEECTTSCHHHHHHHHTTSSCCSEE
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            46678999999999999999999997654444

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=98.57  E-value=1.3e-07  Score=67.78  Aligned_cols=33  Identities=24%  Similarity=0.129  Sum_probs=27.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|.|.....+|
T Consensus        28 i~~Ge~~~iiG~nGsGKSTLl~~l~Gl~~p~~G   60 (235)
T 3tif_A           28 IKEGEFVSIMGPSGSGKSTMLNIIGCLDKPTEG   60 (235)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhcCCCCCce
Confidence            457789999999999999999999997654444

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=98.57  E-value=2.2e-07  Score=70.48  Aligned_cols=33  Identities=15%  Similarity=0.051  Sum_probs=27.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|.|.....+|
T Consensus        51 i~~Gei~~IiGpnGaGKSTLlr~i~GL~~p~~G   83 (366)
T 3tui_C           51 VPAGQIYGVIGASGAGKSTLIRCVNLLERPTEG   83 (366)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEE
T ss_pred             EcCCCEEEEEcCCCchHHHHHHHHhcCCCCCce
Confidence            357788999999999999999999997654444

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=98.57  E-value=3.9e-07  Score=69.08  Aligned_cols=33  Identities=24%  Similarity=0.212  Sum_probs=27.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -+++..++|+|++|||||||++.|.|.....+|
T Consensus        26 i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G   58 (359)
T 2yyz_A           26 VKDGEFVALLGPSGCGKTTTLLMLAGIYKPTSG   58 (359)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHHTSSCCSEE
T ss_pred             EcCCCEEEEEcCCCchHHHHHHHHHCCCCCCcc
Confidence            356788999999999999999999997654444

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=98.57  E-value=2.1e-08  Score=74.50  Aligned_cols=61  Identities=30%  Similarity=0.324  Sum_probs=35.6

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC------ccceeeEEEEEEeeCCceEEEEeCCCCCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSS------GVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   83 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~------~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~   83 (173)
                      ++..++++|++|+|||||+|.|++......+....      ..|....  .... .  ...++||||+....
T Consensus       172 ~G~~~~lvG~sG~GKSTLln~L~g~~~~~~G~I~~~~~~G~~tt~~~~--~~~~-~--~g~v~dtpg~~~~~  238 (307)
T 1t9h_A          172 QDKTTVFAGQSGVGKSSLLNAISPELGLRTNEISEHLGRGKHTTRHVE--LIHT-S--GGLVADTPGFSSLE  238 (307)
T ss_dssp             TTSEEEEEESHHHHHHHHHHHHCC-------------------CCCCC--EEEE-T--TEEEESSCSCSSCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHhcccccccccceeeecCCCcccccHHH--Hhhc-C--CEEEecCCCccccc
Confidence            46799999999999999999999876554443321      1222211  1122 2  46899999998643

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=98.56  E-value=5.9e-07  Score=68.45  Aligned_cols=33  Identities=21%  Similarity=0.281  Sum_probs=27.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA   49 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~   49 (173)
                      .++..++|+|++|||||||++.|.|.....+|.
T Consensus        27 ~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~   59 (372)
T 1g29_1           27 KDGEFMILLGPSGCGKTTTLRMIAGLEEPSRGQ   59 (372)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHHTSSCCSEEE
T ss_pred             cCCCEEEEECCCCcHHHHHHHHHHcCCCCCccE
Confidence            466789999999999999999999977654443

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=98.53  E-value=5e-07  Score=68.40  Aligned_cols=34  Identities=18%  Similarity=0.178  Sum_probs=28.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA   49 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~   49 (173)
                      -+++..++|+|++|||||||++.|.|......|.
T Consensus        28 i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G~   61 (353)
T 1oxx_K           28 IENGERFGILGPSGAGKTTFMRIIAGLDVPSTGE   61 (353)
T ss_dssp             ECTTCEEEEECSCHHHHHHHHHHHHTSSCCSEEE
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHhCCCCCCceE
Confidence            3567889999999999999999999977655443

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=98.53  E-value=3.6e-07  Score=69.12  Aligned_cols=33  Identities=21%  Similarity=0.207  Sum_probs=27.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -+++..++|+|++|||||||++.|.|......|
T Consensus        38 i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G   70 (355)
T 1z47_A           38 IREGEMVGLLGPSGSGKTTILRLIAGLERPTKG   70 (355)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHHTSSCCSEE
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHhCCCCCCcc
Confidence            356788999999999999999999997754444

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=98.52  E-value=2.2e-07  Score=66.69  Aligned_cols=32  Identities=25%  Similarity=0.334  Sum_probs=27.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++..++|+|++|||||||++.|.|...+..|
T Consensus        30 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G   61 (240)
T 1ji0_A           30 PRGQIVTLIGANGAGKTTTLSAIAGLVRAQKG   61 (240)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            46778999999999999999999997654444

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=98.52  E-value=4.6e-07  Score=68.77  Aligned_cols=33  Identities=24%  Similarity=0.239  Sum_probs=27.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -+++..++|+|++|||||||++.|.|.....+|
T Consensus        26 i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G   58 (362)
T 2it1_A           26 IKDGEFMALLGPSGSGKSTLLYTIAGIYKPTSG   58 (362)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEE
T ss_pred             ECCCCEEEEECCCCchHHHHHHHHhcCCCCCce
Confidence            356788999999999999999999997754444

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=98.51  E-value=2.7e-07  Score=67.17  Aligned_cols=33  Identities=24%  Similarity=0.263  Sum_probs=27.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -+++..++|+|++|||||||++.|.|...+..|
T Consensus        47 i~~Gei~~liG~NGsGKSTLlk~l~Gl~~p~~G   79 (263)
T 2olj_A           47 IREGEVVVVIGPSGSGKSTFLRCLNLLEDFDEG   79 (263)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             EcCCCEEEEEcCCCCcHHHHHHHHHcCCCCCCc
Confidence            356788999999999999999999997654444

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=98.50  E-value=1.7e-07  Score=69.55  Aligned_cols=59  Identities=24%  Similarity=0.316  Sum_probs=38.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC----c--cceeeEEEEEEeeCCceEEEEeCCCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSS----G--VTSTCEMQRTVLKDGQVVNVIDTPGLFD   81 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~----~--~t~~~~~~~~~~~~~~~~~v~DtpG~~~   81 (173)
                      .+..++++|++|+|||||+|.|+ ......+....    +  .|....  ....  .....++||||+..
T Consensus       164 ~G~i~~l~G~sG~GKSTLln~l~-~~~~~~G~i~~~~~~G~~~t~~~~--~~~~--~~~g~v~d~pg~~~  228 (302)
T 2yv5_A          164 EGFICILAGPSGVGKSSILSRLT-GEELRTQEVSEKTERGRHTTTGVR--LIPF--GKGSFVGDTPGFSK  228 (302)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHH-SCCCCCSCC---------CCCCEE--EEEE--TTTEEEESSCCCSS
T ss_pred             cCcEEEEECCCCCCHHHHHHHHH-HhhCcccccccccCCCCCceeeEE--EEEc--CCCcEEEECcCcCc
Confidence            35789999999999999999999 66555554332    1  122111  1111  23468999999874

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=98.50  E-value=8.7e-08  Score=71.15  Aligned_cols=32  Identities=25%  Similarity=0.255  Sum_probs=27.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++..++|+|++|||||||++.|+|......|
T Consensus        78 ~~Ge~vaivG~sGsGKSTLl~ll~gl~~p~~G  109 (306)
T 3nh6_A           78 MPGQTLALVGPSGAGKSTILRLLFRFYDISSG  109 (306)
T ss_dssp             CTTCEEEEESSSCHHHHHHHHHHTTSSCCSEE
T ss_pred             cCCCEEEEECCCCchHHHHHHHHHcCCCCCCc
Confidence            56789999999999999999999997654444

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=98.49  E-value=1.9e-07  Score=67.04  Aligned_cols=31  Identities=29%  Similarity=0.252  Sum_probs=25.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      ++ ..++++|++|||||||++.|.|...+..|
T Consensus        23 ~~-e~~~liG~nGsGKSTLl~~l~Gl~~p~~G   53 (240)
T 2onk_A           23 GR-DYCVLLGPTGAGKSVFLELIAGIVKPDRG   53 (240)
T ss_dssp             CS-SEEEEECCTTSSHHHHHHHHHTSSCCSEE
T ss_pred             CC-EEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            45 78999999999999999999997654443

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=98.48  E-value=5.2e-07  Score=68.69  Aligned_cols=33  Identities=24%  Similarity=0.274  Sum_probs=27.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|.|......|
T Consensus        34 i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G   66 (372)
T 1v43_A           34 IKDGEFLVLLGPSGCGKTTTLRMIAGLEEPTEG   66 (372)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEE
T ss_pred             ECCCCEEEEECCCCChHHHHHHHHHcCCCCCce
Confidence            356788999999999999999999997755444

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=98.48  E-value=1.9e-06  Score=62.31  Aligned_cols=32  Identities=25%  Similarity=0.283  Sum_probs=26.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++..++|+|++|||||||++.|.|...+..|
T Consensus        29 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G   60 (253)
T 2nq2_C           29 NKGDILAVLGQNGCGKSTLLDLLLGIHRPIQG   60 (253)
T ss_dssp             ETTCEEEEECCSSSSHHHHHHHHTTSSCCSEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            46778999999999999999999997654333

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=98.47  E-value=2.2e-07  Score=68.00  Aligned_cols=32  Identities=22%  Similarity=0.159  Sum_probs=27.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .++..++|+|++|||||||++.|.|.....+|
T Consensus        32 ~~Ge~~~iiGpnGsGKSTLl~~l~Gl~~p~~G   63 (275)
T 3gfo_A           32 KRGEVTAILGGNGVGKSTLFQNFNGILKPSSG   63 (275)
T ss_dssp             ETTSEEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHcCCCCCCe
Confidence            56788999999999999999999997654444

>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET: GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A*

Probab=98.47  E-value=7.4e-07  Score=69.34  Aligned_cols=27  Identities=26%  Similarity=0.208  Sum_probs=23.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ..+...|.|+|++++|||||+|.|+|.
T Consensus        64 ~~~v~vVsV~G~~~~GKStLLN~llg~   90 (447)
T 3q5d_A           64 DKEVVAVSVAGAFRKGKSFLMDFMLRY   90 (447)
T ss_dssp             TSBEEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCceEEEEEECCCCCcHHHHHHHHhhh
Confidence            456788999999999999999999863

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=98.45  E-value=1.2e-07  Score=70.50  Aligned_cols=127  Identities=15%  Similarity=0.158  Sum_probs=67.1

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccC-------CCCcc----------ceeeEEEEE---------------
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA-------SSSGV----------TSTCEMQRT---------------   63 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~-------~~~~~----------t~~~~~~~~---------------   63 (173)
                      ..++..++++|++|+||||++..|.+......+.       .....          .........               
T Consensus       101 ~~~~~vi~ivG~~GsGKTTl~~~LA~~l~~~g~kV~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~~s~~~~~~v~~~al~  180 (306)
T 1vma_A          101 PEPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDAVA  180 (306)
T ss_dssp             SSSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHHHH
T ss_pred             CCCCeEEEEEcCCCChHHHHHHHHHHHHHhcCCEEEEEccccccHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHH
Confidence            3456789999999999999999886532111110       00000          000000000               


Q ss_pred             -EeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh----ccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccc
Q 043441           64 -VLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL----AKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFD  138 (173)
Q Consensus        64 -~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~----~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~  138 (173)
                       ....+..++++||||...   ....+..++......    ....++.+++++++...     ...++..+.... . ..
T Consensus       181 ~a~~~~~dvvIiDtpg~~~---~~~~l~~eL~~l~~~i~~~i~~~p~~vllVlda~t~-----~~~l~~a~~~~~-~-~~  250 (306)
T 1vma_A          181 HALARNKDVVIIDTAGRLH---TKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTG-----QNGLVQAKIFKE-A-VN  250 (306)
T ss_dssp             HHHHTTCSEEEEEECCCCS---CHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGH-----HHHHHHHHHHHH-H-SC
T ss_pred             HHHhcCCCEEEEECCCchh---hHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCC-----HHHHHHHHHHHh-c-CC
Confidence             011334689999999642   333344444333222    22357888999998611     223333332211 1 14


Q ss_pred             eEEEEEeCCCCCCC
Q 043441          139 YMIVVFTGGDELED  152 (173)
Q Consensus       139 ~~~iv~tk~D~~~~  152 (173)
                      ...+|+||.|.-..
T Consensus       251 i~gvVlTk~D~~~~  264 (306)
T 1vma_A          251 VTGIILTKLDGTAK  264 (306)
T ss_dssp             CCEEEEECGGGCSC
T ss_pred             CCEEEEeCCCCccc
Confidence            46788999997543

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=98.44  E-value=8.5e-07  Score=62.56  Aligned_cols=32  Identities=22%  Similarity=0.118  Sum_probs=26.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++..++|+|++|||||||++.|+|...+..|
T Consensus        33 ~~Ge~~~iiG~NGsGKSTLlk~l~Gl~~p~~G   64 (214)
T 1sgw_A           33 EKGNVVNFHGPNGIGKTTLLKTISTYLKPLKG   64 (214)
T ss_dssp             ETTCCEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCCCCe
Confidence            46678999999999999999999997654444

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=98.43  E-value=1.9e-07  Score=69.20  Aligned_cols=61  Identities=26%  Similarity=0.267  Sum_probs=37.9

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC----c--cceeeEEEEEEeeCCceEEEEeCCCCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSS----G--VTSTCEMQRTVLKDGQVVNVIDTPGLFDF   82 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~----~--~t~~~~~~~~~~~~~~~~~v~DtpG~~~~   82 (173)
                      ....++++|++|+|||||+|.|.|......+....    +  .|....  ...  ......++|+||+...
T Consensus       168 ~geiv~l~G~sG~GKSTll~~l~g~~~~~~G~i~~~~~~g~~~t~~~~--~~~--~~~~g~v~q~p~~~~~  234 (301)
T 1u0l_A          168 KGKISTMAGLSGVGKSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQ--LLK--FDFGGYVVDTPGFANL  234 (301)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHSTTCCCC-------------CCCSCC--EEE--CTTSCEEESSCSSTTC
T ss_pred             cCCeEEEECCCCCcHHHHHHHhcccccccccceecccCCCCCceeeeE--EEE--cCCCCEEEECcCCCcc
Confidence            35689999999999999999999977655553332    1  121111  111  1234689999998654

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=98.41  E-value=2e-06  Score=63.61  Aligned_cols=123  Identities=12%  Similarity=0.080  Sum_probs=64.9

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC------CCCccccCCCC-ccc----------eeeEEEEE--------------E-ee
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG------RRAFKSRASSS-GVT----------STCEMQRT--------------V-LK   66 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~------~~~~~~~~~~~-~~t----------~~~~~~~~--------------~-~~   66 (173)
                      +..++++|++|+||||++..|.+      ........... +..          ........              . ..
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~~g~~v~l~~~D~~r~~a~~ql~~~~~~~~v~v~~~~~~~~p~~~~~~~l~~~~  177 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEKFL  177 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHHTTCCEEEEECCCSSSHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecCCCCHHHHHHHHHHhccCCeEEEecCCCCCHHHHHHHHHHHHH
Confidence            67899999999999999998863      22211111000 000          00000000              0 00


Q ss_pred             -CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEe
Q 043441           67 -DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFT  145 (173)
Q Consensus        67 -~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~t  145 (173)
                       .+..++++||||.... ...+.+..++.......  .+|.+++|+++...  ...   ++.++.. ... .....+|+|
T Consensus       178 ~~~~D~ViIDTpg~~~~-~~~~~l~~el~~i~~~~--~~d~vllVvda~~g--~~~---~~~~~~~-~~~-~~i~gvVln  247 (297)
T 1j8m_F          178 SEKMEIIIVDTAGRHGY-GEEAALLEEMKNIYEAI--KPDEVTLVIDASIG--QKA---YDLASKF-NQA-SKIGTIIIT  247 (297)
T ss_dssp             HTTCSEEEEECCCSCCT-TCHHHHHHHHHHHHHHH--CCSEEEEEEEGGGG--GGH---HHHHHHH-HHT-CTTEEEEEE
T ss_pred             hCCCCEEEEeCCCCccc-ccHHHHHHHHHHHHHHh--cCCEEEEEeeCCch--HHH---HHHHHHH-Hhh-CCCCEEEEe
Confidence             3447899999998751 12223333343322222  56888999998622  222   2223222 211 133789999


Q ss_pred             CCCCCC
Q 043441          146 GGDELE  151 (173)
Q Consensus       146 k~D~~~  151 (173)
                      |+|...
T Consensus       248 k~D~~~  253 (297)
T 1j8m_F          248 KMDGTA  253 (297)
T ss_dssp             CGGGCT
T ss_pred             CCCCCc
Confidence            999764

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=98.41  E-value=4e-07  Score=65.64  Aligned_cols=32  Identities=25%  Similarity=0.243  Sum_probs=27.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++..++|+|++|||||||++.|+|......|
T Consensus        33 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   64 (247)
T 2ff7_A           33 KQGEVIGIVGRSGSGKSTLTKLIQRFYIPENG   64 (247)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            46778999999999999999999997654443

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=98.40  E-value=6.3e-07  Score=67.66  Aligned_cols=33  Identities=27%  Similarity=0.238  Sum_probs=27.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -+++..++|+|++|||||||++.|.|.....+|
T Consensus        23 i~~Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G   55 (348)
T 3d31_A           23 VESGEYFVILGPTGAGKTLFLELIAGFHVPDSG   55 (348)
T ss_dssp             ECTTCEEEEECCCTHHHHHHHHHHHTSSCCSEE
T ss_pred             EcCCCEEEEECCCCccHHHHHHHHHcCCCCCCc
Confidence            356788999999999999999999997754444

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=98.38  E-value=2e-07  Score=67.33  Aligned_cols=30  Identities=27%  Similarity=0.296  Sum_probs=25.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFK   46 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~   46 (173)
                      .++..++|+|++|||||||++.|.|.....
T Consensus        24 ~~Ge~~~liG~NGsGKSTLlk~l~Gl~~p~   53 (249)
T 2qi9_C           24 RAGEILHLVGPNGAGKSTLLARMAGMTSGK   53 (249)
T ss_dssp             ETTCEEEEECCTTSSHHHHHHHHTTSSCCE
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCCCCC
Confidence            466789999999999999999999976543

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=98.37  E-value=6.8e-07  Score=65.31  Aligned_cols=33  Identities=18%  Similarity=0.177  Sum_probs=27.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|+|...+..|
T Consensus        42 i~~Ge~~~i~G~nGsGKSTLlk~l~Gl~~p~~G   74 (271)
T 2ixe_A           42 LYPGKVTALVGPNGSGKSTVAALLQNLYQPTGG   74 (271)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCC
Confidence            357788999999999999999999997654444

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=98.36  E-value=3.5e-07  Score=67.63  Aligned_cols=123  Identities=15%  Similarity=0.130  Sum_probs=65.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccC-------CCCccce-----------eeEEEE----------E-EeeC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA-------SSSGVTS-----------TCEMQR----------T-VLKD   67 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~-------~~~~~t~-----------~~~~~~----------~-~~~~   67 (173)
                      .++..++++|++|+||||++..|.+......+.       .......           ......          . .. .
T Consensus       103 ~~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~~~~~~l~~al~~~-~  181 (296)
T 2px0_A          103 IHSKYIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTDTYRIAAVEQLKTYAELLQAPLEVCYTKEEFQQAKELF-S  181 (296)
T ss_dssp             CCSSEEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEECCCSSTTHHHHHHHHHTTTTCCCCBCSSHHHHHHHHHHG-G
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEecCcccchHHHHHHHHHHhcCCCeEecCCHHHHHHHHHHh-c
Confidence            356799999999999999999986432211110       0000000           000000          0 01 3


Q ss_pred             CceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCC
Q 043441           68 GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGG  147 (173)
Q Consensus        68 ~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~  147 (173)
                      +..++++||||....   ......++...+.  ...++.++++++++..  .   ..+..+.+.+..  ....-+|+||.
T Consensus       182 ~~dlvIiDT~G~~~~---~~~~~~el~~~l~--~~~~~~~~lVl~at~~--~---~~~~~~~~~~~~--l~~~giVltk~  249 (296)
T 2px0_A          182 EYDHVFVDTAGRNFK---DPQYIDELKETIP--FESSIQSFLVLSATAK--Y---EDMKHIVKRFSS--VPVNQYIFTKI  249 (296)
T ss_dssp             GSSEEEEECCCCCTT---SHHHHHHHHHHSC--CCTTEEEEEEEETTBC--H---HHHHHHTTTTSS--SCCCEEEEECT
T ss_pred             CCCEEEEeCCCCChh---hHHHHHHHHHHHh--hcCCCeEEEEEECCCC--H---HHHHHHHHHHhc--CCCCEEEEeCC
Confidence            457899999998753   2223333433322  1236777888887622  1   223333333332  13456788999


Q ss_pred             CCCCC
Q 043441          148 DELED  152 (173)
Q Consensus       148 D~~~~  152 (173)
                      |.-..
T Consensus       250 D~~~~  254 (296)
T 2px0_A          250 DETTS  254 (296)
T ss_dssp             TTCSC
T ss_pred             Ccccc
Confidence            97754

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=98.35  E-value=2.1e-06  Score=69.12  Aligned_cols=32  Identities=34%  Similarity=0.403  Sum_probs=27.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++..++++|++||||||+++.|+|...+..|
T Consensus       367 ~~G~~~~ivG~sGsGKSTll~~l~g~~~p~~G  398 (582)
T 3b5x_A          367 PQGKTVALVGRSGSGKSTIANLFTRFYDVDSG  398 (582)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCCCC
Confidence            57789999999999999999999997655444

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=98.34  E-value=4.1e-07  Score=73.22  Aligned_cols=32  Identities=38%  Similarity=0.335  Sum_probs=27.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++..++++|++||||||+++.|+|......|
T Consensus       365 ~~G~~~~ivG~sGsGKSTll~~l~g~~~p~~G  396 (578)
T 4a82_A          365 EKGETVAFVGMSGGGKSTLINLIPRFYDVTSG  396 (578)
T ss_dssp             CTTCEEEEECSTTSSHHHHHTTTTTSSCCSEE
T ss_pred             CCCCEEEEECCCCChHHHHHHHHhcCCCCCCc
Confidence            56788999999999999999999997654444

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=98.33  E-value=7.7e-07  Score=62.82  Aligned_cols=25  Identities=28%  Similarity=0.515  Sum_probs=22.5

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ...+|+++|.+|+|||||++.++..
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~   61 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDN   61 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            4689999999999999999999864

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=98.33  E-value=3.7e-07  Score=69.10  Aligned_cols=61  Identities=30%  Similarity=0.453  Sum_probs=37.4

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCC-ccccCCCCc------cceeeEEEEEEeeCCceEEEEeCCCCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRA-FKSRASSSG------VTSTCEMQRTVLKDGQVVNVIDTPGLFDF   82 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~-~~~~~~~~~------~t~~~~~~~~~~~~~~~~~v~DtpG~~~~   82 (173)
                      .+..++|+|++|+|||||+|.|+|... ...+.....      .+.....  ... .+ ...++||||+.+.
T Consensus       214 ~G~~~~lvG~sG~GKSTLln~L~g~~~~~~~G~I~~~~G~g~~tt~~~~i--~~v-~q-~~~l~dtpgv~e~  281 (358)
T 2rcn_A          214 TGRISIFAGQSGVGKSSLLNALLGLQNEILTNDVSNVSGLGQHTTTAARL--YHF-PH-GGDVIDSPGVREF  281 (358)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHCCSSCCCCC-------------CCCEE--EEC-TT-SCEEEECHHHHTC
T ss_pred             CCCEEEEECCCCccHHHHHHHHhccccccccCCccccCCCCccceEEEEE--EEE-CC-CCEecCcccHHHh
Confidence            356899999999999999999999775 444432211      1111111  122 22 2358999998664

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=98.33  E-value=1.1e-05  Score=62.72  Aligned_cols=123  Identities=16%  Similarity=0.116  Sum_probs=65.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHh-------CCCCccccCCCC-cc----------ceeeEEEE--------------E-
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSIL-------GRRAFKSRASSS-GV----------TSTCEMQR--------------T-   63 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~-------~~~~~~~~~~~~-~~----------t~~~~~~~--------------~-   63 (173)
                      .++..|+++|.+|+||||+...|.       |..+..-...+. +.          ........              + 
T Consensus        98 ~~~~vI~ivG~~GvGKTT~a~~LA~~l~~~~G~kVllvd~D~~r~~a~~ql~~~~~~~~l~v~~~~~~~dp~~i~~~~l~  177 (433)
T 2xxa_A           98 QPPAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNAALK  177 (433)
T ss_dssp             SSSEEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEECCCSSTTHHHHHHHHHHHHTCEECCCCSSSCHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEEecCCCCccHHHHHHhhcccCCeeEEeCCCCCCHHHHHHHHHH
Confidence            456789999999999999998886       443321110000 00          00000000              0 


Q ss_pred             Eee-CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEE
Q 043441           64 VLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIV  142 (173)
Q Consensus        64 ~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i  142 (173)
                      ... .+..++++||||....   ...+..++.....  ...++.+++|+++...  ......++.+    .... ....+
T Consensus       178 ~~~~~~~D~VIIDTpG~l~~---~~~l~~~L~~~~~--~~~p~~vllVvda~~g--~~~~~~~~~f----~~~l-~i~gv  245 (433)
T 2xxa_A          178 EAKLKFYDVLLVDTAGRLHV---DEAMMDEIKQVHA--SINPVETLFVVDAMTG--QDAANTAKAF----NEAL-PLTGV  245 (433)
T ss_dssp             HHHHTTCSEEEEECCCCCTT---CHHHHHHHHHHHH--HSCCSEEEEEEETTBC--TTHHHHHHHH----HHHS-CCCCE
T ss_pred             HHHhCCCCEEEEECCCcccc---cHHHHHHHHHHHH--hhcCcceeEEeecchh--HHHHHHHHHH----hccC-CCeEE
Confidence            000 3457899999997642   1233434433322  2357888999998733  2222222222    2221 22568


Q ss_pred             EEeCCCCCC
Q 043441          143 VFTGGDELE  151 (173)
Q Consensus       143 v~tk~D~~~  151 (173)
                      |+||+|.-.
T Consensus       246 VlnK~D~~~  254 (433)
T 2xxa_A          246 VLTKVDGDA  254 (433)
T ss_dssp             EEECTTSSS
T ss_pred             EEecCCCCc
Confidence            999999754

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=98.31  E-value=1.3e-06  Score=63.47  Aligned_cols=29  Identities=28%  Similarity=0.313  Sum_probs=25.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRA   44 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~   44 (173)
                      -+++..++|+|++|||||||++.|+|...
T Consensus        43 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   71 (260)
T 2ghi_A           43 IPSGTTCALVGHTGSGKSTIAKLLYRFYD   71 (260)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhccCC
Confidence            35778999999999999999999999754

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=98.29  E-value=8.5e-07  Score=71.50  Aligned_cols=32  Identities=28%  Similarity=0.193  Sum_probs=27.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++..++++|++||||||+++.|+|.....+|
T Consensus       367 ~~Ge~~~ivG~sGsGKSTll~~l~g~~~~~~G  398 (587)
T 3qf4_A          367 KPGSLVAVLGETGSGKSTLMNLIPRLIDPERG  398 (587)
T ss_dssp             CTTCEEEEECSSSSSHHHHHHTTTTSSCCSEE
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCccCCCc
Confidence            56788999999999999999999997654444

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=98.25  E-value=2.3e-06  Score=63.94  Aligned_cols=127  Identities=19%  Similarity=0.202  Sum_probs=67.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc------CCCCcc--------------ceeeEEE-EE-----------
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR------ASSSGV--------------TSTCEMQ-RT-----------   63 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~------~~~~~~--------------t~~~~~~-~~-----------   63 (173)
                      ..++..++++|++|+||||++..|.+......+      ......              ....... ..           
T Consensus       102 ~~~~~vI~ivG~~G~GKTT~~~~LA~~l~~~g~kVllid~D~~r~~a~~ql~~~~~~~~~~~l~vip~~~~~~~p~~~~~  181 (320)
T 1zu4_A          102 ENRLNIFMLVGVNGTGKTTSLAKMANYYAELGYKVLIAAADTFRAGATQQLEEWIKTRLNNKVDLVKANKLNADPASVVF  181 (320)
T ss_dssp             TTSCEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCSCHHHHHHHHHHHTTTSCTTEEEECCSSTTCCHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHHHHHhccccCCceEEeCCCCCCCHHHHHH
Confidence            456788999999999999999887542211000      000000              0001111 00           


Q ss_pred             -----EeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH---HHHh-ccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc
Q 043441           64 -----VLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK---CIGL-AKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK  134 (173)
Q Consensus        64 -----~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~---~~~~-~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~  134 (173)
                           ....+..++++||||....   .+.+..++..   .+.. ....+|.+++++++...     ...++.++. |..
T Consensus       182 ~~l~~~~~~~yD~VIIDTpg~l~~---~~~l~~eL~~~~~vi~~~~p~~~d~vllVl~a~~~-----~~~l~~~~~-~~~  252 (320)
T 1zu4_A          182 DAIKKAKEQNYDLLLIDTAGRLQN---KTNLMAELEKMNKIIQQVEKSAPHEVLLVIDATTG-----QNGVIQAEE-FSK  252 (320)
T ss_dssp             HHHHHHHHTTCSEEEEECCCCGGG---HHHHHHHHHHHHHHHHTTCTTCCSEEEEEEEGGGT-----HHHHHHHHH-HTT
T ss_pred             HHHHHHHhcCCCEEEEcCCCcccc---cHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCc-----HHHHHHHHH-Hhh
Confidence                 0013346899999997742   1223333332   2221 12347888999998722     233444444 222


Q ss_pred             cccceEEEEEeCCCCCCC
Q 043441          135 KVFDYMIVVFTGGDELED  152 (173)
Q Consensus       135 ~~~~~~~iv~tk~D~~~~  152 (173)
                      . ....-+|+||.|.-..
T Consensus       253 ~-~~i~GvVltk~d~~~~  269 (320)
T 1zu4_A          253 V-ADVSGIILTKMDSTSK  269 (320)
T ss_dssp             T-SCCCEEEEECGGGCSC
T ss_pred             c-CCCcEEEEeCCCCCCc
Confidence            2 1345689999997543

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=98.25  E-value=1e-06  Score=71.21  Aligned_cols=33  Identities=24%  Similarity=0.292  Sum_probs=27.9

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -+++..++++|++||||||+++.|+|...+..|
T Consensus       378 i~~G~~~~ivG~sGsGKSTll~~l~g~~~p~~G  410 (598)
T 3qf4_B          378 IKPGQKVALVGPTGSGKTTIVNLLMRFYDVDRG  410 (598)
T ss_dssp             CCTTCEEEEECCTTSSTTHHHHHHTTSSCCSEE
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhcCcCCCCe
Confidence            357789999999999999999999997654444

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=98.20  E-value=1.8e-06  Score=75.41  Aligned_cols=32  Identities=22%  Similarity=0.158  Sum_probs=27.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++.++++||++||||||+++.|++...+..|
T Consensus      1103 ~~Ge~vaIVG~SGsGKSTL~~lL~rl~~p~~G 1134 (1321)
T 4f4c_A         1103 EPGQTLALVGPSGCGKSTVVALLERFYDTLGG 1134 (1321)
T ss_dssp             CTTCEEEEECSTTSSTTSHHHHHTTSSCCSSS
T ss_pred             CCCCEEEEECCCCChHHHHHHHHhcCccCCCC
Confidence            57789999999999999999999997654444

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=98.16  E-value=2.2e-06  Score=69.01  Aligned_cols=32  Identities=31%  Similarity=0.408  Sum_probs=27.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++..++++|++||||||+++.|+|...+..|
T Consensus       367 ~~G~~~~ivG~sGsGKSTLl~~l~g~~~p~~G  398 (582)
T 3b60_A          367 PAGKTVALVGRSGSGKSTIASLITRFYDIDEG  398 (582)
T ss_dssp             CTTCEEEEEECTTSSHHHHHHHHTTTTCCSEE
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhhccCCCCC
Confidence            56788999999999999999999997654444

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=98.16  E-value=5.2e-06  Score=64.25  Aligned_cols=122  Identities=19%  Similarity=0.176  Sum_probs=65.0

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCcccc------CCCC-ccc----------eeeEEEEE--------------E-e
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSR------ASSS-GVT----------STCEMQRT--------------V-L   65 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~------~~~~-~~t----------~~~~~~~~--------------~-~   65 (173)
                      ++..++++|++|+||||++..|.+.......      .... +..          ........              . .
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~g~~Vllvd~D~~r~aa~~qL~~~~~~~gv~v~~~~~~~~p~~i~~~~l~~~  176 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKA  176 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeeccccCchhHHHHHHhcccCCccEEecCCCCCHHHHHHHHHHHH
Confidence            5678999999999999999888642211000      0000 000          00000000              0 0


Q ss_pred             -eCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEE
Q 043441           66 -KDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVF  144 (173)
Q Consensus        66 -~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~  144 (173)
                       ..+..++++||||....   ......++.......  .++.+++|+++...  ......++.+.+    . .....+|+
T Consensus       177 ~~~~~DvVIIDTaG~l~~---d~~l~~el~~i~~~~--~pd~vlLVvDa~tg--q~av~~a~~f~~----~-l~i~GVIl  244 (425)
T 2ffh_A          177 RLEARDLILVDTAGRLQI---DEPLMGELARLKEVL--GPDEVLLVLDAMTG--QEALSVARAFDE----K-VGVTGLVL  244 (425)
T ss_dssp             HHTTCSEEEEECCCCSSC---CHHHHHHHHHHHHHH--CCSEEEEEEEGGGT--THHHHHHHHHHH----H-TCCCEEEE
T ss_pred             HHCCCCEEEEcCCCcccc---cHHHHHHHHHhhhcc--CCceEEEEEeccch--HHHHHHHHHHHh----c-CCceEEEE
Confidence             03346899999997653   233444444433322  56888999998622  222222222222    1 13477899


Q ss_pred             eCCCCCC
Q 043441          145 TGGDELE  151 (173)
Q Consensus       145 tk~D~~~  151 (173)
                      ||.|.-.
T Consensus       245 TKlD~~~  251 (425)
T 2ffh_A          245 TKLDGDA  251 (425)
T ss_dssp             ESGGGCS
T ss_pred             eCcCCcc
Confidence            9998753

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=98.15  E-value=6.9e-06  Score=62.37  Aligned_cols=84  Identities=14%  Similarity=0.066  Sum_probs=52.9

Q ss_pred             ceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCC--------CHHHHHHHH
Q 043441           55 TSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRF--------PQEEEAALH  126 (173)
Q Consensus        55 t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~--------~~~~~~~~~  126 (173)
                      |.......... ++..+.+|||+|..           ..+..+..++++++++|||++.++.-        ...-.....
T Consensus       188 T~Gi~~~~~~~-~~~~l~i~Dt~Gq~-----------~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~  255 (362)
T 1zcb_A          188 TKGIHEYDFEI-KNVPFKMVDVGGQR-----------SERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLN  255 (362)
T ss_dssp             CSSEEEEEEEE-TTEEEEEEEECC------------------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHH
T ss_pred             ccceEEEEeee-CCeEEEEEeccchh-----------hhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHH
Confidence            33344444555 67899999999964           34445557899999999999998411        122234444


Q ss_pred             HHHHHHccc--ccceEEEEEeCCCCC
Q 043441          127 SWQTLFGKK--VFDYMIVVFTGGDEL  150 (173)
Q Consensus       127 ~l~~~~~~~--~~~~~~iv~tk~D~~  150 (173)
                      ++.+.....  ...|+++++||+|+.
T Consensus       256 ~~~~i~~~~~~~~~piILv~NK~DL~  281 (362)
T 1zcb_A          256 IFETIVNNRVFSNVSIILFLNKTDLL  281 (362)
T ss_dssp             HHHHHHTCGGGTTSEEEEEEECHHHH
T ss_pred             HHHHHhcchhhCCCCEEEEEEChhhh
Confidence            555554332  236999999999986

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=98.12  E-value=1.5e-06  Score=75.97  Aligned_cols=32  Identities=31%  Similarity=0.334  Sum_probs=27.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++..+++||++||||||+++.|+|......|
T Consensus       442 ~~G~~vaivG~sGsGKSTll~ll~~~~~~~~G  473 (1321)
T 4f4c_A          442 NAGQTVALVGSSGCGKSTIISLLLRYYDVLKG  473 (1321)
T ss_dssp             CTTCEEEEEECSSSCHHHHHHHHTTSSCCSEE
T ss_pred             cCCcEEEEEecCCCcHHHHHHHhccccccccC
Confidence            56789999999999999999999997654444

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=98.07  E-value=9.1e-05  Score=59.93  Aligned_cols=33  Identities=18%  Similarity=0.184  Sum_probs=27.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA   49 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~   49 (173)
                      .++..++|+|++|||||||++.|.|......|.
T Consensus       380 ~~Gei~~i~G~NGsGKSTLlk~l~Gl~~p~~G~  412 (607)
T 3bk7_A          380 RKGEVIGIVGPNGIGKTTFVKMLAGVEEPTEGK  412 (607)
T ss_dssp             ETTCEEEEECCTTSSHHHHHHHHHTSSCCSBSC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCCceE
Confidence            356789999999999999999999976555553

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=98.07  E-value=3.4e-06  Score=60.60  Aligned_cols=33  Identities=18%  Similarity=0.179  Sum_probs=27.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -+++..++|+|++|||||||++.|.|......|
T Consensus        25 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   57 (243)
T 1mv5_A           25 AQPNSIIAFAGPSGGGKSTIFSLLERFYQPTAG   57 (243)
T ss_dssp             ECTTEEEEEECCTTSSHHHHHHHHTTSSCCSBS
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            357789999999999999999999997654444

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=98.06  E-value=1.4e-06  Score=60.56  Aligned_cols=25  Identities=36%  Similarity=0.573  Sum_probs=21.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ++..++|+|++||||||+++.|++.
T Consensus         3 ~g~~i~lvGpsGaGKSTLl~~L~~~   27 (198)
T 1lvg_A            3 GPRPVVLSGPSGAGKSTLLKKLFQE   27 (198)
T ss_dssp             --CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            4568999999999999999999874

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=98.06  E-value=3e-06  Score=61.53  Aligned_cols=33  Identities=18%  Similarity=0.158  Sum_probs=27.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|.|...+..|
T Consensus        29 i~~Ge~~~liG~nGsGKSTLlk~l~Gl~~p~~G   61 (262)
T 1b0u_A           29 ARAGDVISIIGSSGSGKSTFLRCINFLEKPSEG   61 (262)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            357788999999999999999999997654444

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=98.06  E-value=4e-06  Score=73.15  Aligned_cols=32  Identities=28%  Similarity=0.248  Sum_probs=27.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++.+++++|++||||||+++.|+|......|
T Consensus       414 ~~G~~~~ivG~sGsGKSTl~~ll~g~~~~~~G  445 (1284)
T 3g5u_A          414 KSGQTVALVGNSGCGKSTTVQLMQRLYDPLDG  445 (1284)
T ss_dssp             CTTCEEEEECCSSSSHHHHHHHTTTSSCCSEE
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCCCe
Confidence            46788999999999999999999997654443

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=98.05  E-value=0.00011  Score=58.74  Aligned_cols=32  Identities=16%  Similarity=0.262  Sum_probs=27.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .++..++|+|++|||||||++.|+|......|
T Consensus       292 ~~Gei~~i~G~nGsGKSTLl~~l~Gl~~p~~G  323 (538)
T 3ozx_A          292 KEGEIIGILGPNGIGKTTFARILVGEITADEG  323 (538)
T ss_dssp             ETTCEEEEECCTTSSHHHHHHHHTTSSCCSBC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            35678999999999999999999997765544

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=98.04  E-value=2.8e-06  Score=60.82  Aligned_cols=33  Identities=24%  Similarity=0.209  Sum_probs=27.2

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|+|...+..|
T Consensus        28 i~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   60 (237)
T 2cbz_A           28 IPEGALVAVVGQVGCGKSSLLSALLAEMDKVEG   60 (237)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTCSEEEEE
T ss_pred             ECCCCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            356789999999999999999999997654333

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=98.04  E-value=2.8e-06  Score=61.54  Aligned_cols=33  Identities=27%  Similarity=0.286  Sum_probs=27.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -+++..++|+|++|||||||++.|.|...+..|
T Consensus        30 i~~Ge~~~liG~nGsGKSTLlk~l~Gl~~p~~G   62 (257)
T 1g6h_A           30 VNKGDVTLIIGPNGSGKSTLINVITGFLKADEG   62 (257)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             EeCCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            356788999999999999999999997654444

>4ido_A Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HET: GDP; 2.09A {Homo sapiens} PDB: 4idn_A* 3q5d_A* 3q5e_A* 4idq_A* 4idp_A* 3qnu_A* 3qof_A*

Probab=98.04  E-value=0.00011  Score=57.22  Aligned_cols=142  Identities=18%  Similarity=0.174  Sum_probs=71.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC-------C----------CCccccCCCCccceeeEE----EEEEeeCC--ceEE
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG-------R----------RAFKSRASSSGVTSTCEM----QRTVLKDG--QVVN   72 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~-------~----------~~~~~~~~~~~~t~~~~~----~~~~~~~~--~~~~   72 (173)
                      ..+...|.|+|+.++|||+|+|.|++       .          ..|.-+......|...-.    .....+.+  ..++
T Consensus        64 ~~~v~vvsv~G~~~~gks~l~N~ll~~~~~~~~~~w~~~~~~~~~gF~~~~~~~~~TkGIWmw~~p~~~~~~~g~~~~vl  143 (457)
T 4ido_A           64 DKEVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVL  143 (457)
T ss_dssp             TSBEEEEEEEEBTTSSHHHHHHHHHHHHHCTTCTTTTCCTTCCCCSSCCCCSSSCCCCSEEEESSCEEEECTTSCEEEEE
T ss_pred             CCceEEEEEECCCCCchhHHHHHHHHHhhcccccccccccccCCCCceeCCCCCCcCceEEEecCcccccCCCCCeeEEE
Confidence            45678888999999999999997752       1          223322222233333221    11111122  4699


Q ss_pred             EEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHH---Hcc----cccceEEEEEe
Q 043441           73 VIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTL---FGK----KVFDYMIVVFT  145 (173)
Q Consensus        73 v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~---~~~----~~~~~~~iv~t  145 (173)
                      ++||.|+.+.....+. ...+...+ ..+  ...+|  ++....+...+.+.++.+-+.   ...    ..+..++.++-
T Consensus       144 llDTEG~~d~~~~~~~-d~~ifaLa-~LL--SS~~I--yN~~~~i~~~~L~~L~~~tel~~~i~~~~~~~~Fp~f~wlvR  217 (457)
T 4ido_A          144 LMDTQGTFDSQSTLRD-SATVFALS-TMI--SSIQV--YNLSQNVQEDDLQHLQLFTEYGRLAMEETFLKPFQSLIFLVR  217 (457)
T ss_dssp             EEEECCBTCTTCCHHH-HHHHHHHH-HHH--CSEEE--EEEESSCCHHHHHHHHHHHHHHHHHSCCCSSCSEEEEEEEEE
T ss_pred             EEeccCCCCcccCccc-cHHHHHHH-HHH--hhhee--ecccccCCHHHHHHHHHHHHHHHHHhhhcccccCCceEEEEe
Confidence            9999999986554221 11121111 111  13344  444436666665555554442   222    12345666666


Q ss_pred             CCCCC-C--CCcccHHHHhcc
Q 043441          146 GGDEL-E--DNEETLEDYLGR  163 (173)
Q Consensus       146 k~D~~-~--~~~~~~~~~~~~  163 (173)
                      -+-.- +  ...++.++|+++
T Consensus       218 Df~l~l~~~~g~~t~~eyLe~  238 (457)
T 4ido_A          218 DWSFPYEFSYGADGGAKFLEK  238 (457)
T ss_dssp             TCCCTTTSCSBHHHHHHHHHH
T ss_pred             cCCccccccCCCCCHHHHHHH
Confidence            55432 1  111344556654

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=98.03  E-value=3.1e-06  Score=60.24  Aligned_cols=32  Identities=22%  Similarity=0.255  Sum_probs=26.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++..++|+|++|||||||++.|+|...+..|
T Consensus        32 ~~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   63 (229)
T 2pze_A           32 ERGQLLAVAGSTGAGKTSLLMMIMGELEPSEG   63 (229)
T ss_dssp             ETTCEEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCcCCcc
Confidence            46778999999999999999999997654333

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=98.03  E-value=2.4e-06  Score=59.71  Aligned_cols=28  Identities=29%  Similarity=0.287  Sum_probs=23.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      -.++..++|+|++||||||+++.|.|..
T Consensus        17 i~~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           17 AAVGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             --CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            4567889999999999999999998754

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=98.02  E-value=2.8e-06  Score=58.13  Aligned_cols=25  Identities=24%  Similarity=0.506  Sum_probs=22.4

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .+..++|+|++||||||+++.|.+.
T Consensus         4 ~g~~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            4 MRKTLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            4578999999999999999999874

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=98.00  E-value=4.6e-06  Score=60.69  Aligned_cols=33  Identities=27%  Similarity=0.261  Sum_probs=27.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|.|...+..|
T Consensus        30 i~~Ge~~~liG~nGsGKSTLl~~i~Gl~~p~~G   62 (266)
T 2yz2_A           30 INEGECLLVAGNTGSGKSTLLQIVAGLIEPTSG   62 (266)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhCCCCCCCc
Confidence            457789999999999999999999997654444

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=98.00  E-value=3.7e-06  Score=61.63  Aligned_cols=32  Identities=19%  Similarity=0.149  Sum_probs=27.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .++..++|+|++|||||||++.|+|...+..|
T Consensus        45 ~~Ge~~~liG~NGsGKSTLlk~l~Gl~~p~~G   76 (279)
T 2ihy_A           45 AKGDKWILYGLNGAGKTTLLNILNAYEPATSG   76 (279)
T ss_dssp             ETTCEEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCCCCCCe
Confidence            46778999999999999999999997655444

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=97.99  E-value=6.4e-06  Score=55.29  Aligned_cols=31  Identities=19%  Similarity=0.187  Sum_probs=26.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .++..++|+|++|||||||++.|.|.. ...+
T Consensus        31 ~~Ge~v~L~G~nGaGKTTLlr~l~g~l-~~~G   61 (158)
T 1htw_A           31 EKAIMVYLNGDLGAGKTTLTRGMLQGI-GHQG   61 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHT-TCCS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHhC-CCCC
Confidence            566789999999999999999999866 4344

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=97.99  E-value=0.00016  Score=57.70  Aligned_cols=33  Identities=18%  Similarity=0.189  Sum_probs=27.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA   49 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~   49 (173)
                      .++.+++|+|++|||||||++.|+|......|.
T Consensus       310 ~~Ge~~~i~G~NGsGKSTLlk~l~Gl~~p~~G~  342 (538)
T 1yqt_A          310 KKGEVIGIVGPNGIGKTTFVKMLAGVEEPTEGK  342 (538)
T ss_dssp             ETTCEEEEECCTTSSHHHHHHHHHTSSCCSBCC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCCCCeE
Confidence            356789999999999999999999977555553

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=97.98  E-value=3.4e-06  Score=59.66  Aligned_cols=28  Identities=18%  Similarity=0.226  Sum_probs=24.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRA   44 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~   44 (173)
                      +++..++|+|++|||||||++.|++...
T Consensus        14 ~~G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           14 AQGTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            4667899999999999999999988553

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=97.97  E-value=0.00017  Score=58.39  Aligned_cols=29  Identities=21%  Similarity=0.329  Sum_probs=25.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      ..++|+|++|||||||++.|.|......|
T Consensus       379 Eiv~iiG~NGsGKSTLlk~l~Gl~~p~~G  407 (608)
T 3j16_B          379 EILVMMGENGTGKTTLIKLLAGALKPDEG  407 (608)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHTSSCCSBC
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCC
Confidence            56899999999999999999997765555

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.97  E-value=3.9e-06  Score=58.24  Aligned_cols=25  Identities=12%  Similarity=0.278  Sum_probs=22.5

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ++..++|+|++||||||+++.|.+.
T Consensus         6 ~g~ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            6 KANLFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhh
Confidence            4578999999999999999999874

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=97.96  E-value=3.6e-06  Score=57.58  Aligned_cols=23  Identities=26%  Similarity=0.501  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCC
Q 043441           21 TVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      +++++|++|||||||++.|+|..
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999998754

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=97.95  E-value=1.8e-05  Score=60.77  Aligned_cols=82  Identities=13%  Similarity=0.108  Sum_probs=55.0

Q ss_pred             eEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCC--------CCHHHHHHHHHHH
Q 043441           58 CEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSR--------FPQEEEAALHSWQ  129 (173)
Q Consensus        58 ~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~--------~~~~~~~~~~~l~  129 (173)
                      .....+.. ++..+.+|||+|...           ++..+..++++++++|+|++.++.        -...-.....++.
T Consensus       207 i~~~~~~~-~~v~l~iwDtaGQe~-----------~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~  274 (402)
T 1azs_C          207 IFETKFQV-DKVNFHMFDVGGQRD-----------ERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFK  274 (402)
T ss_dssp             EEEEEEEE-TTEEEEEEEECCSGG-----------GGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHH
T ss_pred             eEEEEeec-CCccceecccchhhh-----------hhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHH
Confidence            33444555 678899999999653           344455789999999999999840        0122234455555


Q ss_pred             HHHccc--ccceEEEEEeCCCCCC
Q 043441          130 TLFGKK--VFDYMIVVFTGGDELE  151 (173)
Q Consensus       130 ~~~~~~--~~~~~~iv~tk~D~~~  151 (173)
                      ++....  ...|++|++||+|+..
T Consensus       275 ~i~~~~~~~~~piiLvgNK~DL~~  298 (402)
T 1azs_C          275 SIWNNRWLRTISVILFLNKQDLLA  298 (402)
T ss_dssp             HHHTCTTCSSCCEEEEEECHHHHH
T ss_pred             HHHhcccCCCCeEEEEEEChhhhh
Confidence            554331  2368999999999753

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.95  E-value=3.2e-06  Score=59.65  Aligned_cols=28  Identities=25%  Similarity=0.386  Sum_probs=23.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      -+++..++|+|++|||||||++.|+|..
T Consensus        20 i~~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           20 MNNIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             --CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3567889999999999999999998854

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=97.93  E-value=2.8e-06  Score=60.34  Aligned_cols=28  Identities=21%  Similarity=0.359  Sum_probs=18.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHh-CCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSIL-GRR   43 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~-~~~   43 (173)
                      -.++..++|+|++||||||+++.|. +..
T Consensus        24 v~~G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           24 KSVGVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             EECCCEEEEECSCC----CHHHHHHC---
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            3567889999999999999999999 653

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=97.93  E-value=7.1e-06  Score=56.31  Aligned_cols=26  Identities=23%  Similarity=0.433  Sum_probs=23.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .++..++|+|++||||||+++.|.+.
T Consensus         7 ~~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            7 LGGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             CTTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHhc
Confidence            45678999999999999999999886

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=97.92  E-value=6.9e-06  Score=59.80  Aligned_cols=27  Identities=26%  Similarity=0.444  Sum_probs=24.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      -.++..++|+|++|||||||++.|+|.
T Consensus        43 i~~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           43 VHPGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            356788999999999999999999996

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=97.91  E-value=3e-05  Score=57.27  Aligned_cols=123  Identities=20%  Similarity=0.158  Sum_probs=65.8

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCcccc------CCCC-ccc----------eeeEEEEE--------------E-e
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSR------ASSS-GVT----------STCEMQRT--------------V-L   65 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~------~~~~-~~t----------~~~~~~~~--------------~-~   65 (173)
                      ++..++++|++|+||||++..|.+......+      .... ...          ........              . .
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~~~~~v~l~~~d~~~~~~~~ql~~~~~~~~l~~~~~~~~~~p~~l~~~~l~~~  176 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKA  176 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcccHhHHHHHHHhcccCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            5678999999999999999888653211110      0000 000          00000000              0 0


Q ss_pred             -eCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEE
Q 043441           66 -KDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVF  144 (173)
Q Consensus        66 -~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~  144 (173)
                       ..+..++++||||....   ......++.......  .++.+++++++. .. .   ..++.++.. ... ....-+|+
T Consensus       177 ~~~~~D~viiDtpp~~~~---d~~~~~~l~~~~~~~--~~~~~~lv~~~~-~~-~---~~~~~~~~~-~~~-~~i~givl  244 (295)
T 1ls1_A          177 RLEARDLILVDTAGRLQI---DEPLMGELARLKEVL--GPDEVLLVLDAM-TG-Q---EALSVARAF-DEK-VGVTGLVL  244 (295)
T ss_dssp             HHHTCCEEEEECCCCSSC---CHHHHHHHHHHHHHH--CCSEEEEEEEGG-GT-H---HHHHHHHHH-HHH-TCCCEEEE
T ss_pred             HhCCCCEEEEeCCCCccc---cHHHHHHHHHHhhhc--CCCEEEEEEeCC-Cc-H---HHHHHHHHH-hhc-CCCCEEEE
Confidence             02347899999987643   233444444444333  467778889886 21 2   223333322 211 13466899


Q ss_pred             eCCCCCCC
Q 043441          145 TGGDELED  152 (173)
Q Consensus       145 tk~D~~~~  152 (173)
                      ||.|.-..
T Consensus       245 nk~d~~~~  252 (295)
T 1ls1_A          245 TKLDGDAR  252 (295)
T ss_dssp             ECGGGCSS
T ss_pred             ECCCCCcc
Confidence            99997643

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=97.90  E-value=7.2e-06  Score=60.44  Aligned_cols=32  Identities=22%  Similarity=0.255  Sum_probs=26.8

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++..++|+|++|||||||++.|+|......|
T Consensus        62 ~~Ge~~~i~G~NGsGKSTLlk~l~Gl~~p~~G   93 (290)
T 2bbs_A           62 ERGQLLAVAGSTGAGKTSLLMMIMGELEPSEG   93 (290)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHTTSSCEEEE
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhcCCCCCCc
Confidence            46778999999999999999999997654333

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.89  E-value=6e-06  Score=57.72  Aligned_cols=27  Identities=30%  Similarity=0.490  Sum_probs=24.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ..++..++|+|++|||||||++.|.+.
T Consensus        19 ~~~g~~v~I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A           19 QPGRQLVALSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             CCSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            467789999999999999999998764

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=97.89  E-value=6.8e-06  Score=59.27  Aligned_cols=26  Identities=27%  Similarity=0.438  Sum_probs=23.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .++..++|+|++|||||||++.|+|.
T Consensus        27 ~~Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           27 PKGEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            46778999999999999999999996

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=97.88  E-value=7.2e-06  Score=59.15  Aligned_cols=34  Identities=15%  Similarity=0.227  Sum_probs=26.4

Q ss_pred             CCCCCCccEEEEEcCCCCCHHHHHHHHh---CCCCcc
Q 043441           13 TSPSNGVRTVVFVGRTGNGKSATGNSIL---GRRAFK   46 (173)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKStlin~l~---~~~~~~   46 (173)
                      ..+...+..|+|+|++||||||+.+.|.   |...+.
T Consensus        21 ~~m~~~g~~I~I~G~~GsGKSTl~k~La~~Lg~~~~d   57 (252)
T 4e22_A           21 PHMTAIAPVITVDGPSGAGKGTLCKALAESLNWRLLD   57 (252)
T ss_dssp             --CTTTSCEEEEECCTTSSHHHHHHHHHHHTTCEEEE
T ss_pred             hhcCCCCcEEEEECCCCCCHHHHHHHHHHhcCCCcCC
Confidence            3344567899999999999999999998   755443

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=97.87  E-value=7.9e-06  Score=56.77  Aligned_cols=28  Identities=32%  Similarity=0.629  Sum_probs=24.1

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      ...+..++|+|++|||||||++.|++..
T Consensus        16 ~~~g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           16 FQGRKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             CCSCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCCCEEEEECcCCCCHHHHHHHHHhhC
Confidence            3467889999999999999999998643

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.87  E-value=8e-06  Score=55.39  Aligned_cols=24  Identities=29%  Similarity=0.522  Sum_probs=20.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHh
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~   40 (173)
                      +++..++++|++|||||||++.+.
T Consensus         7 ~~gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            7 PELSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             ESSEEEEEECCTTSCHHHHHHHHS
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHc
Confidence            356789999999999999999543

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=97.87  E-value=8.4e-06  Score=57.02  Aligned_cols=28  Identities=18%  Similarity=0.338  Sum_probs=24.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      .+++..++|+|++||||||+++.|.+..
T Consensus         5 ~~~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            5 TERGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             cCCCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            3467789999999999999999998754

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=97.86  E-value=1.1e-05  Score=58.65  Aligned_cols=29  Identities=28%  Similarity=0.314  Sum_probs=25.6

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +..++|+|++|||||||++.|+|.. +..+
T Consensus        30 Ge~~~i~G~NGsGKSTLlk~l~Gl~-p~~G   58 (263)
T 2pjz_A           30 GEKVIILGPNGSGKTTLLRAISGLL-PYSG   58 (263)
T ss_dssp             SSEEEEECCTTSSHHHHHHHHTTSS-CCEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHhCCC-CCCc
Confidence            6789999999999999999999976 5444

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=97.83  E-value=9e-06  Score=59.02  Aligned_cols=28  Identities=29%  Similarity=0.391  Sum_probs=24.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      ..++..++++|++||||||+++.|++..
T Consensus        22 i~~g~~v~i~Gp~GsGKSTll~~l~g~~   49 (261)
T 2eyu_A           22 HRKMGLILVTGPTGSGKSTTIASMIDYI   49 (261)
T ss_dssp             GCSSEEEEEECSTTCSHHHHHHHHHHHH
T ss_pred             hCCCCEEEEECCCCccHHHHHHHHHHhC
Confidence            4567899999999999999999998854

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=97.82  E-value=2e-05  Score=68.78  Aligned_cols=32  Identities=22%  Similarity=0.178  Sum_probs=27.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .++.+++++|++||||||+++.|+|...+..|
T Consensus      1057 ~~Ge~v~ivG~sGsGKSTl~~~l~g~~~p~~G 1088 (1284)
T 3g5u_A         1057 KKGQTLALVGSSGCGKSTVVQLLERFYDPMAG 1088 (1284)
T ss_dssp             CSSSEEEEECSSSTTHHHHHHHHTTSSCCSEE
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCcCCCCC
Confidence            56789999999999999999999997654444

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=97.81  E-value=1.2e-05  Score=57.70  Aligned_cols=31  Identities=23%  Similarity=0.396  Sum_probs=24.5

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHh---CCCCc
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSIL---GRRAF   45 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~---~~~~~   45 (173)
                      ....+..++|+|++||||||+++.|.   |...+
T Consensus        23 ~~~~~~~i~l~G~~GsGKSTl~k~La~~lg~~~~   56 (246)
T 2bbw_A           23 MASKLLRAVILGPPGSGKGTVCQRIAQNFGLQHL   56 (246)
T ss_dssp             ---CCCEEEEECCTTSSHHHHHHHHHHHHCCCCE
T ss_pred             hcCCCcEEEEECCCCCCHHHHHHHHHHHhCCeEe
Confidence            34456799999999999999999999   86544

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=97.79  E-value=6.8e-06  Score=57.64  Aligned_cols=33  Identities=21%  Similarity=0.241  Sum_probs=26.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRAS   50 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~   50 (173)
                      .++..++|+|++|||||||++.|+|. .+..+..
T Consensus        20 ~~Ge~~~liG~nGsGKSTLl~~l~Gl-~p~~G~I   52 (208)
T 3b85_A           20 DTNTIVFGLGPAGSGKTYLAMAKAVQ-ALQSKQV   52 (208)
T ss_dssp             HHCSEEEEECCTTSSTTHHHHHHHHH-HHHTTSC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcC-CCcCCee
Confidence            34678999999999999999999997 5545543

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=97.78  E-value=1e-05  Score=56.41  Aligned_cols=26  Identities=15%  Similarity=0.216  Sum_probs=22.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .++..++|+|++||||||+++.|.+.
T Consensus         4 ~~~~~i~i~G~~GsGKSTl~~~l~~~   29 (211)
T 3asz_A            4 PKPFVIGIAGGTASGKTTLAQALART   29 (211)
T ss_dssp             -CCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            45578999999999999999999874

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=97.78  E-value=1.1e-05  Score=59.69  Aligned_cols=27  Identities=26%  Similarity=0.347  Sum_probs=24.1

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      -+++..++|+|++|+|||||++.|+|.
T Consensus       123 i~~Ge~vaIvGpsGsGKSTLl~lL~gl  149 (305)
T 2v9p_A          123 IPKKNCLAFIGPPNTGKSMLCNSLIHF  149 (305)
T ss_dssp             CTTCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             ecCCCEEEEECCCCCcHHHHHHHHhhh
Confidence            457789999999999999999999864

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=97.74  E-value=2.7e-05  Score=62.09  Aligned_cols=34  Identities=15%  Similarity=0.182  Sum_probs=28.5

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      ...++..++|+|++|||||||++.|.|...+..+
T Consensus        21 ~~~~Gei~gLiGpNGaGKSTLlkiL~Gl~~p~~G   54 (538)
T 3ozx_A           21 TPKNNTILGVLGKNGVGKTTVLKILAGEIIPNFG   54 (538)
T ss_dssp             CCCTTEEEEEECCTTSSHHHHHHHHTTSSCCCTT
T ss_pred             CCCCCCEEEEECCCCCcHHHHHHHHhcCCCCCCC
Confidence            3457789999999999999999999997655444

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.74  E-value=1.7e-05  Score=54.94  Aligned_cols=26  Identities=23%  Similarity=0.330  Sum_probs=23.0

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      ++..++|+|++||||||+++.|.+..
T Consensus         5 ~g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            5 KGLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhh
Confidence            46789999999999999999998754

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana}

Probab=97.73  E-value=4.3e-05  Score=57.82  Aligned_cols=73  Identities=12%  Similarity=0.101  Sum_probs=47.9

Q ss_pred             CceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecC-------CC-CCHHHHHHHHHHHHHHccc--cc
Q 043441           68 GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVR-------SR-FPQEEEAALHSWQTLFGKK--VF  137 (173)
Q Consensus        68 ~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~-------~~-~~~~~~~~~~~l~~~~~~~--~~  137 (173)
                      ...+.+|||+|...           ++..+..++++++++|+|++.+       +. -...-..+.+++.+.....  ..
T Consensus       182 ~v~l~iwDtaGQe~-----------~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~  250 (354)
T 2xtz_A          182 GEVYRLFDVGGQRN-----------ERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEK  250 (354)
T ss_dssp             --EEEEEEECCSTT-----------GGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSS
T ss_pred             ceeeEEEECCCchh-----------hhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCC
Confidence            35799999999764           3334457899999999999986       11 1122234445555544322  23


Q ss_pred             ceEEEEEeCCCCCC
Q 043441          138 DYMIVVFTGGDELE  151 (173)
Q Consensus       138 ~~~~iv~tk~D~~~  151 (173)
                      .|+++++||+|+..
T Consensus       251 ~piiLvgNK~DL~~  264 (354)
T 2xtz_A          251 TSFMLFLNKFDIFE  264 (354)
T ss_dssp             CEEEEEEECHHHHH
T ss_pred             CeEEEEEECcchhh
Confidence            69999999999753

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=97.71  E-value=2.3e-05  Score=59.45  Aligned_cols=28  Identities=29%  Similarity=0.489  Sum_probs=24.8

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCc
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAF   45 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~   45 (173)
                      ++..++|+|++||||||+++.|++....
T Consensus       174 ~G~~i~ivG~sGsGKSTll~~l~~~~~~  201 (361)
T 2gza_A          174 LERVIVVAGETGSGKTTLMKALMQEIPF  201 (361)
T ss_dssp             TTCCEEEEESSSSCHHHHHHHHHTTSCT
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhcCCC
Confidence            5678999999999999999999997643

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=97.69  E-value=2.2e-05  Score=58.48  Aligned_cols=27  Identities=19%  Similarity=0.115  Sum_probs=24.1

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ...+..++|+|++|||||||++.|.+.
T Consensus        87 ~~~g~ivgI~G~sGsGKSTL~~~L~gl  113 (312)
T 3aez_A           87 RPVPFIIGVAGSVAVGKSTTARVLQAL  113 (312)
T ss_dssp             SCCCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCchHHHHHHHHHhh
Confidence            467789999999999999999999773

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.68  E-value=2.1e-05  Score=54.55  Aligned_cols=25  Identities=28%  Similarity=0.550  Sum_probs=21.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .++..++|+|++||||||+++.|.+
T Consensus        27 ~~g~~i~l~G~~GsGKSTl~~~L~~   51 (200)
T 4eun_A           27 EPTRHVVVMGVSGSGKTTIAHGVAD   51 (200)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4678999999999999999999864

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=97.67  E-value=3.4e-05  Score=61.54  Aligned_cols=35  Identities=23%  Similarity=0.181  Sum_probs=29.0

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA   49 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~   49 (173)
                      .-.++..++|+|++|||||||++.|.|...+..+.
T Consensus        43 ~i~~Ge~~~LvG~NGaGKSTLlk~l~Gl~~p~~G~   77 (538)
T 1yqt_A           43 VVKEGMVVGIVGPNGTGKSTAVKILAGQLIPNLCG   77 (538)
T ss_dssp             CCCTTSEEEEECCTTSSHHHHHHHHHTSSCCCTTT
T ss_pred             cCCCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCc
Confidence            34788899999999999999999999976554443

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=97.67  E-value=4.1e-05  Score=61.90  Aligned_cols=35  Identities=20%  Similarity=0.241  Sum_probs=29.5

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA   49 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~   49 (173)
                      ...++..++|+|++|||||||++.|.|...+..|.
T Consensus        99 ~~~~Gei~~LvGpNGaGKSTLLkiL~Gll~P~~G~  133 (608)
T 3j16_B           99 TPRPGQVLGLVGTNGIGKSTALKILAGKQKPNLGR  133 (608)
T ss_dssp             CCCTTSEEEEECCTTSSHHHHHHHHHTSSCCCTTT
T ss_pred             CCCCCCEEEEECCCCChHHHHHHHHhcCCCCCCce
Confidence            35678899999999999999999999977655553

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=97.65  E-value=2e-05  Score=54.41  Aligned_cols=25  Identities=24%  Similarity=0.258  Sum_probs=21.9

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRA   44 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~   44 (173)
                      .+++++|++|+||||+++.|++...
T Consensus         2 ~~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            2 RHVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCChHHHHHHHHHhhcc
Confidence            4689999999999999999988653

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=97.63  E-value=2.4e-05  Score=53.67  Aligned_cols=22  Identities=27%  Similarity=0.469  Sum_probs=20.1

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..++|+|++||||||+++.|.+
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            4689999999999999999975

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=97.63  E-value=2.1e-05  Score=58.94  Aligned_cols=28  Identities=29%  Similarity=0.281  Sum_probs=24.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCc
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAF   45 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~   45 (173)
                      ++..++++|++||||||+++.|++....
T Consensus       170 ~g~~v~i~G~~GsGKTTll~~l~g~~~~  197 (330)
T 2pt7_A          170 IGKNVIVCGGTGSGKTTYIKSIMEFIPK  197 (330)
T ss_dssp             HTCCEEEEESTTSCHHHHHHHGGGGSCT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcC
Confidence            4568999999999999999999986543

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=97.63  E-value=3.4e-05  Score=59.08  Aligned_cols=28  Identities=32%  Similarity=0.367  Sum_probs=25.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRA   44 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~   44 (173)
                      .++..++|+|++|||||||++.|.|...
T Consensus        45 ~~Ge~~~llGpsGsGKSTLLr~iaGl~~   72 (390)
T 3gd7_A           45 SPGQRVGLLGRTGSGKSTLLSAFLRLLN   72 (390)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTCSE
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhCCCC
Confidence            5678899999999999999999999754

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=97.61  E-value=4.1e-05  Score=51.75  Aligned_cols=25  Identities=28%  Similarity=0.472  Sum_probs=21.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..+..++|+|++||||||+.+.|.+
T Consensus         6 ~~g~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            6 HDHHIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHH
Confidence            3457899999999999999998854

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=97.61  E-value=3.1e-05  Score=55.47  Aligned_cols=27  Identities=26%  Similarity=0.230  Sum_probs=22.6

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .-.++..++|+|++||||||+++.|.+
T Consensus        21 ~i~~g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           21 QSMRPFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             --CCSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            345667899999999999999999876

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=97.61  E-value=3.2e-05  Score=53.64  Aligned_cols=26  Identities=19%  Similarity=0.211  Sum_probs=23.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .++..++|+|++||||||+.+.|.+.
T Consensus        23 ~~g~~i~l~G~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           23 QKGCVIWVTGLSGSGKSTLACALNQM   48 (200)
T ss_dssp             SCCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            56789999999999999999998764

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=97.60  E-value=2.5e-05  Score=54.96  Aligned_cols=27  Identities=15%  Similarity=0.193  Sum_probs=23.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      -+++..++|+|++|||||||++.|++.
T Consensus        22 i~~G~~~~l~G~nGsGKSTll~~l~g~   48 (231)
T 4a74_A           22 IETQAITEVFGEFGSGKTQLAHTLAVM   48 (231)
T ss_dssp             EESSEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            456788999999999999999999873

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=97.59  E-value=3.6e-05  Score=53.50  Aligned_cols=25  Identities=24%  Similarity=0.428  Sum_probs=21.8

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ++..++|+|++||||||+++.|...
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHh
Confidence            4578999999999999999999753

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=97.59  E-value=5.2e-05  Score=61.32  Aligned_cols=35  Identities=20%  Similarity=0.171  Sum_probs=29.2

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA   49 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~   49 (173)
                      .-.++..++|+|++|||||||++.|.|...+..|.
T Consensus       113 ~i~~Ge~~~LiG~NGsGKSTLlkiL~Gll~p~~G~  147 (607)
T 3bk7_A          113 IVKDGMVVGIVGPNGTGKTTAVKILAGQLIPNLCE  147 (607)
T ss_dssp             CCCTTSEEEEECCTTSSHHHHHHHHTTSSCCCTTT
T ss_pred             CCCCCCEEEEECCCCChHHHHHHHHhCCCCCCCCc
Confidence            34788899999999999999999999976554443

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=97.59  E-value=3.4e-05  Score=58.47  Aligned_cols=26  Identities=35%  Similarity=0.376  Sum_probs=22.8

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      +...++++|++||||||++++|++..
T Consensus       122 ~~g~i~I~GptGSGKTTlL~~l~g~~  147 (356)
T 3jvv_A          122 PRGLVLVTGPTGSGKSTTLAAMLDYL  147 (356)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcc
Confidence            45589999999999999999998754

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=97.56  E-value=3.6e-05  Score=58.64  Aligned_cols=27  Identities=30%  Similarity=0.407  Sum_probs=23.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      .++..++++|++||||||+++.|++..
T Consensus       134 ~~g~~i~ivG~~GsGKTTll~~l~~~~  160 (372)
T 2ewv_A          134 RKMGLILVTGPTGSGKSTTIASMIDYI  160 (372)
T ss_dssp             SSSEEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            466789999999999999999998854

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.53  E-value=3.7e-05  Score=51.81  Aligned_cols=23  Identities=35%  Similarity=0.673  Sum_probs=20.6

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ..++|+|++||||||+.+.|.+.
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999998763

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=97.51  E-value=5.1e-05  Score=56.30  Aligned_cols=27  Identities=19%  Similarity=0.176  Sum_probs=23.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ...+..++|+|++||||||+++.|.+.
T Consensus        77 ~~~g~iigI~G~~GsGKSTl~~~L~~~  103 (308)
T 1sq5_A           77 QRIPYIISIAGSVAVGKSTTARVLQAL  103 (308)
T ss_dssp             CCCCEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            356689999999999999999998763

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=97.49  E-value=5.4e-05  Score=60.02  Aligned_cols=27  Identities=30%  Similarity=0.319  Sum_probs=23.4

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRA   44 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~   44 (173)
                      .+..++++|++||||||++++|++...
T Consensus       259 ~g~~i~I~GptGSGKTTlL~aL~~~i~  285 (511)
T 2oap_1          259 HKFSAIVVGETASGKTTTLNAIMMFIP  285 (511)
T ss_dssp             TTCCEEEEESTTSSHHHHHHHHGGGSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            456799999999999999999998553

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=97.49  E-value=3.1e-05  Score=60.61  Aligned_cols=28  Identities=21%  Similarity=0.251  Sum_probs=24.8

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRA   44 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~   44 (173)
                      .++.+++|+|++|||||||++.|+|...
T Consensus       136 ~~Ge~v~IvGpnGsGKSTLlr~L~Gl~~  163 (460)
T 2npi_A          136 FEGPRVVIVGGSQTGKTSLSRTLCSYAL  163 (460)
T ss_dssp             SSCCCEEEEESTTSSHHHHHHHHHHTTH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCccc
Confidence            4678999999999999999999988653

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=97.49  E-value=5.2e-05  Score=58.61  Aligned_cols=27  Identities=30%  Similarity=0.284  Sum_probs=23.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      .+...++|+|++||||||++++|++..
T Consensus       165 ~~ggii~I~GpnGSGKTTlL~allg~l  191 (418)
T 1p9r_A          165 RPHGIILVTGPTGSGKSTTLYAGLQEL  191 (418)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             hcCCeEEEECCCCCCHHHHHHHHHhhc
Confidence            456689999999999999999998854

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=97.46  E-value=6.6e-05  Score=51.65  Aligned_cols=22  Identities=27%  Similarity=0.522  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 043441           21 TVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~   42 (173)
                      -|+|+||+||||||+++.|+..
T Consensus         3 pIVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            3 PIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            4899999999999999999754

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=97.46  E-value=2.2e-05  Score=53.31  Aligned_cols=24  Identities=17%  Similarity=0.235  Sum_probs=21.5

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      ..++|+|++||||||+++.|++..
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~   26 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPIL   26 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            578999999999999999998753

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=97.45  E-value=6.7e-05  Score=53.20  Aligned_cols=27  Identities=26%  Similarity=0.249  Sum_probs=23.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ..++..++|.|++||||||+++.|.+.
T Consensus        17 ~~~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           17 GTQPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             TCCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhc
Confidence            356789999999999999999999875

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=97.44  E-value=0.0021  Score=54.40  Aligned_cols=23  Identities=17%  Similarity=0.104  Sum_probs=20.8

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSI   39 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l   39 (173)
                      ..+..++|+|++|+||||+++.+
T Consensus       660 ~~g~i~~ItGpNGsGKSTlLr~i  682 (934)
T 3thx_A          660 DKQMFHIITGPNMGGKSTYIRQT  682 (934)
T ss_dssp             TTBCEEEEECCTTSSHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHH
Confidence            35678999999999999999998

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=97.42  E-value=0.00011  Score=51.08  Aligned_cols=27  Identities=15%  Similarity=0.225  Sum_probs=23.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ...+..++|+|++||||||+.+.|.+.
T Consensus        18 ~~~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           18 GSKTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             SCCCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            345678999999999999999999885

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=97.42  E-value=5e-05  Score=51.64  Aligned_cols=26  Identities=27%  Similarity=0.367  Sum_probs=22.8

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      .+..++++|++|+||||+++.+.+..
T Consensus        37 ~g~~~~l~G~~G~GKTtL~~~i~~~~   62 (180)
T 3ec2_A           37 EGKGLTFVGSPGVGKTHLAVATLKAI   62 (180)
T ss_dssp             GCCEEEECCSSSSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            46789999999999999999998743

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.40  E-value=0.00011  Score=50.86  Aligned_cols=25  Identities=24%  Similarity=0.498  Sum_probs=21.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+...|+|+|++||||||+.+.|.+
T Consensus        23 ~~~~~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           23 NAMVRIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             -CCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHHH
Confidence            4567999999999999999999864

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=97.39  E-value=5.4e-05  Score=57.44  Aligned_cols=26  Identities=27%  Similarity=0.340  Sum_probs=23.3

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRA   44 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~   44 (173)
                      ..+++|+|++|||||||++.|.|...
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~~  195 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVFN  195 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHhC
Confidence            68999999999999999999988544

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=97.38  E-value=8.8e-05  Score=50.49  Aligned_cols=24  Identities=17%  Similarity=0.389  Sum_probs=21.6

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .+.++++|++|+||||+++.|++.
T Consensus         6 ~~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            6 IPLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHh
Confidence            468999999999999999999864

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=97.38  E-value=6.5e-05  Score=55.98  Aligned_cols=26  Identities=23%  Similarity=0.382  Sum_probs=22.9

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      +.+.++|+|++||||||++|.|++..
T Consensus         3 ~i~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            3 PIAVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             cccEEEEEecCCCCHHHHHHHHHhhc
Confidence            35789999999999999999999754

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=97.38  E-value=8.9e-05  Score=58.23  Aligned_cols=26  Identities=23%  Similarity=0.222  Sum_probs=22.8

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCc
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAF   45 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~   45 (173)
                      ..++|+|++|||||||++.|.|....
T Consensus        30 e~~~liG~nGsGKSTLl~~l~Gl~~p   55 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVTALIP   55 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHHCC
T ss_pred             ceEEEECCCCCcHHHHHHHHhcCCCC
Confidence            78999999999999999999875443

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.38  E-value=7e-05  Score=49.60  Aligned_cols=26  Identities=19%  Similarity=0.207  Sum_probs=23.0

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      +...++++|++|+||||+++.+.+..
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~   60 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQA   60 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            56789999999999999999998744

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=97.38  E-value=0.0001  Score=55.00  Aligned_cols=26  Identities=19%  Similarity=0.198  Sum_probs=22.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...+..++|+|++||||||+++.|.+
T Consensus        89 ~~~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           89 PKVPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             CCCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            45567899999999999999988854

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.37  E-value=9.9e-05  Score=51.19  Aligned_cols=26  Identities=19%  Similarity=0.268  Sum_probs=22.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..++..++|+|++||||||+++.|.+
T Consensus        19 ~~~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A           19 TAGRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             CSSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             cCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            35568999999999999999999864

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=97.36  E-value=9.1e-05  Score=52.08  Aligned_cols=23  Identities=17%  Similarity=0.346  Sum_probs=20.7

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..+|+|+|++||||||+.+.|.+
T Consensus         5 ~~~i~i~G~~GsGKSTl~~~L~~   27 (227)
T 1cke_A            5 APVITIDGPSGAGKGTLCKAMAE   27 (227)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35899999999999999999865

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=97.35  E-value=0.00013  Score=50.59  Aligned_cols=22  Identities=27%  Similarity=0.388  Sum_probs=20.3

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..++|+|++||||||+.+.|.+
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999976

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=97.35  E-value=0.00015  Score=50.11  Aligned_cols=26  Identities=19%  Similarity=0.358  Sum_probs=22.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...+..|+|.|.+||||||+.+.|..
T Consensus        17 ~~~~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           17 RGSHMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             CCSCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            44557899999999999999998853

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=97.34  E-value=0.00013  Score=48.81  Aligned_cols=20  Identities=25%  Similarity=0.549  Sum_probs=18.8

Q ss_pred             cEEEEEcCCCCCHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSI   39 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l   39 (173)
                      ..|++.|++||||||+.+.|
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            47899999999999999998

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=97.34  E-value=0.00014  Score=49.46  Aligned_cols=22  Identities=41%  Similarity=0.593  Sum_probs=19.6

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...+|+|++|+||||++.+|..
T Consensus        27 g~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           27 GFTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             SEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHH
Confidence            3789999999999999999854

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=97.32  E-value=0.00015  Score=50.21  Aligned_cols=23  Identities=35%  Similarity=0.641  Sum_probs=20.5

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...|+|+|++||||||+.+.|.+
T Consensus        18 ~~~I~l~G~~GsGKSTla~~L~~   40 (202)
T 3t61_A           18 PGSIVVMGVSGSGKSSVGEAIAE   40 (202)
T ss_dssp             SSCEEEECSTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998854

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=97.31  E-value=0.00015  Score=48.95  Aligned_cols=23  Identities=22%  Similarity=0.406  Sum_probs=20.6

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +..|++.|.+||||||+.+.|..
T Consensus         3 ~~~i~l~G~~GsGKST~a~~La~   25 (178)
T 1qhx_A            3 TRMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999875

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=97.30  E-value=0.00016  Score=53.26  Aligned_cols=27  Identities=30%  Similarity=0.356  Sum_probs=23.0

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...++..|+|+|++||||||+.+.|.+
T Consensus        27 ~~~~~~ii~I~G~sGsGKSTla~~L~~   53 (290)
T 1odf_A           27 GNKCPLFIFFSGPQGSGKSFTSIQIYN   53 (290)
T ss_dssp             TCCSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             cCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            345678999999999999999988754

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=97.30  E-value=0.00011  Score=55.44  Aligned_cols=29  Identities=17%  Similarity=0.101  Sum_probs=25.2

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRA   44 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~   44 (173)
                      -.++.+++|+|++|+|||||++.|+|...
T Consensus        68 i~~Gq~~gIiG~nGaGKTTLl~~I~g~~~   96 (347)
T 2obl_A           68 CGIGQRIGIFAGSGVGKSTLLGMICNGAS   96 (347)
T ss_dssp             EETTCEEEEEECTTSSHHHHHHHHHHHSC
T ss_pred             ecCCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            35678999999999999999999998653

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=97.29  E-value=0.00016  Score=48.42  Aligned_cols=22  Identities=14%  Similarity=0.114  Sum_probs=19.5

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..|+|.|++||||||+.+.|..
T Consensus         2 ~~i~l~G~~GsGKsT~~~~L~~   23 (173)
T 3kb2_A            2 TLIILEGPDCCFKSTVAAKLSK   23 (173)
T ss_dssp             CEEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999999864

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=97.28  E-value=0.00012  Score=50.71  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=20.1

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+|+|+|++||||||+.+.|.+
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            4799999999999999999876

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=97.28  E-value=0.00017  Score=48.67  Aligned_cols=22  Identities=23%  Similarity=0.521  Sum_probs=20.1

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..|++.|++||||||+.+.|..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            5789999999999999999875

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=97.27  E-value=0.00023  Score=48.55  Aligned_cols=26  Identities=19%  Similarity=0.358  Sum_probs=22.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .....|+|+|.+||||||+.+.|...
T Consensus         8 ~~~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A            8 PKGINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            45678999999999999999998653

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=97.26  E-value=0.0002  Score=47.35  Aligned_cols=22  Identities=32%  Similarity=0.531  Sum_probs=19.3

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHh
Q 043441           19 VRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~   40 (173)
                      ....+++|++|+||||++.+|.
T Consensus        23 ~g~~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           23 EGINLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHH
Confidence            4578999999999999999874

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=97.26  E-value=0.00025  Score=48.38  Aligned_cols=28  Identities=18%  Similarity=0.215  Sum_probs=23.6

Q ss_pred             CCCCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           14 SPSNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .....+..++++|.+||||||+.+.|..
T Consensus         8 ~~~~~~~~i~l~G~~GsGKsT~~~~L~~   35 (186)
T 2yvu_A            8 KCIEKGIVVWLTGLPGSGKTTIATRLAD   35 (186)
T ss_dssp             CCCSCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             cccCCCcEEEEEcCCCCCHHHHHHHHHH
Confidence            3445678999999999999999999864

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=97.25  E-value=0.00022  Score=52.38  Aligned_cols=26  Identities=19%  Similarity=0.418  Sum_probs=22.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...+..++++|++||||||+.+.|..
T Consensus        30 ~~~~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           30 VESPTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             CSSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            34567899999999999999999864

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=97.23  E-value=0.00021  Score=48.56  Aligned_cols=22  Identities=23%  Similarity=0.622  Sum_probs=20.0

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHh
Q 043441           19 VRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~   40 (173)
                      ...|+++|++||||||+.+.|.
T Consensus         5 ~~~i~l~G~~GsGKst~a~~La   26 (185)
T 3trf_A            5 LTNIYLIGLMGAGKTSVGSQLA   26 (185)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHH
Confidence            4689999999999999999985

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=97.23  E-value=0.00022  Score=48.75  Aligned_cols=24  Identities=13%  Similarity=0.322  Sum_probs=20.8

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+..|++.|.+||||||+.+.|..
T Consensus         4 ~~~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            4 TPALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            346899999999999999999853

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=97.23  E-value=0.00021  Score=48.57  Aligned_cols=23  Identities=26%  Similarity=0.530  Sum_probs=20.5

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHh
Q 043441           18 GVRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~   40 (173)
                      .+..|+++|++||||||+.+.|.
T Consensus         3 ~g~~I~l~G~~GsGKST~~~~La   25 (186)
T 3cm0_A            3 VGQAVIFLGPPGAGKGTQASRLA   25 (186)
T ss_dssp             CEEEEEEECCTTSCHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            35689999999999999999986

>3thx_B DNA mismatch repair protein MSH3; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 3thw_B* 3thy_B* 3thz_B*

Probab=97.23  E-value=0.0016  Score=55.05  Aligned_cols=25  Identities=20%  Similarity=0.260  Sum_probs=21.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..+..++|+|++|+||||+++.+.+
T Consensus       671 ~~g~i~~ItGPNGaGKSTlLr~i~~  695 (918)
T 3thx_B          671 DSERVMIITGPNMGGKSSYIKQVAL  695 (918)
T ss_dssp             TSCCEEEEESCCCHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCchHHHHHHHHH
Confidence            4567899999999999999998753

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=97.20  E-value=0.00016  Score=50.81  Aligned_cols=25  Identities=16%  Similarity=0.250  Sum_probs=22.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .++..++++|++|+|||||++.+++
T Consensus        21 ~~G~~~~i~G~~GsGKTtl~~~l~~   45 (235)
T 2w0m_A           21 PQGFFIALTGEPGTGKTIFSLHFIA   45 (235)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCCEEEEEcCCCCCHHHHHHHHHH
Confidence            4567899999999999999999874

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=97.20  E-value=0.00011  Score=62.16  Aligned_cols=32  Identities=25%  Similarity=0.275  Sum_probs=26.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      ..+.+++|+|++|||||||++.|+|......|
T Consensus       697 ~~GeivaIiGpNGSGKSTLLklLaGll~P~sG  728 (986)
T 2iw3_A          697 SLSSRIAVIGPNGAGKSTLINVLTGELLPTSG  728 (986)
T ss_dssp             ETTCEEEECSCCCHHHHHHHHHHTTSSCCSEE
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            46678999999999999999999997654333

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=97.19  E-value=0.00026  Score=47.92  Aligned_cols=23  Identities=17%  Similarity=0.209  Sum_probs=20.8

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+.++++|++||||||++..|+.
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~   26 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVA   26 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999875

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=97.18  E-value=0.00026  Score=48.21  Aligned_cols=23  Identities=22%  Similarity=0.406  Sum_probs=20.3

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +..|++.|++||||||+.+.|..
T Consensus         3 ~~~I~i~G~~GsGKsT~~~~L~~   25 (192)
T 1kht_A            3 NKVVVVTGVPGVGSTTSSQLAMD   25 (192)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999854

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=97.16  E-value=0.00021  Score=52.51  Aligned_cols=29  Identities=17%  Similarity=0.158  Sum_probs=24.3

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      .-.++..++|+|++|+|||||++.|++..
T Consensus        31 ~l~~G~~~~i~G~~G~GKTTl~~~ia~~~   59 (296)
T 1cr0_A           31 GARGGEVIMVTSGSGMGKSTFVRQQALQW   59 (296)
T ss_dssp             SBCTTCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCCCCeEEEEEeCCCCCHHHHHHHHHHHH
Confidence            34577899999999999999999987643

>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A* 1fw6_A* 1ewr_A*

Probab=97.16  E-value=0.0047  Score=51.30  Aligned_cols=25  Identities=20%  Similarity=0.042  Sum_probs=22.4

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      +..++|+|++|+||||+++.+.+..
T Consensus       576 g~i~~I~GpNGsGKSTlLr~iagl~  600 (765)
T 1ewq_A          576 HELVLITGPNMAGKSTFLRQTALIA  600 (765)
T ss_dssp             SCEEEEESCSSSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCChHHHHHHHHhhh
Confidence            6789999999999999999987743

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=97.15  E-value=0.00016  Score=56.20  Aligned_cols=30  Identities=13%  Similarity=0.062  Sum_probs=25.8

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRA   44 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~   44 (173)
                      .-.++.+++|+|++|+|||||++.|.+...
T Consensus       153 ~i~~Gq~~~IvG~sGsGKSTLl~~Iag~~~  182 (438)
T 2dpy_A          153 TVGRGQRMGLFAGSGVGKSVLLGMMARYTR  182 (438)
T ss_dssp             CCBTTCEEEEEECTTSSHHHHHHHHHHHSC
T ss_pred             EecCCCEEEEECCCCCCHHHHHHHHhcccC
Confidence            345778999999999999999999998653

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=97.14  E-value=0.0003  Score=49.31  Aligned_cols=24  Identities=21%  Similarity=0.411  Sum_probs=21.0

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ++..|+|+|.+||||||+.+.|..
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998853

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=97.14  E-value=0.00034  Score=48.52  Aligned_cols=24  Identities=25%  Similarity=0.383  Sum_probs=21.4

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+..|+|.|.+||||||+.+.|..
T Consensus         9 ~~~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A            9 KGKFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             CSCEEEEEESTTSSHHHHHHHHHH
T ss_pred             cCCEEEEEcCCCCCHHHHHHHHHH
Confidence            467899999999999999999864

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=97.14  E-value=0.0003  Score=47.66  Aligned_cols=24  Identities=25%  Similarity=0.299  Sum_probs=21.5

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ++..++++|.+||||||+.+.|.+
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999999865

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=97.13  E-value=0.00041  Score=47.88  Aligned_cols=26  Identities=19%  Similarity=0.452  Sum_probs=22.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +.....|+|.|.+||||||+.+.|..
T Consensus        12 ~~~~~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           12 PDQVSVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             TTTCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            44567899999999999999988863

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=97.12  E-value=0.00034  Score=48.15  Aligned_cols=27  Identities=19%  Similarity=0.254  Sum_probs=22.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ......|+|+|++||||||+.+.|...
T Consensus         5 ~~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            5 AKHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             -CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             ccCceEEEEECCCCCCHHHHHHHHHHC
Confidence            344578999999999999999998754

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=97.11  E-value=0.0003  Score=53.45  Aligned_cols=20  Identities=35%  Similarity=0.401  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q 043441           21 TVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~   40 (173)
                      ..+|+|++||||||++++|+
T Consensus        25 ~~~i~G~NGaGKTTll~ai~   44 (365)
T 3qf7_A           25 ITVVEGPNGAGKSSLFEAIS   44 (365)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHH
Confidence            67799999999999999986

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=97.11  E-value=0.00032  Score=48.26  Aligned_cols=21  Identities=29%  Similarity=0.480  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhC
Q 043441           21 TVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~   41 (173)
                      .|+|.|.+||||||+.+.|..
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~   22 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISK   22 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHH
Confidence            689999999999999999865

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=97.10  E-value=0.00022  Score=51.99  Aligned_cols=21  Identities=24%  Similarity=0.506  Sum_probs=19.8

Q ss_pred             EEEEcCCCCCHHHHHHHHhCC
Q 043441           22 VVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        22 i~lvG~~g~GKStlin~l~~~   42 (173)
                      ++|+|++|+||||++++|.+.
T Consensus        47 vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            999999999999999999874

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=97.10  E-value=0.00037  Score=48.01  Aligned_cols=24  Identities=25%  Similarity=0.349  Sum_probs=21.5

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      +..|+|.|.+||||||+.+.|...
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHT
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHH
Confidence            578999999999999999999764

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=97.08  E-value=0.00031  Score=48.93  Aligned_cols=26  Identities=12%  Similarity=-0.121  Sum_probs=23.2

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      -+++..++++|++|+|||||+..+++
T Consensus        17 i~~G~~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           17 FAPGVLTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             BCTTSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            45677899999999999999999986

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=97.08  E-value=0.00033  Score=47.70  Aligned_cols=22  Identities=23%  Similarity=0.288  Sum_probs=19.6

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..|+|.|.+||||||+.+.|..
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~   23 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999854

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=97.07  E-value=0.00032  Score=49.23  Aligned_cols=24  Identities=21%  Similarity=0.239  Sum_probs=20.9

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ....|+|+|++||||||+.+.|..
T Consensus         4 ~~~~I~l~G~~GsGKsT~~~~La~   27 (222)
T 1zak_A            4 DPLKVMISGAPASGKGTQCELIKT   27 (222)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            446899999999999999999853

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=97.07  E-value=0.0004  Score=47.50  Aligned_cols=23  Identities=26%  Similarity=0.495  Sum_probs=20.6

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHh
Q 043441           18 GVRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~   40 (173)
                      ....|+|.|.+||||||+.+.|.
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~La   30 (196)
T 2c95_A            8 KTNIIFVVGGPGSGKGTQCEKIV   30 (196)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHH
Confidence            45789999999999999999885

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=97.05  E-value=0.00045  Score=46.79  Aligned_cols=23  Identities=22%  Similarity=0.502  Sum_probs=20.6

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHh
Q 043441           18 GVRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~   40 (173)
                      ....|++.|.+||||||+.+.|.
T Consensus        10 ~~~~i~i~G~~GsGKst~~~~l~   32 (180)
T 3iij_A           10 LLPNILLTGTPGVGKTTLGKELA   32 (180)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHH
T ss_pred             cCCeEEEEeCCCCCHHHHHHHHH
Confidence            45679999999999999999986

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=97.05  E-value=0.00041  Score=48.01  Aligned_cols=23  Identities=26%  Similarity=0.381  Sum_probs=20.7

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +..|++.|.+||||||+.+.|..
T Consensus         4 ~~~I~i~G~~GsGKsT~~~~L~~   26 (213)
T 2plr_A            4 GVLIAFEGIDGSGKSSQATLLKD   26 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHH
Confidence            46899999999999999999864

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=97.04  E-value=0.0065  Score=43.32  Aligned_cols=25  Identities=16%  Similarity=0.343  Sum_probs=21.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .....++|.|++|+|||++.+++..
T Consensus        37 ~~~~~vll~G~~GtGKT~la~~la~   61 (262)
T 2qz4_A           37 KVPKGALLLGPPGCGKTLLAKAVAT   61 (262)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHH
Confidence            4456799999999999999999875

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=97.02  E-value=0.00043  Score=47.20  Aligned_cols=22  Identities=27%  Similarity=0.418  Sum_probs=19.8

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHh
Q 043441           19 VRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~   40 (173)
                      +..|+|.|.+||||||+.+.|.
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~   24 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIV   24 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHH
Confidence            4689999999999999998874

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=97.02  E-value=0.00036  Score=53.24  Aligned_cols=26  Identities=23%  Similarity=0.332  Sum_probs=23.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+++..++++|++|+||||+++.|.+
T Consensus       166 i~~~~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          166 IPKKRYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             CTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHh
Confidence            45667899999999999999999986

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=97.02  E-value=0.00047  Score=47.84  Aligned_cols=24  Identities=21%  Similarity=0.292  Sum_probs=21.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+..|+|.|.+||||||+.+.|..
T Consensus         8 ~~~~I~l~G~~GsGKsT~~~~L~~   31 (215)
T 1nn5_A            8 RGALIVLEGVDRAGKSTQSRKLVE   31 (215)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999999863

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=97.00  E-value=0.0003  Score=50.44  Aligned_cols=21  Identities=33%  Similarity=0.648  Sum_probs=19.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhCC
Q 043441           22 VVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        22 i~lvG~~g~GKStlin~l~~~   42 (173)
                      ++++|++|+||||+++++.+.
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            999999999999999999864

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=97.00  E-value=0.00044  Score=48.23  Aligned_cols=20  Identities=30%  Similarity=0.677  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q 043441           21 TVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~   40 (173)
                      +|+|.|++||||||+.+.|.
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~   21 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQII   21 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            68999999999999999984

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=97.00  E-value=0.00032  Score=49.66  Aligned_cols=27  Identities=11%  Similarity=0.092  Sum_probs=23.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      -+++..++|+|++|+|||||+..+++.
T Consensus        21 i~~G~~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           21 IETGSITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             EETTSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            356778999999999999999999873

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=97.00  E-value=0.00035  Score=50.21  Aligned_cols=26  Identities=19%  Similarity=0.277  Sum_probs=22.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...+..++++|++||||||+.+.|..
T Consensus        29 ~~~~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           29 SKQPIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             CSSCEEEEEESCGGGTTHHHHHHHHH
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHH
Confidence            44567899999999999999999864

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.99  E-value=0.00045  Score=48.68  Aligned_cols=23  Identities=26%  Similarity=0.475  Sum_probs=20.2

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHh
Q 043441           18 GVRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~   40 (173)
                      ....|+|.|++||||||+.+.|.
T Consensus         6 ~~~~I~l~G~~GsGKsT~a~~La   28 (227)
T 1zd8_A            6 RLLRAVIMGAPGSGKGTVSSRIT   28 (227)
T ss_dssp             -CCEEEEEECTTSSHHHHHHHHH
T ss_pred             cCcEEEEECCCCCCHHHHHHHHH
Confidence            34789999999999999999986

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=96.98  E-value=0.00052  Score=49.05  Aligned_cols=25  Identities=20%  Similarity=0.377  Sum_probs=21.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .++.+|+|.|++||||||+.+.|..
T Consensus        27 ~~~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           27 KPDGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4568999999999999999999853

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.98  E-value=0.00034  Score=50.34  Aligned_cols=23  Identities=30%  Similarity=0.557  Sum_probs=20.8

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +..|+|+|++||||||+.+.|.+
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            67899999999999999999854

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=96.98  E-value=0.0005  Score=49.34  Aligned_cols=26  Identities=23%  Similarity=0.230  Sum_probs=21.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ......|+|.|++||||||+.+.|..
T Consensus        19 ~~~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           19 GGEPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             --CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEEECCCCCCHHHHHHHHHH
Confidence            34557899999999999999998844

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=96.97  E-value=0.0005  Score=47.46  Aligned_cols=25  Identities=20%  Similarity=0.303  Sum_probs=21.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..-..|+|.|.+||||||+.+.|..
T Consensus        10 ~~~~iIgltG~~GSGKSTva~~L~~   34 (192)
T 2grj_A           10 HHHMVIGVTGKIGTGKSTVCEILKN   34 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999998853

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=96.97  E-value=0.0026  Score=47.61  Aligned_cols=20  Identities=25%  Similarity=0.518  Sum_probs=19.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhC
Q 043441           22 VVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        22 i~lvG~~g~GKStlin~l~~   41 (173)
                      +++.|++|+||||+++.+.+
T Consensus        39 ~ll~Gp~G~GKTtl~~~la~   58 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMALLE   58 (354)
T ss_dssp             EEEECSTTSSHHHHHHTHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            99999999999999999877

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=96.96  E-value=0.00058  Score=47.72  Aligned_cols=23  Identities=30%  Similarity=0.458  Sum_probs=20.7

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +..|+|.|.+||||||+.+.|..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999864

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.95  E-value=0.0084  Score=46.56  Aligned_cols=26  Identities=19%  Similarity=0.383  Sum_probs=23.1

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..++.-++|.||+|+|||++.+++.+
T Consensus       212 ~~~prGvLL~GPPGtGKTllAkAiA~  237 (437)
T 4b4t_L          212 IKPPKGVLLYGPPGTGKTLLAKAVAA  237 (437)
T ss_dssp             CCCCCEEEEESCTTSSHHHHHHHHHH
T ss_pred             CCCCCeEEEECCCCCcHHHHHHHHHH
Confidence            35668899999999999999999976

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.95  E-value=0.00046  Score=46.54  Aligned_cols=21  Identities=33%  Similarity=0.653  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhC
Q 043441           21 TVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~   41 (173)
                      +|+|+|++||||||+.+.|..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            699999999999999998854

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=96.95  E-value=0.00053  Score=47.81  Aligned_cols=21  Identities=33%  Similarity=0.686  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhC
Q 043441           21 TVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~   41 (173)
                      +|+|.|++||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999853

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=96.95  E-value=0.00038  Score=59.01  Aligned_cols=26  Identities=27%  Similarity=0.302  Sum_probs=23.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .++.+++|+|++|||||||++.|.+.
T Consensus       459 ~~Ge~v~LiGpNGsGKSTLLk~LagG  484 (986)
T 2iw3_A          459 KRARRYGICGPNGCGKSTLMRAIANG  484 (986)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHHHT
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhCC
Confidence            46778999999999999999999853

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.95  E-value=0.00051  Score=49.44  Aligned_cols=22  Identities=23%  Similarity=0.205  Sum_probs=19.4

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..++|+|++||||||+.+.|.+
T Consensus         2 ~li~I~G~~GSGKSTla~~La~   23 (253)
T 2ze6_A            2 LLHLIYGPTCSGKTDMAIQIAQ   23 (253)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHh
Confidence            3689999999999999999864

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.95  E-value=0.00036  Score=47.23  Aligned_cols=23  Identities=22%  Similarity=0.303  Sum_probs=16.1

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHh
Q 043441           18 GVRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~   40 (173)
                      .+..|+|.|.+||||||+.+.|.
T Consensus         4 ~~~~I~l~G~~GsGKST~a~~La   26 (183)
T 2vli_A            4 RSPIIWINGPFGVGKTHTAHTLH   26 (183)
T ss_dssp             -CCEEEEECCC----CHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHH
Confidence            34689999999999999999985

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.94  E-value=0.009  Score=46.26  Aligned_cols=26  Identities=23%  Similarity=0.383  Sum_probs=22.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..+++-+++.||+|+|||++.+++.+
T Consensus       203 ~~~prGiLL~GPPGtGKT~lakAiA~  228 (428)
T 4b4t_K          203 IDPPRGVLLYGPPGTGKTMLVKAVAN  228 (428)
T ss_dssp             CCCCCEEEEESCTTTTHHHHHHHHHH
T ss_pred             CCCCceEEEECCCCCCHHHHHHHHHH
Confidence            35567899999999999999999975

>2o8b_B DNA mismatch repair protein MSH6; DNA damage response, somatic hypermutat protein-DNA complex, DNA mispair, cancer; HET: DNA ADP; 2.75A {Homo sapiens} PDB: 2o8c_B* 2o8d_B* 2o8e_B* 2o8f_B*

Probab=96.94  E-value=0.0062  Score=52.16  Aligned_cols=24  Identities=25%  Similarity=0.223  Sum_probs=21.4

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      +..++|+|++|+||||+++.+ |..
T Consensus       789 g~i~~ItGpNgsGKSTlLr~i-Gl~  812 (1022)
T 2o8b_B          789 AYCVLVTGPNMGGKSTLMRQA-GLL  812 (1022)
T ss_dssp             CCEEEEECCTTSSHHHHHHHH-HHH
T ss_pred             CcEEEEECCCCCChHHHHHHH-HHH
Confidence            678999999999999999998 643

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=96.93  E-value=0.00061  Score=47.36  Aligned_cols=21  Identities=29%  Similarity=0.493  Sum_probs=19.0

Q ss_pred             ccEEEEEcCCCCCHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSI   39 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l   39 (173)
                      ....+|+|++|+||||++.+|
T Consensus        23 ~~~~~I~G~NgsGKStil~ai   43 (203)
T 3qks_A           23 EGINLIIGQNGSGKSSLLDAI   43 (203)
T ss_dssp             SEEEEEECCTTSSHHHHHHHH
T ss_pred             CCeEEEEcCCCCCHHHHHHHH
Confidence            468899999999999999987

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=96.93  E-value=0.00063  Score=47.38  Aligned_cols=25  Identities=20%  Similarity=0.201  Sum_probs=21.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..+..++++|.+||||||+.+.|.+
T Consensus        23 ~~~~~i~~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           23 QRGLTIWLTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999999865

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=96.93  E-value=0.0004  Score=51.97  Aligned_cols=23  Identities=26%  Similarity=0.439  Sum_probs=20.8

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ..++++|++|+||||+++.+.+.
T Consensus        52 ~~~ll~Gp~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLAHIIASE   74 (334)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            56899999999999999999874

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.92  E-value=0.00071  Score=50.72  Aligned_cols=24  Identities=29%  Similarity=0.466  Sum_probs=21.4

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      ..|+|+|++|+|||||...|...-
T Consensus        41 ~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHC
Confidence            579999999999999999998654

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=96.89  E-value=0.00081  Score=49.16  Aligned_cols=25  Identities=24%  Similarity=0.486  Sum_probs=21.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHh
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~   40 (173)
                      +.....|+|.|.+||||||+.+.|.
T Consensus        72 ~~~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           72 PSGLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             CTTCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHH
Confidence            3456789999999999999999986

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.89  E-value=0.00042  Score=50.40  Aligned_cols=21  Identities=33%  Similarity=0.648  Sum_probs=19.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhCC
Q 043441           22 VVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        22 i~lvG~~g~GKStlin~l~~~   42 (173)
                      ++|+|++|+||||++++|.+.
T Consensus        76 vll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCcChHHHHHHHHHHH
Confidence            999999999999999999874

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.89  E-value=0.00064  Score=46.59  Aligned_cols=23  Identities=17%  Similarity=0.525  Sum_probs=20.4

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...|+|.|.+||||||+.+.|..
T Consensus        12 ~~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           12 CKIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998854

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=96.88  E-value=0.00023  Score=49.50  Aligned_cols=21  Identities=24%  Similarity=0.411  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhC
Q 043441           21 TVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~   41 (173)
                      .|+|.|.+||||||+++.|..
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~   22 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSG   22 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            689999999999999999865

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=96.88  E-value=0.00085  Score=45.62  Aligned_cols=23  Identities=26%  Similarity=0.455  Sum_probs=20.1

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...|+|.|.+||||||+.+.|..
T Consensus         6 ~~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            6 PNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999998853

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=96.87  E-value=0.00034  Score=57.24  Aligned_cols=24  Identities=33%  Similarity=0.353  Sum_probs=20.8

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHh
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~   40 (173)
                      +++..++|+|++|||||||++.++
T Consensus       346 ~~Ge~vaIiGpnGsGKSTLl~~i~  369 (670)
T 3ux8_A          346 PLGTFVAVTGVSGSGKSTLVNEVL  369 (670)
T ss_dssp             ETTSEEEEECSTTSSHHHHHTTTH
T ss_pred             cCCCEEEEEeeCCCCHHHHHHHHH
Confidence            466789999999999999998754

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.87  E-value=0.001  Score=46.86  Aligned_cols=25  Identities=16%  Similarity=0.442  Sum_probs=20.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...+.|+|+|++||||+|....|..
T Consensus        27 ~k~kiI~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           27 AKAKVIFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             TSCEEEEEECCTTCCHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHH
Confidence            4556788999999999999988864

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=96.86  E-value=0.00069  Score=48.87  Aligned_cols=23  Identities=22%  Similarity=0.439  Sum_probs=20.4

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...|++.|.+||||||+.+.|..
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~   26 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAK   26 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHH
Confidence            46899999999999999998864

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.86  E-value=0.00073  Score=45.07  Aligned_cols=21  Identities=24%  Similarity=0.419  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhC
Q 043441           21 TVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~   41 (173)
                      +|+|.|.+||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999853

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=96.86  E-value=0.0018  Score=47.81  Aligned_cols=66  Identities=9%  Similarity=-0.059  Sum_probs=43.1

Q ss_pred             ceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCC-CHH-HHHHHHHHHHHHcccccceEEEEEeC
Q 043441           69 QVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRF-PQE-EEAALHSWQTLFGKKVFDYMIVVFTG  146 (173)
Q Consensus        69 ~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~-~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk  146 (173)
                      ..+.+|||  .....           .....+++++|++++|+|+++.. +.. ...++..+..     ...|+++|+||
T Consensus        63 ~~~~iwD~--qer~~-----------~l~~~~~~~ad~vilV~D~~~~~~s~~~l~~~l~~~~~-----~~~piilv~NK  124 (301)
T 1u0l_A           63 GSGVIENV--LHRKN-----------LLTKPHVANVDQVILVVTVKMPETSTYIIDKFLVLAEK-----NELETVMVINK  124 (301)
T ss_dssp             SSEEEEEE--CCCSC-----------EETTTTEESCCEEEEEECSSTTCCCHHHHHHHHHHHHH-----TTCEEEEEECC
T ss_pred             CeEEEEEE--ccccc-----------eeeccccccCCEEEEEEeCCCCCCCHHHHHHHHHHHHH-----CCCCEEEEEeH
Confidence            47899999  22211           11125788999999999998554 222 2344443332     13789999999


Q ss_pred             CCCCCC
Q 043441          147 GDELED  152 (173)
Q Consensus       147 ~D~~~~  152 (173)
                      +|+...
T Consensus       125 ~DL~~~  130 (301)
T 1u0l_A          125 MDLYDE  130 (301)
T ss_dssp             GGGCCH
T ss_pred             HHcCCc
Confidence            998754

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=96.85  E-value=0.00081  Score=47.59  Aligned_cols=26  Identities=23%  Similarity=0.323  Sum_probs=21.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ......|+|+|.+||||||+.+.|..
T Consensus        13 ~~~~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           13 SPKGVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             -CCCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            44567899999999999999999853

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=96.85  E-value=0.00072  Score=48.13  Aligned_cols=24  Identities=29%  Similarity=0.476  Sum_probs=20.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHh
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~   40 (173)
                      ..+..+++.|++||||||+.+.|.
T Consensus         7 ~~~~~i~i~G~~GsGKsTla~~la   30 (233)
T 3r20_A            7 SGSLVVAVDGPAGTGKSSVSRGLA   30 (233)
T ss_dssp             --CCEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHH
Confidence            345789999999999999999986

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=96.83  E-value=0.001  Score=47.16  Aligned_cols=27  Identities=26%  Similarity=0.401  Sum_probs=23.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ...+..|++.|++||||||+++.|...
T Consensus        23 ~~~g~~i~i~G~~GsGKsT~~~~l~~~   49 (229)
T 4eaq_A           23 NAMSAFITFEGPEGSGKTTVINEVYHR   49 (229)
T ss_dssp             CCCCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cCCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            346789999999999999999998653

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=96.83  E-value=0.00062  Score=46.19  Aligned_cols=21  Identities=38%  Similarity=0.642  Sum_probs=18.8

Q ss_pred             cEEEEEcCCCCCHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~   40 (173)
                      .+|+|+|.+||||||+.+.|.
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La   23 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLA   23 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            469999999999999998884

>4aby_A DNA repair protein RECN; hydrolase, double strand break repair, ATPase, nucleotide binding domain; HET: DNA; 3.00A {Deinococcus radiodurans}

Probab=96.82  E-value=0.00019  Score=55.14  Aligned_cols=23  Identities=35%  Similarity=0.485  Sum_probs=20.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHh
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~   40 (173)
                      .++ .++|+|++|||||||+++|.
T Consensus        59 ~~G-~~~lvG~NGaGKStLl~aI~   81 (415)
T 4aby_A           59 GGG-FCAFTGETGAGKSIIVDALG   81 (415)
T ss_dssp             CSS-EEEEEESHHHHHHHHTHHHH
T ss_pred             CCC-cEEEECCCCCCHHHHHHHHH
Confidence            455 99999999999999998873

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=96.82  E-value=0.00052  Score=49.96  Aligned_cols=27  Identities=19%  Similarity=0.116  Sum_probs=23.4

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .-+++..++|+|++|+|||||+..+++
T Consensus        26 gl~~G~i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           26 NMVAGTVGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             TEETTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CccCCCEEEEEcCCCCCHHHHHHHHHH
Confidence            345778999999999999999988875

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.81  E-value=0.00084  Score=45.73  Aligned_cols=21  Identities=24%  Similarity=0.540  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhC
Q 043441           21 TVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~   41 (173)
                      .|++.|.+||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~   22 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYE   22 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999854

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.80  E-value=0.016  Score=44.78  Aligned_cols=27  Identities=19%  Similarity=0.406  Sum_probs=23.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ..++.-++|.||+|+|||++.+++.+.
T Consensus       213 i~~prGvLLyGPPGTGKTlLAkAiA~e  239 (437)
T 4b4t_I          213 IKPPKGVILYGAPGTGKTLLAKAVANQ  239 (437)
T ss_dssp             CCCCSEEEEESSTTTTHHHHHHHHHHH
T ss_pred             CCCCCCCceECCCCchHHHHHHHHHHH
Confidence            356688999999999999999999763

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=96.80  E-value=0.0008  Score=46.93  Aligned_cols=21  Identities=19%  Similarity=0.438  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhC
Q 043441           21 TVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~   41 (173)
                      +|+|.|++||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999853

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=96.80  E-value=0.00097  Score=47.28  Aligned_cols=27  Identities=19%  Similarity=0.204  Sum_probs=22.2

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...++.+|+|+|++||||||+.+.|.+
T Consensus        12 ~~~~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           12 DKMKTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             --CCCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             cccCCcEEEEECCCCCCHHHHHHHHHH
Confidence            345667999999999999999998864

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=96.79  E-value=0.00071  Score=45.32  Aligned_cols=22  Identities=23%  Similarity=0.521  Sum_probs=19.4

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..|+|.|.+||||||+.+.|..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999998853

>3qkt_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATP binding, DNA bindi MRE11, replication; HET: DNA ANP; 1.90A {Pyrococcus furiosus} PDB: 3qku_A* 1ii8_A 3qks_B* 3qkr_B* 1ii8_B

Probab=96.78  E-value=0.00086  Score=50.31  Aligned_cols=22  Identities=32%  Similarity=0.531  Sum_probs=19.2

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHh
Q 043441           19 VRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~   40 (173)
                      ....+++|++|+||||++.+|+
T Consensus        23 ~~~~~i~G~NGsGKS~lleAi~   44 (339)
T 3qkt_A           23 EGINLIIGQNGSGKSSLLDAIL   44 (339)
T ss_dssp             SEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHH
Confidence            4577899999999999999873

>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA binding, DNA repair, mismatch recognition; HET: DNA ADP; 2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A* 1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*

Probab=96.78  E-value=0.00074  Score=56.31  Aligned_cols=26  Identities=19%  Similarity=0.109  Sum_probs=23.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .++..++|+|++|+||||+++.+.+.
T Consensus       605 ~~g~i~~ItGpNGsGKSTlLr~iagl  630 (800)
T 1wb9_A          605 PQRRMLIITGPNMGGKSTYMRQTALI  630 (800)
T ss_dssp             SSSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCChHHHHHHHHHH
Confidence            56679999999999999999998774

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=96.76  E-value=0.0011  Score=44.58  Aligned_cols=25  Identities=28%  Similarity=0.436  Sum_probs=21.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ....++|.|++|+|||++++.+...
T Consensus        42 ~~~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           42 TKNNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             SSCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHH
Confidence            3467899999999999999998753

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.75  E-value=0.016  Score=44.50  Aligned_cols=26  Identities=19%  Similarity=0.363  Sum_probs=22.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..++.-+++.||+|+|||++.+++.+
T Consensus       179 i~~prGvLL~GPPGTGKTllAkAiA~  204 (405)
T 4b4t_J          179 IAQPKGVILYGPPGTGKTLLARAVAH  204 (405)
T ss_dssp             CCCCCCEEEESCSSSSHHHHHHHHHH
T ss_pred             CCCCCceEEeCCCCCCHHHHHHHHHH
Confidence            34567899999999999999999976

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=96.73  E-value=0.00038  Score=55.65  Aligned_cols=27  Identities=33%  Similarity=0.443  Sum_probs=23.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      .++..++|+|++||||||+++.|.+..
T Consensus       367 ~~G~iI~LiG~sGSGKSTLar~La~~L  393 (552)
T 3cr8_A          367 RQGFTVFFTGLSGAGKSTLARALAARL  393 (552)
T ss_dssp             GSCEEEEEEESSCHHHHHHHHHHHHHH
T ss_pred             ccceEEEEECCCCChHHHHHHHHHHhh
Confidence            466789999999999999999997643

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.73  E-value=0.001  Score=46.79  Aligned_cols=20  Identities=30%  Similarity=0.672  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q 043441           21 TVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~   40 (173)
                      .|+|.|++||||||+.+.|.
T Consensus         2 ~I~l~G~~GsGKsT~a~~La   21 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVK   21 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            68999999999999999885

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.72  E-value=0.00097  Score=46.66  Aligned_cols=22  Identities=23%  Similarity=0.483  Sum_probs=19.8

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHh
Q 043441           19 VRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~   40 (173)
                      ...|+|.|.+||||||+.+.|.
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La   26 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIK   26 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHH
Confidence            4689999999999999999984

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=96.72  E-value=0.0012  Score=46.17  Aligned_cols=22  Identities=23%  Similarity=0.448  Sum_probs=19.7

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..++|.|++|+||||++..+..
T Consensus        46 ~~~ll~G~~G~GKT~l~~~~~~   67 (250)
T 1njg_A           46 HAYLFSGTRGVGKTSIARLLAK   67 (250)
T ss_dssp             SEEEEECSTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999998865

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=96.71  E-value=0.00094  Score=47.86  Aligned_cols=24  Identities=33%  Similarity=0.610  Sum_probs=20.9

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ...+++.|++|+||||+.+++.+.
T Consensus        45 ~~~vll~G~~GtGKT~la~~la~~   68 (257)
T 1lv7_A           45 PKGVLMVGPPGTGKTLLAKAIAGE   68 (257)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEECcCCCCHHHHHHHHHHH
Confidence            456999999999999999999763

>1w1w_A Structural maintenance of chromosome 1; cohesin, chromosome segregation, cell adhesion, kleisin, MIT cell cycle; HET: ATG; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.12

Probab=96.70  E-value=0.00087  Score=51.89  Aligned_cols=24  Identities=25%  Similarity=0.289  Sum_probs=21.4

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+..++|+|++|+||||++++|.+
T Consensus        25 ~~~~~~i~G~nG~GKstll~ai~~   48 (430)
T 1w1w_A           25 ESNFTSIIGPNGSGKSNMMDAISF   48 (430)
T ss_dssp             TCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHh
Confidence            457899999999999999999865

>1e69_A Chromosome segregation SMC protein; structural maintenance of chromosomes, coiled coil; 3.1A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.69  E-value=0.00086  Score=49.93  Aligned_cols=21  Identities=38%  Similarity=0.552  Sum_probs=19.5

Q ss_pred             cEEEEEcCCCCCHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~   40 (173)
                      ...+|+|++|+||||++.+|.
T Consensus        25 g~~~i~G~NGsGKS~ll~ai~   45 (322)
T 1e69_A           25 RVTAIVGPNGSGKSNIIDAIK   45 (322)
T ss_dssp             SEEEEECCTTTCSTHHHHHHH
T ss_pred             CcEEEECCCCCcHHHHHHHHH
Confidence            389999999999999999986

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=96.67  E-value=0.0025  Score=49.22  Aligned_cols=26  Identities=38%  Similarity=0.300  Sum_probs=22.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ......|+++|.+||||||+.+.|..
T Consensus       255 ~~~~~lIil~G~pGSGKSTla~~L~~  280 (416)
T 3zvl_A          255 SPNPEVVVAVGFPGAGKSTFIQEHLV  280 (416)
T ss_dssp             CSSCCEEEEESCTTSSHHHHHHHHTG
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            45667899999999999999999875

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.67  E-value=0.0012  Score=46.02  Aligned_cols=21  Identities=29%  Similarity=0.602  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhC
Q 043441           21 TVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~   41 (173)
                      +|+++|++||||+|....|..
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999988864

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=96.65  E-value=0.012  Score=45.90  Aligned_cols=26  Identities=15%  Similarity=0.400  Sum_probs=23.1

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..++.-++|.|++|+|||++.+++.+
T Consensus       240 i~pprGILLyGPPGTGKTlLAkAiA~  265 (467)
T 4b4t_H          240 IDPPKGILLYGPPGTGKTLCARAVAN  265 (467)
T ss_dssp             CCCCSEEEECSCTTSSHHHHHHHHHH
T ss_pred             CCCCCceEeeCCCCCcHHHHHHHHHh
Confidence            35678899999999999999999976

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=96.64  E-value=0.0015  Score=45.33  Aligned_cols=26  Identities=31%  Similarity=0.351  Sum_probs=22.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      .+..++++|++|+||||+...|...-
T Consensus        33 ~g~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           33 YGLGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             TTEEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHhC
Confidence            45679999999999999999997643

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=96.64  E-value=0.00079  Score=53.52  Aligned_cols=24  Identities=21%  Similarity=0.252  Sum_probs=21.2

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSI   39 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l   39 (173)
                      -+++..++|+|++|||||||++.+
T Consensus        36 i~~Ge~~~l~G~nGsGKSTL~~~~   59 (525)
T 1tf7_A           36 LPIGRSTLVSGTSGTGKTLFSIQF   59 (525)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHH
T ss_pred             CCCCeEEEEEcCCCCCHHHHHHHH
Confidence            356788999999999999999994

>2o5v_A DNA replication and repair protein RECF; ABC ATPase, walker A motif, P-loop, signature motif, replication/recombination complex; HET: DNA; 1.61A {Deinococcus radiodurans}

Probab=96.63  E-value=0.0013  Score=49.84  Aligned_cols=21  Identities=19%  Similarity=0.200  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhC
Q 043441           21 TVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..+++|++|+||||++.+|.+
T Consensus        28 ~~~i~G~nG~GKttll~ai~~   48 (359)
T 2o5v_A           28 VTGIYGENGAGKTNLLEAAYL   48 (359)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHH
Confidence            899999999999999999864

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=96.60  E-value=0.00014  Score=51.57  Aligned_cols=25  Identities=24%  Similarity=0.291  Sum_probs=20.9

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRA   44 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~   44 (173)
                      ..++|+|++||||||++++|.+...
T Consensus        28 ~~~~i~GpnGsGKSTll~~i~g~~~   52 (227)
T 1qhl_A           28 LVTTLSGGNGAGKSTTMAAFVTALI   52 (227)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHHHHHS
T ss_pred             cEEEEECCCCCCHHHHHHHHhcccc
Confidence            3567899999999999999987543

>1a7j_A Phosphoribulokinase; transferase, calvin cycle; 2.50A {Rhodobacter sphaeroides} SCOP: c.37.1.6

Probab=96.60  E-value=0.00077  Score=49.54  Aligned_cols=24  Identities=17%  Similarity=0.264  Sum_probs=18.0

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ....|+|.|++||||||+.+.|..
T Consensus         4 ~~~iIgItG~sGSGKSTva~~L~~   27 (290)
T 1a7j_A            4 KHPIISVTGSSGAGTSTVKHTFDQ   27 (290)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999998754

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.60  E-value=0.0014  Score=43.78  Aligned_cols=23  Identities=26%  Similarity=0.488  Sum_probs=19.4

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHh
Q 043441           18 GVRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~   40 (173)
                      .-..|+|.|.+||||||+.+.|.
T Consensus         6 ~~~~i~l~G~~GsGKSTva~~La   28 (168)
T 1zuh_A            6 HMQHLVLIGFMGSGKSSLAQELG   28 (168)
T ss_dssp             --CEEEEESCTTSSHHHHHHHHH
T ss_pred             ccceEEEECCCCCCHHHHHHHHH
Confidence            34689999999999999999984

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=96.60  E-value=0.00089  Score=50.52  Aligned_cols=28  Identities=14%  Similarity=0.163  Sum_probs=24.2

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      -+++..+.|+|++|+|||||++.+++..
T Consensus       128 i~~G~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          128 IETQAITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             EESSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3567889999999999999999998754

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=96.60  E-value=0.033  Score=41.35  Aligned_cols=26  Identities=23%  Similarity=0.410  Sum_probs=22.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .+...++|.|++|+|||++.+++...
T Consensus        43 ~~~~~iLL~GppGtGKT~la~ala~~   68 (322)
T 1xwi_A           43 TPWRGILLFGPPGTGKSYLAKAVATE   68 (322)
T ss_dssp             CCCSEEEEESSSSSCHHHHHHHHHHH
T ss_pred             CCCceEEEECCCCccHHHHHHHHHHH
Confidence            45578999999999999999999763

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=96.57  E-value=0.0018  Score=45.49  Aligned_cols=24  Identities=17%  Similarity=0.331  Sum_probs=21.4

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ....++|.|++|+|||+++..+..
T Consensus        51 ~~~~~ll~G~~G~GKT~la~~l~~   74 (242)
T 3bos_A           51 GVQAIYLWGPVKSGRTHLIHAACA   74 (242)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999999865

>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain, acetylation, ADP- ribosylation, alternative splicing, cell cycle, cell division; 2.40A {Homo sapiens}

Probab=96.56  E-value=0.0022  Score=44.96  Aligned_cols=86  Identities=5%  Similarity=-0.084  Sum_probs=41.1

Q ss_pred             eEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc---ccceEEEEEeC
Q 043441           70 VVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK---VFDYMIVVFTG  146 (173)
Q Consensus        70 ~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~~iv~tk  146 (173)
                      ++.+..+||-.+. ..    ...++..++.++.+.|++|||+|.++.-..+.+..++.+...+..+   ...|++|+.||
T Consensus        97 k~~~~~~~~~~~~-GG----Q~klRplWr~Yy~~TdglIfVVDSsD~~R~eak~EL~eL~~mL~ee~~L~gapLLVlANK  171 (227)
T 3l82_B           97 KMFSRHNEGDDQQ-GS----RYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCI  171 (227)
T ss_dssp             -------------------------CCHHHHHHHCSEEEEEEECBTTCCCCHHHHHHHHHHHSCTTSSCSCSCEEEEEEE
T ss_pred             hcccccCCCcccc-Cc----HHHHHHHHHHHhcCCCEEEEEeccccHhHHHHHHHHHHHHHHhcchhhhCCCeEEEEeCC
Confidence            4566666652111 11    2345666677888999999999998653333444444444444332   23589999998


Q ss_pred             C-CCCCCCcccHHHHhc
Q 043441          147 G-DELEDNEETLEDYLG  162 (173)
Q Consensus       147 ~-D~~~~~~~~~~~~~~  162 (173)
                      . |....  .+..+..+
T Consensus       172 qqDlp~A--ms~~EI~e  186 (227)
T 3l82_B          172 SQGDVKR--MPCFYLAH  186 (227)
T ss_dssp             SSTTSCB--CCHHHHHH
T ss_pred             CcCccCC--CCHHHHHH
Confidence            5 55433  34444443

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=96.54  E-value=0.0015  Score=47.83  Aligned_cols=22  Identities=23%  Similarity=0.521  Sum_probs=20.0

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..|++.|.+||||||+.+.|..
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999999875

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.51  E-value=0.0019  Score=44.46  Aligned_cols=23  Identities=22%  Similarity=0.273  Sum_probs=20.7

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ..+++.|++|+|||+++.++...
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~   77 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANE   77 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999998753

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=96.50  E-value=0.0018  Score=49.07  Aligned_cols=23  Identities=17%  Similarity=0.317  Sum_probs=20.8

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSI   39 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l   39 (173)
                      ....+++|+|.+||||||+++.+
T Consensus        31 ~~~~killlG~~~SGKST~~kq~   53 (362)
T 1zcb_A           31 ARLVKILLLGAGESGKSTFLKQM   53 (362)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHH
T ss_pred             cCccEEEEECCCCCcHHHHHHHH
Confidence            56789999999999999999876

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=96.50  E-value=0.002  Score=48.05  Aligned_cols=22  Identities=18%  Similarity=0.391  Sum_probs=20.0

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..++|+|++||||||+...|..
T Consensus         6 ~~i~i~GptGsGKTtla~~La~   27 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALAD   27 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998865

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=96.46  E-value=0.0035  Score=45.86  Aligned_cols=63  Identities=13%  Similarity=0.093  Sum_probs=37.2

Q ss_pred             EEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           73 VIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        73 v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +-..||...      +..+++    ......+|+++.|+|+.+..+......    .+.++   ..|.++|+||+|+.+.
T Consensus         3 i~w~PGhm~------ka~~~~----~~~l~~aDvVl~VvDAr~p~~~~~~~l----~~~l~---~kp~ilVlNK~DL~~~   65 (282)
T 1puj_A            3 IQWFPGHMA------KARREV----TEKLKLIDIVYELVDARIPMSSRNPMI----EDILK---NKPRIMLLNKADKADA   65 (282)
T ss_dssp             ------CTT------HHHHHH----HHHGGGCSEEEEEEETTSTTTTSCHHH----HHHCS---SSCEEEEEECGGGSCH
T ss_pred             CcCCchHHH------HHHHHH----HHHHhhCCEEEEEEeCCCCCccCCHHH----HHHHC---CCCEEEEEECcccCCH
Confidence            345677653      223333    345566799999999986665543222    22223   2789999999999864

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=96.46  E-value=0.0016  Score=43.77  Aligned_cols=25  Identities=20%  Similarity=0.332  Sum_probs=21.2

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ....++|.|++|+|||+++..+...
T Consensus        42 ~~~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           42 TKNNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             SSCEEEEESCGGGCHHHHHHHHHHH
T ss_pred             CCCceEEECCCCCCHHHHHHHHHHH
Confidence            3567899999999999999988653

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=96.45  E-value=0.0017  Score=45.88  Aligned_cols=25  Identities=24%  Similarity=0.380  Sum_probs=20.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHh
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~   40 (173)
                      -.++..++++|++|+|||||...++
T Consensus        20 l~~G~~~~i~G~~GsGKTtl~~~~~   44 (247)
T 2dr3_A           20 IPERNVVLLSGGPGTGKTIFSQQFL   44 (247)
T ss_dssp             EETTCEEEEEECTTSSHHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHH
Confidence            4567789999999999999976654

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=96.44  E-value=0.0024  Score=47.29  Aligned_cols=23  Identities=22%  Similarity=0.403  Sum_probs=20.4

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +..++|+|++||||||+...|..
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~   32 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRK   32 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CcEEEEECCCccCHHHHHHHHHH
Confidence            46789999999999999999864

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=96.43  E-value=0.0013  Score=53.75  Aligned_cols=20  Identities=35%  Similarity=0.513  Sum_probs=18.4

Q ss_pred             CCccEEEEEcCCCCCHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATG   36 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStli   36 (173)
                      +++..++|+|++|||||||+
T Consensus        42 ~~Ge~~~liGpNGaGKSTLl   61 (670)
T 3ux8_A           42 PRGKLVVLTGLSGSGKSSLA   61 (670)
T ss_dssp             ETTSEEEEECSTTSSHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHh
Confidence            57789999999999999996

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=96.42  E-value=0.0022  Score=47.58  Aligned_cols=24  Identities=33%  Similarity=0.408  Sum_probs=20.8

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .+.++|+|++|+||||+...|...
T Consensus         3 ~~~i~i~GptgsGKt~la~~La~~   26 (322)
T 3exa_A            3 EKLVAIVGPTAVGKTKTSVMLAKR   26 (322)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHT
T ss_pred             CcEEEEECCCcCCHHHHHHHHHHh
Confidence            357899999999999999998753

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=96.42  E-value=0.066  Score=39.45  Aligned_cols=22  Identities=14%  Similarity=0.356  Sum_probs=17.9

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..+++.|++|+|||+++.++..
T Consensus        49 ~~~L~~G~~G~GKT~la~~la~   70 (324)
T 3u61_B           49 HIILHSPSPGTGKTTVAKALCH   70 (324)
T ss_dssp             SEEEECSSTTSSHHHHHHHHHH
T ss_pred             eEEEeeCcCCCCHHHHHHHHHH
Confidence            4466667799999999999864

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=96.38  E-value=0.0025  Score=46.89  Aligned_cols=26  Identities=27%  Similarity=0.463  Sum_probs=22.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .+...++|.|++|+|||++.+++.+.
T Consensus        47 ~~~~~vLL~Gp~GtGKT~la~ala~~   72 (301)
T 3cf0_A           47 TPSKGVLFYGPPGCGKTLLAKAIANE   72 (301)
T ss_dssp             CCCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CCCceEEEECCCCcCHHHHHHHHHHH
Confidence            45578999999999999999999763

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=96.37  E-value=0.0026  Score=46.46  Aligned_cols=24  Identities=21%  Similarity=0.466  Sum_probs=21.7

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +...+++.|++|+|||++.+++.+
T Consensus        53 ~~~~vll~Gp~GtGKT~la~~la~   76 (297)
T 3b9p_A           53 PAKGLLLFGPPGNGKTLLARAVAT   76 (297)
T ss_dssp             CCSEEEEESSSSSCHHHHHHHHHH
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHH
Confidence            457899999999999999999976

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=96.34  E-value=0.0025  Score=43.91  Aligned_cols=21  Identities=24%  Similarity=0.408  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhC
Q 043441           21 TVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~   41 (173)
                      .|+|.|++||||||+.+.|..
T Consensus         4 ~i~i~G~~GsGKst~~~~la~   24 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAA   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999999854

>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P; hydrolase, type IV secretion, conjugation; 2.35A {Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A

Probab=96.33  E-value=0.0021  Score=49.07  Aligned_cols=25  Identities=28%  Similarity=0.348  Sum_probs=21.7

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ....++++|++|+||||+++.++..
T Consensus        34 ~~~~~~i~G~~G~GKs~~~~~~~~~   58 (392)
T 4ag6_A           34 TNSNWTILAKPGAGKSFTAKMLLLR   58 (392)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             ccCceEEEcCCCCCHHHHHHHHHHH
Confidence            4567999999999999999998753

>3auy_A DNA double-strand break repair RAD50 ATPase; DNA repair, ABC transporter ATPase domain-like; HET: DNA ADP; 2.70A {Methanocaldococcus jannaschii} PDB: 3aux_A* 3av0_B*

Probab=96.33  E-value=0.0023  Score=48.54  Aligned_cols=22  Identities=27%  Similarity=0.511  Sum_probs=19.5

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHh
Q 043441           19 VRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~   40 (173)
                      ....+++|++|+|||+++.+|.
T Consensus        25 ~gl~vi~G~NGaGKT~ileAI~   46 (371)
T 3auy_A           25 KGIVAIIGENGSGKSSIFEAVF   46 (371)
T ss_dssp             SEEEEEEECTTSSHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHH
Confidence            3788999999999999998863

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=96.31  E-value=0.0025  Score=47.83  Aligned_cols=22  Identities=27%  Similarity=0.374  Sum_probs=19.8

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..|+|+|++||||||+...|..
T Consensus         8 ~lI~I~GptgSGKTtla~~La~   29 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAK   29 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHH
Confidence            5799999999999999998864

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=96.28  E-value=0.0019  Score=46.58  Aligned_cols=28  Identities=18%  Similarity=0.235  Sum_probs=22.2

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      +..+...|+|.|..||||||+.+.|...
T Consensus        20 ~~~~~~~I~ieG~~GsGKST~~~~L~~~   47 (263)
T 1p5z_B           20 EGTRIKKISIEGNIAAGKSTFVNILKQL   47 (263)
T ss_dssp             ---CCEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             cccCceEEEEECCCCCCHHHHHHHHHHh
Confidence            3456789999999999999999998653

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=96.27  E-value=0.0026  Score=48.78  Aligned_cols=23  Identities=30%  Similarity=0.447  Sum_probs=20.1

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+.|+|+|++|+||||+...|..
T Consensus         2 ~~~i~i~GptgsGKttla~~La~   24 (409)
T 3eph_A            2 KKVIVIAGTTGVGKSQLSIQLAQ   24 (409)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHH
T ss_pred             CcEEEEECcchhhHHHHHHHHHH
Confidence            35789999999999999998864

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.26  E-value=0.0039  Score=45.69  Aligned_cols=25  Identities=24%  Similarity=0.534  Sum_probs=21.5

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      +...+++.|++|+|||++.+.+.+.
T Consensus        46 ~~~~~ll~G~~GtGKt~la~~la~~   70 (311)
T 4fcw_A           46 PIGSFLFLGPTGVGKTELAKTLAAT   70 (311)
T ss_dssp             CSEEEEEESCSSSSHHHHHHHHHHH
T ss_pred             CceEEEEECCCCcCHHHHHHHHHHH
Confidence            3457999999999999999998763

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=96.25  E-value=0.0033  Score=45.59  Aligned_cols=25  Identities=16%  Similarity=0.399  Sum_probs=21.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .....++|.|++|+|||++++++.+
T Consensus        49 ~~~~~~ll~G~~GtGKT~la~~la~   73 (285)
T 3h4m_A           49 EPPKGILLYGPPGTGKTLLAKAVAT   73 (285)
T ss_dssp             CCCSEEEEESSSSSSHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHH
Confidence            3456799999999999999999965

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=96.25  E-value=0.025  Score=43.07  Aligned_cols=24  Identities=25%  Similarity=0.530  Sum_probs=21.4

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +...++|.|++|+|||++..++..
T Consensus       147 ~~~~vLL~GppGtGKT~la~aia~  170 (389)
T 3vfd_A          147 PARGLLLFGPPGNGKTMLAKAVAA  170 (389)
T ss_dssp             CCSEEEEESSTTSCHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            457899999999999999999864

>3lv8_A DTMP kinase, thymidylate kinase; structural genomics, in diseases, center for structural genomics of infectious DISE ATP-binding; HET: ADP TMP TYD; 1.80A {Vibrio cholerae o1 biovar eltor} PDB: 3n2i_A*

Probab=96.24  E-value=0.0032  Score=44.82  Aligned_cols=31  Identities=23%  Similarity=0.315  Sum_probs=21.6

Q ss_pred             ccCCCCCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           11 ELTSPSNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        11 ~~~~~~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+......+..|++.|.+||||||+++.|..
T Consensus        19 ~~~~~~~~~~~i~~eG~~GsGKsT~~~~l~~   49 (236)
T 3lv8_A           19 YFQSNAMNAKFIVIEGLEGAGKSTAIQVVVE   49 (236)
T ss_dssp             -------CCCEEEEEESTTSCHHHHHHHHHH
T ss_pred             ccccCCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4444455678999999999999999999753

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=96.24  E-value=0.0033  Score=41.02  Aligned_cols=25  Identities=16%  Similarity=0.163  Sum_probs=21.5

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ....+++.|++|+|||++..++...
T Consensus        23 ~~~~vll~G~~GtGKt~lA~~i~~~   47 (145)
T 3n70_A           23 TDIAVWLYGAPGTGRMTGARYLHQF   47 (145)
T ss_dssp             CCSCEEEESSTTSSHHHHHHHHHHS
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHh
Confidence            4466999999999999999998653

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=96.23  E-value=0.0037  Score=44.15  Aligned_cols=29  Identities=21%  Similarity=0.399  Sum_probs=22.3

Q ss_pred             CCCCCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           13 TSPSNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +.....+..|++.|..||||||+++.|..
T Consensus        15 ~~~~~~~~~i~~~G~~g~GKst~~~~l~~   43 (223)
T 3ld9_A           15 QTQGPGSMFITFEGIDGSGKTTQSHLLAE   43 (223)
T ss_dssp             ----CCCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cccCCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            44456678999999999999999998754

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=96.21  E-value=0.0041  Score=45.61  Aligned_cols=25  Identities=20%  Similarity=0.181  Sum_probs=21.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..+..+++.|++|+|||++.+++..
T Consensus        34 ~~p~~lLl~GppGtGKT~la~aiA~   58 (293)
T 3t15_A           34 KVPLILGIWGGKGQGKSFQCELVFR   58 (293)
T ss_dssp             CCCSEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4456788889999999999999875

>3v9p_A DTMP kinase, thymidylate kinase; ssgcid, STRU genomics, seattle structural genomics center for infectious transferase; 1.90A {Burkholderia thailandensis}

Probab=96.20  E-value=0.0029  Score=44.83  Aligned_cols=25  Identities=20%  Similarity=0.252  Sum_probs=19.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..+..|++.|+.||||||+++.|..
T Consensus        23 ~~g~~I~~eG~~GsGKsT~~~~l~~   47 (227)
T 3v9p_A           23 ARGKFITFEGIDGAGKTTHLQWFCD   47 (227)
T ss_dssp             CCCCEEEEECCC---CHHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4678999999999999999998854

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=96.20  E-value=0.004  Score=45.66  Aligned_cols=25  Identities=24%  Similarity=0.474  Sum_probs=21.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .....++|.|++|+|||++.+.+..
T Consensus        65 ~~~~~vll~G~~GtGKT~la~~la~   89 (309)
T 3syl_A           65 TPTLHMSFTGNPGTGKTTVALKMAG   89 (309)
T ss_dssp             CCCCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHH
Confidence            4556799999999999999987754

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=96.18  E-value=0.0025  Score=50.88  Aligned_cols=25  Identities=24%  Similarity=0.326  Sum_probs=22.1

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ++..++++|++|+||||++++|.+.
T Consensus       107 ~g~~vll~Gp~GtGKTtlar~ia~~  131 (543)
T 3m6a_A          107 KGPILCLAGPPGVGKTSLAKSIAKS  131 (543)
T ss_dssp             CSCEEEEESSSSSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHh
Confidence            5678999999999999999998763

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=96.11  E-value=0.013  Score=48.63  Aligned_cols=25  Identities=28%  Similarity=0.449  Sum_probs=21.7

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ....++|+|++|+|||+++..+...
T Consensus       206 ~~~~vlL~G~~GtGKT~la~~la~~  230 (758)
T 1r6b_X          206 RKNNPLLVGESGVGKTAIAEGLAWR  230 (758)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCeEEEcCCCCCHHHHHHHHHHH
Confidence            4567899999999999999998763

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=96.10  E-value=0.0029  Score=50.31  Aligned_cols=28  Identities=18%  Similarity=0.185  Sum_probs=23.9

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      -.++..++|+|++|+|||||++.+++..
T Consensus       278 i~~G~i~~i~G~~GsGKSTLl~~l~g~~  305 (525)
T 1tf7_A          278 FFKDSIILATGATGTGKTLLVSRFVENA  305 (525)
T ss_dssp             EESSCEEEEEECTTSSHHHHHHHHHHHH
T ss_pred             CCCCcEEEEEeCCCCCHHHHHHHHHHHH
Confidence            3466789999999999999999998743

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=96.09  E-value=0.011  Score=49.62  Aligned_cols=25  Identities=28%  Similarity=0.418  Sum_probs=21.2

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      ...++|+|++|+|||+++..+.+..
T Consensus       191 ~~~vlL~G~pG~GKT~la~~la~~l  215 (854)
T 1qvr_A          191 KNNPVLIGEPGVGKTAIVEGLAQRI  215 (854)
T ss_dssp             CCCCEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCceEEEcCCCCCHHHHHHHHHHHH
Confidence            3468999999999999999987643

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=96.08  E-value=0.0041  Score=44.13  Aligned_cols=23  Identities=22%  Similarity=0.196  Sum_probs=20.5

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +..|++.|..||||||+++.|..
T Consensus         2 ~~~i~~~G~~g~GKtt~~~~l~~   24 (241)
T 2ocp_A            2 PRRLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHH
Confidence            46799999999999999999864

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=96.08  E-value=0.0034  Score=48.25  Aligned_cols=25  Identities=16%  Similarity=0.162  Sum_probs=21.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHh
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~   40 (173)
                      -.++..+.|+|++|+|||||+..|+
T Consensus       175 I~~Gei~~I~G~sGsGKTTLl~~la  199 (400)
T 3lda_A          175 VETGSITELFGEFRTGKSQLCHTLA  199 (400)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHHH
T ss_pred             cCCCcEEEEEcCCCCChHHHHHHHH
Confidence            3567789999999999999999654

>2ius_A DNA translocase FTSK; nucleotide-binding, chromosome partition, ATP-binding, DNA- binding, cell division, transmembrane, inner membrane; HET: DNA; 2.7A {Escherichia coli} PDB: 2j5p_A*

Probab=96.05  E-value=0.0035  Score=49.66  Aligned_cols=24  Identities=25%  Similarity=0.410  Sum_probs=20.9

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ....++++|.+|||||++++.|+.
T Consensus       166 ~~pHlLIaG~TGSGKSt~L~~li~  189 (512)
T 2ius_A          166 KMPHLLVAGTTGSGASVGVNAMIL  189 (512)
T ss_dssp             GSCSEEEECCTTSSHHHHHHHHHH
T ss_pred             cCceEEEECCCCCCHHHHHHHHHH
Confidence            356799999999999999999864

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=96.04  E-value=0.039  Score=46.07  Aligned_cols=27  Identities=19%  Similarity=0.406  Sum_probs=23.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ..++.-|+|.|++|+|||++.+++.+.
T Consensus       235 ~~~p~GILL~GPPGTGKT~LAraiA~e  261 (806)
T 3cf2_A          235 VKPPRGILLYGPPGTGKTLIARAVANE  261 (806)
T ss_dssp             CCCCCEEEEECCTTSCHHHHHHHHHTT
T ss_pred             CCCCCeEEEECCCCCCHHHHHHHHHHH
Confidence            456688999999999999999999864

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	173
d1h65a_	257	c.37.1.8 (A:) Chloroplast protein translocon GTPas	3e-25
d1tq4a_	400	c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (	3e-11
d1lnza2	185	c.37.1.8 (A:158-342) Obg GTP-binding protein middl	1e-06
d1udxa2	180	c.37.1.8 (A:157-336) Obg GTP-binding protein middl	2e-05
d2cxxa1	184	c.37.1.8 (A:2-185) GTP-binding protein engB {Pyroc	2e-04
d1t9ha2	231	c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C	5e-04
d1puja_	273	c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subti	6e-04
d1puia_	188	c.37.1.8 (A:) Probable GTPase EngB {Escherichia co	0.003
d1xzpa2	160	c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotog	0.003
d1mkya2	186	c.37.1.8 (A:173-358) Probable GTPase Der, N-termin	0.003

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]} Length = 257

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

 Score = 95.6 bits (237), Expect = 3e-25
 Identities = 36/151 (23%), Positives = 64/151 (42%), Gaps = 3/151 (1%)

Query: 21  TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF 80
           T++ +G+ G GKS+T NSI+G R        S       + R+    G  +N+IDTPGL 
Sbjct: 34  TILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSR--AGFTLNIIDTPGLI 91

Query: 81  DFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYM 140
           +    ++   + I+K   L K     + V      R    ++    +    FGK +++  
Sbjct: 92  EGGYINDMA-LNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKA 150

Query: 141 IVVFTGGDELEDNEETLEDYLGRECPKPLKV 171
           IV  T       +    +++  +     L+V
Sbjct: 151 IVALTHAQFSPPDGLPYDEFFSKRSEALLQV 181

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]} Length = 400

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 58.2 bits (140), Expect = 3e-11
 Identities = 27/146 (18%), Positives = 49/146 (33%), Gaps = 14/146 (9%)

Query: 11  ELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTC-EMQRTVLKDGQ 69
            L    + V  V   G TG+GKS+  N++ G    +  A+ +GV     E       +  
Sbjct: 48  ALKEIDSSVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIP 107

Query: 70  VVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQ 129
            V   D PG+   +   +           L K   +       + +   ++ +  +    
Sbjct: 108 NVVFWDLPGIGSTNFPPDTY---------LEKMKFYEYDFFIIISATRFKKNDIDIAKAI 158

Query: 130 TLFGKKVFDYMIVVFTGGDELEDNEE 155
           ++  K+       V T  D    NE 
Sbjct: 159 SMMKKEF----YFVRTKVDSDITNEA 180

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]} Length = 185

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

 Score = 44.2 bits (103), Expect = 1e-06
 Identities = 23/147 (15%), Positives = 53/147 (36%), Gaps = 3/147 (2%)

Query: 21  TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF 80
            V  VG    GKS   + +   +     A     T    +      DG+   + D PGL 
Sbjct: 3   DVGLVGFPSVGKSTLLSVVSSAKP--KIADYHFTTLVPNLGMVETDDGRSFVMADLPGLI 60

Query: 81  DFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYM 140
           + +     +G + ++ I      I  V+    +  R P ++   ++   + +  ++ +  
Sbjct: 61  EGAHQGVGLGHQFLRHIERT-RVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERP 119

Query: 141 IVVFTGGDELEDNEETLEDYLGRECPK 167
            ++     ++ +  E LE +  +    
Sbjct: 120 QIIVANKMDMPEAAENLEAFKEKLTDD 146

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]} Length = 180

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

 Score = 40.8 bits (94), Expect = 2e-05
 Identities = 15/120 (12%), Positives = 40/120 (33%), Gaps = 2/120 (1%)

Query: 22  VVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 81
           V  VG    GKS+   ++         A     T +  +    + + +   + D PG+ +
Sbjct: 4   VGLVGYPNAGKSSLLAAMTRAHP--KIAPYPFTTLSPNLGVVEVSEEERFTLADIPGIIE 61

Query: 82  FSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMI 141
            ++  + +G+E ++ I   +  ++ +              +        L  +     + 
Sbjct: 62  GASEGKGLGLEFLRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALN 121

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]} Length = 184

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

 Score = 37.8 bits (86), Expect = 2e-04
 Identities = 20/145 (13%), Positives = 49/145 (33%), Gaps = 7/145 (4%)

Query: 21  TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVT-----STCEMQRTVLKDGQVVNVID 75
           T++F GR+  GKS     + G++  + +    GVT        +  + +   G    +  
Sbjct: 2   TIIFAGRSNVGKSTLIYRLTGKKVRRGKR--PGVTRKIIEIEWKNHKIIDMPGFGFMMGL 59

Query: 76  TPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK 135
              + +         +E           +        +  R+ +  E  +      F ++
Sbjct: 60  PKEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRE 119

Query: 136 VFDYMIVVFTGGDELEDNEETLEDY 160
           +    IV     D++++ +E +   
Sbjct: 120 LDIPTIVAVNKLDKIKNVQEVINFL 144

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]} Length = 231

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

 Score = 37.0 bits (85), Expect = 5e-04
 Identities = 21/77 (27%), Positives = 30/77 (38%), Gaps = 7/77 (9%)

Query: 7   DDDWELTSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFK----SRASSSGVTSTCEMQR 62
            D      P    +T VF G++G GKS+  N+I      +    S     G  +T  ++ 
Sbjct: 85  QDSLADIIPHFQDKTTVFAGQSGVGKSSLLNAISPELGLRTNEISEHLGRGKHTTRHVEL 144

Query: 63  TVLKDGQVVNVIDTPGL 79
                G    V DTPG 
Sbjct: 145 IHTSGGL---VADTPGF 158

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]} Length = 273

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

 Score = 36.7 bits (84), Expect = 6e-04
 Identities = 16/83 (19%), Positives = 30/83 (36%), Gaps = 5/83 (6%)

Query: 14  SPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNV 73
                    + +G    GKS   N +  +   K+     G        +  +K G+ + +
Sbjct: 107 GVKPRAIRALIIGIPNVGKSTLINRLAKKNIAKT-----GDRPGITTSQQWVKVGKELEL 161

Query: 74  IDTPGLFDFSAGSEFVGMEIVKC 96
           +DTPG+       E VG+ +   
Sbjct: 162 LDTPGILWPKFEDELVGLRLAVT 184

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]} Length = 188

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

 Score = 34.8 bits (78), Expect = 0.003
 Identities = 17/147 (11%), Positives = 47/147 (31%), Gaps = 2/147 (1%)

Query: 15  PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVI 74
           PS+    V F GR+  GKS+  N++  +++     +S     T  +    + DG+ +  +
Sbjct: 12  PSDTGIEVAFAGRSNAGKSSALNTLTNQKSL--ARTSKTPGRTQLINLFEVADGKRLVDL 69

Query: 75  DTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK 134
              G  +     +      +      +  +  ++V   +R      ++  +         
Sbjct: 70  PGYGYAEVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVDSNIA 129

Query: 135 KVFDYMIVVFTGGDELEDNEETLEDYL 161
            +              +     + + +
Sbjct: 130 VLVLLTKADKLASGARKAQLNMVREAV 156

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]} Length = 160

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

 Score = 34.2 bits (77), Expect = 0.003
 Identities = 22/120 (18%), Positives = 46/120 (38%), Gaps = 3/120 (2%)

Query: 22  VVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 81
           +V VG+   GKS   N +L     ++  +    T+   +   ++  G +  ++DT G+  
Sbjct: 3   MVIVGKPNVGKSTLLNRLLNED--RAIVTDIPGTTRDVISEEIVIRGILFRIVDTAGVRS 60

Query: 82  FSAGS-EFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYM 140
            +    E +G+E         D +  VL   S      ++    + + + L      D +
Sbjct: 61  ETNDLVERLGIERTLQEIEKADIVLFVLDASSPLDEEDRKILERIKNKRYLVVINKVDVV 120

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

 Score = 34.3 bits (77), Expect = 0.003
 Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 3/63 (4%)

Query: 16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVID 75
          ++ ++ V  VGR   GKS   N+IL +   ++  S    T+   +   V  DG+    +D
Sbjct: 6  TDAIK-VAIVGRPNVGKSTLFNAILNKE--RALVSPIPGTTRDPVDDEVFIDGRKYVFVD 62

Query: 76 TPG 78
          T G
Sbjct: 63 TAG 65

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	173
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.92
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.86
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.77
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.76
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.76
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.74
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.73
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.71
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.71
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.71
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.7
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.7
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.69
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.69
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.69
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.69
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.69
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.67
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.67
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.66
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.66
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.66
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.66
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.66
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.66
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.65
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.65
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.65
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.65
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.65
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.65
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.65
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.64
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.64
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.64
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.64
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.63
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.63
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.63
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.63
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.63
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.63
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.62
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.62
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.61
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.61
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.61
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.6
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.59
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.59
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.59
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.59
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.59
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.59
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.59
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.58
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.58
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.58
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.56
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.56
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.55
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.55
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.54
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.54
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.53
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.53
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	99.52
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.52
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	99.5
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.5
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.49
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.46
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.46
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.42
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.42
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.42
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.39
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.38
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.37
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.35
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	99.34
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.24
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.24
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.22
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	99.17
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	99.14
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	99.11
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	99.08
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.08
d1vmaa2	213	GTPase domain of the signal recognition particle r	99.04
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	99.04
d1okkd2	207	GTPase domain of the signal recognition particle r	99.03
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.99
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.97
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.91
d2awna2	232	Maltose transport protein MalK, N-terminal domain	98.89
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	98.86
d1g2912	240	Maltose transport protein MalK, N-terminal domain	98.86
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	98.85
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	98.83
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	98.81
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	98.79
d1ls1a2	207	GTPase domain of the signal sequence recognition p	98.79
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	98.79
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	98.79
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	98.78
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	98.78
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	98.77
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	98.76
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	98.67
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	98.66
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	98.65
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	98.58
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	98.55
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	98.55
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	98.42
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.3
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	98.29
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	98.16
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	98.11
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.89
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.88
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.79
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.76
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.74
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	97.68
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.67
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.66
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.65
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.64
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.63
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.62
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.62
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	97.62
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.61
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	97.61
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.59
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.58
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.55
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.54
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.54
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.53
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.49
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.47
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.46
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.46
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.43
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.42
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.42
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.41
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.4
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.38
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.37
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.36
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.34
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.34
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.33
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	97.33
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.33
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.3
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.29
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.28
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.28
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.26
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	97.22
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	97.18
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	97.16
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	97.12
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	97.07
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	97.03
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.98
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.9
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.9
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.85
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	96.85
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	96.81
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	96.81
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.79
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.78
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	96.77
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.77
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	96.77
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	96.76
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	96.76
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	96.74
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	96.71
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.7
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	96.7
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.64
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	96.56
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	96.54
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	96.49
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	96.48
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	96.47
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	96.46
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.46
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.46
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.44
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	96.4
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.33
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	96.3
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.29
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.29
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	96.26
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	96.22
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.21
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	96.17
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	96.15
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.15
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	96.14
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	96.13
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	96.13
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.08
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.96
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	95.92
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.87
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.82
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.8
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	95.74
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.71
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	95.66
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	95.45
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	95.39
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	95.36
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	95.29
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.27
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	95.26
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.23
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	95.2
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.18
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.04
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	95.04
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	94.8
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	94.77
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	94.67
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	94.66
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	94.56
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	94.44
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	94.4
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	94.29
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	94.17
d1tuea_	205	Replication protein E1 helicase domain {Human papi	94.14
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	94.06
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	93.82
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	93.72
d1xpua3	289	Transcription termination factor Rho, ATPase domai	93.49
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	93.43
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	93.27
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	92.9
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	92.28
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	92.13
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	92.11
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	91.66
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	91.66
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	91.49
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	90.73
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	90.59
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	90.47
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	90.23
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	90.1
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	88.06
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	87.93
d2bmfa2	305	Dengue virus helicase {Dengue virus type 2 [TaxId:	87.46
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	86.98
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	86.96
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	86.91
d1gkub1	237	Helicase-like "domain" of reverse gyrase {Archaeon	86.03
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	85.93
d1r0ka2	150	1-deoxy-D-xylulose-5-phosphate reductoisomerase {Z	85.26
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	85.23
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	84.51
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	84.43
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	84.11
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	83.66
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	82.53
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	81.88
d2fz4a1	206	DNA repair protein RAD25 {Archaeoglobus fulgidus [	81.72
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	81.22
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	80.5
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	80.01

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=99.92  E-value=3.7e-24  Score=154.38  Aligned_cols=143  Identities=22%  Similarity=0.282  Sum_probs=114.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+|+|+|.+|+||||++|+|+|...+.... ..+.|..+..+.... .+..+.++||||+.+.....+.....+...
T Consensus        30 ~~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs~-~~~~T~~~~~~~~~~-~g~~i~viDTPGl~~~~~~~~~~~~~i~~~  107 (257)
T d1h65a_          30 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISP-FQSEGPRPVMVSRSR-AGFTLNIIDTPGLIEGGYINDMALNIIKSF  107 (257)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCS-SSCCCSSCEEEEEEE-TTEEEEEEECCCSEETTEECHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhCCCceeecC-CCCcceeEEEEEEEe-ccEEEEEEeeecccCCcchHHHHHHHHHHH
Confidence            456899999999999999999999998876553 345666666666666 888999999999998765555544444443


Q ss_pred             HHhccCCceEEEEEeecCC-CCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHHHhcc
Q 043441           97 IGLAKDGIHAVLVGFSVRS-RFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGR  163 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~  163 (173)
                      .  ....+|+++||++... +++..+...++.+.+.|+...+.++++|+||+|.+.+++..+++|+..
T Consensus       108 ~--~~~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~fg~~~~~~~ivv~t~~D~~~~~~~~~e~~~~~  173 (257)
T d1h65a_         108 L--LDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPYDEFFSK  173 (257)
T ss_dssp             T--TTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGGCCHHHHHHH
T ss_pred             H--hcCCCCeEEEEEECCCCCCCHHHHHHHHHHHHHcchhhhhCEEEEEECcccCCcCCCcHHHHHHh
Confidence            3  2346788888888743 689999999999999999998899999999999998777778777654

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.86  E-value=1.1e-20  Score=128.99  Aligned_cols=127  Identities=20%  Similarity=0.155  Sum_probs=92.0

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ..+|+|+|.+|+|||||+|+|++....... ...+.|.......... .+..+.++||||+.......   ...+...+.
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~~~~~~~-~~~~tt~~~~~~~~~~-~~~~~~~~DtpG~~~~~~~~---~~~~~~~~~   79 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGVKVAPIS-PRPQTTRKRLRGILTE-GRRQIVFVDTPGLHKPMDAL---GEFMDQEVY   79 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTSCCSCCC-SSSCCCCSCEEEEEEE-TTEEEEEEECCCCCCCCSHH---HHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCceeec-ccCCcccccccceeee-eeeeeeeccccccccccccc---chhcccccc
Confidence            357999999999999999999997643322 2233444444444444 77899999999998654322   333444445


Q ss_pred             hccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .....+|++++|+|+++.+...+..+++.+++...   ..|+++|+||+|+....
T Consensus        80 ~~~~~ad~il~v~D~~~~~~~~~~~i~~~l~~~~~---~~piilv~NK~Dl~~~~  131 (178)
T d1wf3a1          80 EALADVNAVVWVVDLRHPPTPEDELVARALKPLVG---KVPILLVGNKLDAAKYP  131 (178)
T ss_dssp             HHTSSCSEEEEEEETTSCCCHHHHHHHHHHGGGTT---TSCEEEEEECGGGCSSH
T ss_pred             cccccccceeeeechhhhhcccccchhhheecccc---chhhhhhhcccccccCH
Confidence            56778999999999987888877777777765432   27899999999998753

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=99.77  E-value=4e-18  Score=113.96  Aligned_cols=127  Identities=22%  Similarity=0.177  Sum_probs=86.5

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      +.+|+++|++|+|||||+|+|++.+...... .++.+.......... .+..+.++||||+.+......   ........
T Consensus         1 ~~kI~lvG~~nvGKSsLin~l~~~~~~~~~~-~~~~~~~~~~~~~~~-~~~~~~~~d~~g~~~~~~~~~---~~~~~~~~   75 (161)
T d2gj8a1           1 GMKVVIAGRPNAGKSSLLNALAGREAAIVTD-IAGTTRDVLREHIHI-DGMPLHIIDTAGLREASDEVE---RIGIERAW   75 (161)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTSCCSCCCS-STTCCCSCEEEEEEE-TTEEEEEEECCCCSCCSSHHH---HHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCceEeec-ccccccceEeeeeec-cCceeeeccccccccccccch---hHHHHHHH
Confidence            3689999999999999999999877533222 223343333444455 778999999999987543222   22223333


Q ss_pred             hccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .++..+++++++++..+............+.......  .|+++|+||+|+...
T Consensus        76 ~~~~~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~--~~iilv~NK~Dl~~~  127 (161)
T d2gj8a1          76 QEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAK--LPITVVRNKADITGE  127 (161)
T ss_dssp             HHHHTCSEEEEEEETTTCCCCSHHHHCHHHHHHSCTT--CCEEEEEECHHHHCC
T ss_pred             HHHHhccccceeeccccccchhhhhhhhhhhhhcccc--cceeeccchhhhhhh
Confidence            4566889999999998666655555544444443333  799999999997654

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.76  E-value=4.7e-18  Score=115.94  Aligned_cols=121  Identities=20%  Similarity=0.171  Sum_probs=80.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHH----HHHHHHHH
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEF----VGMEIVKC   96 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~----~~~~~~~~   96 (173)
                      .|+++|++|+|||||+|+|++.... .. ..++.|...  ....   ...+.++||||+.........    ....+...
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~-~~-~~~g~T~~~--~~~~---~~~~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~   74 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVR-RG-KRPGVTRKI--IEIE---WKNHKIIDMPGFGFMMGLPKEVQERIKDEIVHF   74 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCS-SS-SSTTCTTSC--EEEE---ETTEEEEECCCBSCCTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCce-ee-CCCCEeecc--cccc---cccceecccCCceeccccccccccccchhhhhh
Confidence            5899999999999999999997642 11 233344443  2232   345679999998765544433    33444455


Q ss_pred             HHhccCCceEEEEEeecCC-----------CCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRS-----------RFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~-----------~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      +....+.+|++++++|+..           .....+...++.+.+.     ..|+++|+||+|++...
T Consensus        75 ~~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~~-----~~p~iiv~NK~D~~~~~  137 (184)
T d2cxxa1          75 IEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLREL-----DIPTIVAVNKLDKIKNV  137 (184)
T ss_dssp             HHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHT-----TCCEEEEEECGGGCSCH
T ss_pred             hhhcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHHc-----CCCEEEEEeeeehhhhH
Confidence            5556677899999999852           2333444555555443     27899999999998653

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.76  E-value=1.1e-18  Score=118.98  Aligned_cols=126  Identities=14%  Similarity=0.097  Sum_probs=79.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      .|+++|.+|+|||||+|+|++.......  ..+.+............+..+.++||||+.......+....++.    ..
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~~~~~--~~~~t~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~l----~~   76 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHPKIAP--YPFTTLSPNLGVVEVSEEERFTLADIPGIIEGASEGKGLGLEFL----RH   76 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECC--CTTCSSCCEEEEEECSSSCEEEEEECCCCCCCGGGSCCSCHHHH----HH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceec--cCCCceeeeeceeeecCCCeEEEcCCCeeecCchHHHHHHHHHH----HH
Confidence            4899999999999999999987753222  23344444443344435678999999998764332222222222    33


Q ss_pred             cCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          101 KDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...+++++++++.............+++..........|+++|+||+|+...
T Consensus        77 ~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~D~~~~  128 (180)
T d1udxa2          77 IARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEE  128 (180)
T ss_dssp             HTSSSEEEEEEETTSCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCH
T ss_pred             HHhhhhhhhhcccccccccchhhhhhhhhccccccchhhhhhhhhhhhhhhH
Confidence            4567899999998634333333333333332222234789999999999876

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=99.74  E-value=3.5e-17  Score=112.72  Aligned_cols=128  Identities=18%  Similarity=0.222  Sum_probs=83.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHH--HHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFV--GMEI   93 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~--~~~~   93 (173)
                      ..+.++|+|+|.+|||||||+|+|+|.............|.....  ..  ....+.++|++|...........  ...+
T Consensus        20 ~~~~~~I~lvG~~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~~~--~~--~~~~~~~~d~~~~~~~~~~~~~~~~~~~~   95 (195)
T d1svia_          20 EGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNF--YI--INDELHFVDVPGYGFAKVSKSEREAWGRM   95 (195)
T ss_dssp             CSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEE--EE--ETTTEEEEECCCBCCCSSCHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHhcCCCceEEeecccceeeeccc--cc--ccccceEEEEEeeccccccccccchhhhH
Confidence            444568999999999999999999986532222222222322222  22  34566789998887654443322  2233


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..........++++++++|+...+...+...++.+++.     ..|+++|+||+|++..
T Consensus        96 ~~~~~~~~~~~~~vi~viD~~~~~~~~~~~~~~~l~~~-----~~piivv~NK~D~~~~  149 (195)
T d1svia_          96 IETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYY-----GIPVIVIATKADKIPK  149 (195)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHT-----TCCEEEEEECGGGSCG
T ss_pred             Hhhhhccccchhhhhhhhhccccccccccccccccccc-----cCcceechhhccccCH
Confidence            33444566778999999999878888888888887764     2689999999999865

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=99.73  E-value=4.4e-17  Score=109.28  Aligned_cols=115  Identities=11%  Similarity=0.081  Sum_probs=80.5

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ..+|+++|.+|+|||||+++|.+...     ....+|.......... ++..+.+|||||..           .+.....
T Consensus         2 ~~ki~ivG~~~~GKTsLi~~l~~~~~-----~~~~~t~~~~~~~~~~-~~~~~~~~D~~G~~-----------~~~~~~~   64 (165)
T d1ksha_           2 ELRLLMLGLDNAGKTTILKKFNGEDV-----DTISPTLGFNIKTLEH-RGFKLNIWDVGGQK-----------SLRSYWR   64 (165)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTCCC-----SSCCCCSSEEEEEEEE-TTEEEEEEEECCSH-----------HHHTTGG
T ss_pred             cEEEEEECCCCCCHHHHHHHHcCCCC-----CcccceEeeeeeeccc-cccceeeeecCcch-----------hhhhHHH
Confidence            46899999999999999999988653     1223444445555666 78899999999943           3444555


Q ss_pred             hccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~  152 (173)
                      .++..+++++++++.++..+..+  ..+.+.+....  ....|+++|.||+|+...
T Consensus        65 ~~~~~~~~~i~v~d~~d~~~~~~--~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~  118 (165)
T d1ksha_          65 NYFESTDGLIWVVDSADRQRMQD--CQRELQSLLVEERLAGATLLIFANKQDLPGA  118 (165)
T ss_dssp             GGCTTCSEEEEEEETTCGGGHHH--HHHHHHHHHTCGGGTTCEEEEEEECTTSTTC
T ss_pred             hhhhhhhcceeeeecccchhHHH--HHHhhhhhhhhcccCCCceEEEEeccccccc
Confidence            68889999999999985434332  22333333221  123699999999998754

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=99.71  E-value=9.8e-17  Score=108.25  Aligned_cols=123  Identities=20%  Similarity=0.211  Sum_probs=80.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      +|+++|.+|+|||||+|+|+|....... ...+.|.......... ....+.++||||+........  .......+...
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~~~-~~~~~t~~~~~~~~~~-~~~~~~~~d~~g~~~~~~~~~--~~~~~~~~~~~   77 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAIVE-DEEGVTRDPVQDTVEW-YGKTFKLVDTCGVFDNPQDII--SQKMKEVTLNM   77 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC---------------CCSEEEEEE-TTEEEEEEECTTTTSSGGGCC--CHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcceec-ccCceeeccccccccc-cccccccccccceeeeecccc--ccccccccccc
Confidence            5899999999999999999986642222 1223343333444444 677899999999876432221  12222233344


Q ss_pred             cCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          101 KDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...+|+++++.+.+......+..+++.++..     ..|+++|+||+|++..
T Consensus        78 ~~~ad~i~~~~~~~~~~~~~~~~~~~~l~~~-----~~pviiv~NK~Dl~~~  124 (171)
T d1mkya1          78 IREADLVLFVVDGKRGITKEDESLADFLRKS-----TVDTILVANKAENLRE  124 (171)
T ss_dssp             HTTCSEEEEEEETTTCCCHHHHHHHHHHHHH-----TCCEEEEEESCCSHHH
T ss_pred             cccCcEEEEeecccccccccccccccccccc-----cccccccchhhhhhhh
Confidence            5678999999999878888877777776653     2689999999998754

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.71  E-value=4.1e-17  Score=109.99  Aligned_cols=120  Identities=10%  Similarity=0.043  Sum_probs=74.9

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      -.+|+++|.+|+|||||++++++...........+.+..  ....... ....+.+|||||...           +....
T Consensus         5 ~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~l~~wDt~G~e~-----------~~~~~   71 (169)
T d3raba_           5 MFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFK--VKTIYRNDKRIKLQIWDTAGQER-----------YRTIT   71 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEE--EEEEEETTEEEEEEEEEECCSGG-----------GHHHH
T ss_pred             EEEEEEECCCCcCHHHHHHHHHcCCCCccccccccccee--eEEEEeecceEEEEEEECCCchh-----------hHHHH
Confidence            368999999999999999999876532222222222222  2222220 224688999999543           23334


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ..+++.+|++|+|+|.++.-+... ..+.+.+.....  ...+++++.||+|.....
T Consensus        72 ~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~--~~~~iivv~nK~D~~~~~  126 (169)
T d3raba_          72 TAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSW--DNAQVLLVGNKCDMEDER  126 (169)
T ss_dssp             HTTTTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCC--SCCEEEEEEECTTCGGGC
T ss_pred             HHHHhcCCEEEEEEECccchhhhhhhhhhhhhhcccC--CcceEEEEEeeccccccc
Confidence            457889999999999984322221 233333333322  236889999999987654

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=99.71  E-value=3.2e-17  Score=112.02  Aligned_cols=135  Identities=19%  Similarity=0.148  Sum_probs=82.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHH-HHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFV-GMEIVKC   96 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~-~~~~~~~   96 (173)
                      ...+|+++|.+|+|||||+|+|++........ ....+.......... ++..+.++||||+.......... .......
T Consensus         7 ~~~kV~iiG~~~~GKSTLin~l~~~~~~~~~~-~~~t~~~~~~~~~~~-~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~   84 (186)
T d1mkya2           7 DAIKVAIVGRPNVGKSTLFNAILNKERALVSP-IPGTTRDPVDDEVFI-DGRKYVFVDTAGLRRKSRVEPRTVEKYSNYR   84 (186)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTSTTEEECC-CC------CCEEEEE-TTEEEEESSCSCC-----------CCSCCHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCcceeec-ccccccccceeeecc-CCceeeeeccCCccccccccccccccchhHH
Confidence            45899999999999999999999876533222 222333333344445 78899999999986432111110 0000111


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHH
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLED  159 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~  159 (173)
                      +......+|++++++++..........++..+...     ..|+++|+||+|+........++
T Consensus        85 ~~~~~~~~dvii~v~d~~~~~~~~~~~~~~~~~~~-----~~~~i~v~nK~D~~~~~~~~~~~  142 (186)
T d1mkya2          85 VVDSIEKADVVVIVLDATQGITRQDQRMAGLMERR-----GRASVVVFNKWDLVVHREKRYDE  142 (186)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHHT-----TCEEEEEEECGGGSTTGGGCHHH
T ss_pred             HHHHHhcCCEEEEeecccccchhhHHHHHHHHHHc-----CCceeeeccchhhhcchhhhhhh
Confidence            11233456999999999867777776666665543     27899999999998665333333

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=99.70  E-value=1.7e-16  Score=107.36  Aligned_cols=122  Identities=14%  Similarity=0.094  Sum_probs=81.2

Q ss_pred             CCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHH
Q 043441           13 TSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGME   92 (173)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~   92 (173)
                      .+.+....+|+++|.+|+|||||+|+|.+.......     .+.......... .+..+.++|++|...           
T Consensus        10 ~~~~~~~~kI~vvG~~~vGKSsLi~~l~~~~~~~~~-----~~~~~~~~~i~~-~~~~~~i~d~~g~~~-----------   72 (176)
T d1fzqa_          10 KSAPDQEVRILLLGLDNAGKTTLLKQLASEDISHIT-----PTQGFNIKSVQS-QGFKLNVWDIGGQRK-----------   72 (176)
T ss_dssp             SSCCSSCEEEEEEESTTSSHHHHHHHHCCSCCEEEE-----EETTEEEEEEEE-TTEEEEEEECSSCGG-----------
T ss_pred             hCCCCCEEEEEEECCCCCCHHHHHHHHhcCCCCcce-----eeeeeeEEEecc-CCeeEeEeecccccc-----------
Confidence            345667799999999999999999999886632111     122223334455 678999999999653           


Q ss_pred             HHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCCCC
Q 043441           93 IVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        93 ~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~~  153 (173)
                      +......++..+|++++|+|+++..+..+  ...++.+....  ....|+++|.||+|+....
T Consensus        73 ~~~~~~~~~~~~~~ii~v~d~~d~~s~~~--~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~~  133 (176)
T d1fzqa_          73 IRPYWRSYFENTDILIYVIDSADRKRFEE--TGQELTELLEEEKLSCVPVLIFANKQDLLTAA  133 (176)
T ss_dssp             GHHHHHHHHTTCSEEEEEEETTCGGGHHH--HHHHHHHHTTCGGGTTCCEEEEEECTTSTTCC
T ss_pred             chhHHHHHhhccceeEEeeccccccchhh--hhhhhhhhhhhhccCCCeEEEEEEeccccccc
Confidence            23333456778899999999985443332  22223332222  1236999999999998753

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.70  E-value=5.4e-17  Score=109.32  Aligned_cols=117  Identities=18%  Similarity=0.057  Sum_probs=68.9

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      .+|+++|.+|+|||||++.+.+... ... .+........  .... ++  ..+.+|||||....           ....
T Consensus         2 fKi~lvG~~~vGKTsLi~~~~~~~~-~~~-~~~~~~~~~~--~i~~-~~~~~~l~i~D~~g~e~~-----------~~~~   65 (168)
T d2gjsa1           2 YKVLLLGAPGVGKSALARIFGGVED-GPE-AEAAGHTYDR--SIVV-DGEEASLMVYDIWEQDGG-----------RWLP   65 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC-----------CEEEEE--EEEE-TTEEEEEEEEECC------------------CH
T ss_pred             eEEEEECCCCcCHHHHHHHHhCCcc-CCc-CCeeeeeecc--eeec-cccccceeeeeccccccc-----------ceec
Confidence            5799999999999999999988653 222 1111222111  2222 33  47889999996542           2233


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ..+++.+|++++|+|++++-+.+. ..++..+...... ...|+++|.||+|+.+..
T Consensus        66 ~~~~~~~d~~ilv~d~t~~~s~~~~~~~~~~i~~~~~~-~~~piilvgnK~Dl~~~~  121 (168)
T d2gjsa1          66 GHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQT-DDVPIILVGNKSDLVRSR  121 (168)
T ss_dssp             HHHHTSCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCGGGC
T ss_pred             ccchhhhhhhceeccccccccccccccccchhhccccc-ccceEEEeecccchhhhc
Confidence            456788999999999984433332 3444444444222 235899999999987654

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.69  E-value=7.5e-17  Score=108.16  Aligned_cols=119  Identities=20%  Similarity=0.103  Sum_probs=76.1

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC-ccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSS-GVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      .+|+++|.+|+|||||++.+++... .....+. +.+.......... ....+.+|||+|.........           
T Consensus         3 iKv~liG~~~vGKSsLi~rl~~~~~-~~~~~~ti~~~~~~~~~~~~~-~~~~~~i~d~~g~~~~~~~~~-----------   69 (164)
T d1z2aa1           3 IKMVVVGNGAVGKSSMIQRYCKGIF-TKDYKKTIGVDFLERQIQVND-EDVRLMLWDTAGQEEFDAITK-----------   69 (164)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCCC-CCCSSCCCSSSEEEEEEEETT-EEEEEEEECCTTGGGTTCCCH-----------
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCC-CcccccccccccceeeeeecC-ceeeeeeeccCCccchhhhhh-----------
Confidence            5899999999999999999986552 2222221 2222221211111 224789999999776543322           


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCc
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNE  154 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~  154 (173)
                      .+++.++++++|+|.++.-+.+. ..+++.+.+..+.   .|+++|.||+|+.+.+.
T Consensus        70 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~---~~iilVgnK~Dl~~~~~  123 (164)
T d1z2aa1          70 AYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVGD---IPTALVQNKIDLLDDSC  123 (164)
T ss_dssp             HHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCS---CCEEEEEECGGGGGGCS
T ss_pred             hhhccCceEEEEEeccchhhhhhcccccccccccCCC---ceEEEeeccCCccccee
Confidence            34668899999999984433322 3455555554332   78999999999876543

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.69  E-value=5.7e-17  Score=123.06  Aligned_cols=119  Identities=19%  Similarity=0.124  Sum_probs=81.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCc---cceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSG---VTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~---~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      +.+.+|+++|.+|+|||||+|+|+|......+....+   .|.....  +..+...++++|||||+.......+....+ 
T Consensus        54 ~~~l~Iai~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~~--~~~~~~~~~~l~DtPG~~~~~~~~~~~~~~-  130 (400)
T d1tq4a_          54 SSVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHP--YKHPNIPNVVFWDLPGIGSTNFPPDTYLEK-  130 (400)
T ss_dssp             HCCEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEE--EECSSCTTEEEEECCCGGGSSCCHHHHHHH-
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeeee--eeccCCCeEEEEeCCCcccccccHHHHHHH-
Confidence            3468999999999999999999999765544433322   2333222  333356679999999998765444432221 


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDEL  150 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~  150 (173)
                           .....+|.++++.+  .+++..+...++.+.+.     ..|+++|+||+|+.
T Consensus       131 -----~~~~~~d~~l~~~~--~~~~~~d~~l~~~l~~~-----~k~~~~V~nK~D~~  175 (400)
T d1tq4a_         131 -----MKFYEYDFFIIISA--TRFKKNDIDIAKAISMM-----KKEFYFVRTKVDSD  175 (400)
T ss_dssp             -----TTGGGCSEEEEEES--SCCCHHHHHHHHHHHHT-----TCEEEEEECCHHHH
T ss_pred             -----hhhhcceEEEEecC--CCCCHHHHHHHHHHHHc-----CCCEEEEEeCcccc
Confidence                 23445677776654  37888888888877764     27899999999975

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.69  E-value=7.6e-17  Score=108.83  Aligned_cols=119  Identities=12%  Similarity=0.094  Sum_probs=77.2

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ..+|+++|.+|+|||||++.+++.... .... ...+.......... .+  ..+.+|||||..           ++...
T Consensus         5 ~~Ki~lvG~~~vGKTsLi~~l~~~~f~-~~~~-~~~~~~~~~~~~~~-~~~~~~l~i~Dt~G~e-----------~~~~~   70 (171)
T d2ew1a1           5 LFKIVLIGNAGVGKTCLVRRFTQGLFP-PGQG-ATIGVDFMIKTVEI-NGEKVKLQIWDTAGQE-----------RFRSI   70 (171)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCC-TTCC-CCCSEEEEEEEEEE-TTEEEEEEEEEECCSG-----------GGHHH
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCC-Cccc-ccccceEEEEEEEE-CCEEEEEEEEECCCch-----------hhHHH
Confidence            368999999999999999999976532 2221 22222223233333 33  357899999943           23344


Q ss_pred             HHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ...++++++++++|++.++..+.. ...+...+.+....  ..|+++|.||+|.....
T Consensus        71 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~~~ilvgnK~D~~~~~  126 (171)
T d2ew1a1          71 TQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASN--KVITVLVGNKIDLAERR  126 (171)
T ss_dssp             HGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCT--TCEEEEEEECGGGGGGC
T ss_pred             HHHHHhccceEEEeeecccchhhhhhhhhhhhhcccccc--cccEEEEEeeccccccc
Confidence            456789999999999998443322 23444444444332  37899999999987654

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.69  E-value=2.9e-16  Score=108.08  Aligned_cols=127  Identities=15%  Similarity=0.113  Sum_probs=80.5

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC-ccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSS-GVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~-~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      -..+|+|+|..|+|||||++.+++... .....+. +.+...  ..+... ....+.+|||||.......+         
T Consensus         5 ~~~KivvvG~~~vGKTsli~~l~~~~~-~~~~~~t~~~~~~~--~~i~~~~~~~~l~i~Dt~G~e~~~~~~---------   72 (194)
T d2bcgy1           5 YLFKLLLIGNSGVGKSCLLLRFSDDTY-TNDYISTIGVDFKI--KTVELDGKTVKLQIWDTAGQERFRTIT---------   72 (194)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHCCC-CTTCCCSSCCCEEE--EEEEETTEEEEEEEECCTTTTTTTCCC---------
T ss_pred             EEEEEEEECCCCcCHHHHHHHHhhCCC-CCCcCCccceeEEE--EEEEEeeEEEEEEEEECCCchhhHHHH---------
Confidence            347899999999999999999987653 2332222 222222  222221 23478899999977643322         


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHHH
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDY  160 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~  160 (173)
                        ..+++.+|++|+|+|.++..+... ..+...+.+...  ...|+++|.||+|+.+......++.
T Consensus        73 --~~~~~~a~~~i~v~d~t~~~s~~~~~~~~~~~~~~~~--~~~~iilv~nK~D~~~~~~~~~~~~  134 (194)
T d2bcgy1          73 --SSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYAT--STVLKLLVGNKCDLKDKRVVEYDVA  134 (194)
T ss_dssp             --GGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--TTCEEEEEEECTTCTTTCCSCHHHH
T ss_pred             --HHHhccCCEEEEEEeCcchhhhhhHhhhhhhhhhccc--CCceEEEEEeccccccccchhHHHH
Confidence              256789999999999984333222 233333443332  2369999999999987654444443

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=99.69  E-value=9.3e-17  Score=113.27  Aligned_cols=116  Identities=17%  Similarity=0.155  Sum_probs=79.7

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEE------------------EEEEeeCCceEEEEeCCCCC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM------------------QRTVLKDGQVVNVIDTPGLF   80 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~------------------~~~~~~~~~~~~v~DtpG~~   80 (173)
                      .++|+++|.+++|||||+|+|++........  ...+.....                  ....+ .+..+.++||||+.
T Consensus         5 ~p~IaIiGh~d~GKSTL~~~L~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~iDtPGh~   81 (227)
T d1g7sa4           5 SPIVSVLGHVDHGKTTLLDHIRGSAVASREA--GGITQHIGATEIPMDVIEGICGDFLKKFSIRE-TLPGLFFIDTPGHE   81 (227)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHHHHSCC------CCCBTTEEEEEHHHHHHHSCGGGGGCGGGG-TCCEEEEECCCTTS
T ss_pred             CCEEEEEeCCCccHHHHHHHHHhhcchheec--Cceeeeccccccccccccccccccccceeecc-ccccccccccccee
Confidence            3569999999999999999998743211110  011110000                  01122 45579999999987


Q ss_pred             CCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           81 DFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      +......           .....+|++|+|+|+.+.+.......++.+.+.     ..|+++++||+|+....
T Consensus        82 ~f~~~~~-----------~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~-----~~p~iivlNK~D~~~~~  138 (227)
T d1g7sa4          82 AFTTLRK-----------RGGALADLAILIVDINEGFKPQTQEALNILRMY-----RTPFVVAANKIDRIHGW  138 (227)
T ss_dssp             CCTTSBC-----------SSSBSCSEEEEEEETTTCCCHHHHHHHHHHHHT-----TCCEEEEEECGGGSTTC
T ss_pred             cccccch-----------hcccccceEEEEEecccCcccchhHHHHHhhcC-----CCeEEEEEECccCCCch
Confidence            6433222           345678999999999988999888887777764     27899999999998654

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=99.67  E-value=5.6e-16  Score=103.80  Aligned_cols=126  Identities=13%  Similarity=0.037  Sum_probs=81.0

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ..+|+++|++|+|||||++.+.+... ....   ..|.......... ++..+.+||+||..           .+.....
T Consensus         2 e~ki~i~G~~~~GKTsLl~~l~~~~~-~~~~---~~T~~~~~~~~~~-~~~~~~i~D~~G~~-----------~~~~~~~   65 (164)
T d1zd9a1           2 EMELTLVGLQYSGKTTFVNVIASGQF-NEDM---IPTVGFNMRKITK-GNVTIKLWDIGGQP-----------RFRSMWE   65 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCC-CCSC---CCCCSEEEEEEEE-TTEEEEEEEECCSH-----------HHHTTHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCCC-CCcc---cccceeeeeeeee-eeEEEEEeeccccc-----------ccccccc
Confidence            36899999999999999999987653 2222   2344445555566 77899999999943           2233333


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHHHhcc
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGR  163 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~  163 (173)
                      .++..++++++|+++.+..+-.. ..++..+.+... ....|+++|.||.|+....  ..++..+.
T Consensus        66 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~~pi~lv~nK~Dl~~~~--~~~~i~~~  128 (164)
T d1zd9a1          66 RYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQ-LQGIPVLVLGNKRDLPGAL--DEKELIEK  128 (164)
T ss_dssp             HHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGG-GTTCCEEEEEECTTSTTCC--CHHHHHHH
T ss_pred             ccccccchhhcccccccccccchhhhhhhhhhhhhc-ccCCcEEEEEeccccchhh--hHHHHHHH
Confidence            56778999999999984433222 223222222211 1236999999999987652  44444333

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.67  E-value=7e-16  Score=103.58  Aligned_cols=125  Identities=18%  Similarity=0.160  Sum_probs=79.7

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      ...+|+++|.+|+|||||++++++.. |.....+........  .... ++  ..+.++||+|.........        
T Consensus         3 k~~Kv~liG~~~vGKTsLl~~~~~~~-f~~~~~~t~~~~~~~--~~~~-~~~~~~l~i~d~~g~~~~~~~~~--------   70 (167)
T d1xtqa1           3 KSRKIAILGYRSVGKSSLTIQFVEGQ-FVDSYDPTIENTFTK--LITV-NGQEYHLQLVDTAGQDEYSIFPQ--------   70 (167)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSC-CCSCCCSSCCEEEEE--EEEE-TTEEEEEEEEECCCCCTTCCCCG--------
T ss_pred             cceEEEEECCCCcCHHHHHHHHHhCC-CCcccCcceecccce--EEec-CcEEEEeeecccccccccccccc--------
Confidence            34789999999999999999998655 322222211111111  2222 33  3678899999886543322        


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHH
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLE  158 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~  158 (173)
                         .++..++++++|+|.++.-+... ..+++.+.+..+. ...|+++|.||+|+...+..+.+
T Consensus        71 ---~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~-~~~piilvgnK~Dl~~~r~v~~~  130 (167)
T d1xtqa1          71 ---TYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGK-VQIPIMLVGNKKDLHMERVISYE  130 (167)
T ss_dssp             ---GGTSSCCEEEEEEETTCHHHHHHHHHHHHHHHHHHCS-SCCCEEEEEECTTCGGGCCSCHH
T ss_pred             ---hhhhhhhhhhhhcccchhhhhhhhhhhhhhhhhcccc-cccceeeeccccccccccchhHH
Confidence               46778999999999984433322 3455555555443 23689999999998765433443

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=2.9e-16  Score=106.15  Aligned_cols=122  Identities=21%  Similarity=0.200  Sum_probs=77.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      +.+..+|+++|.+|+|||||++.+++.. |.....+.......  ..+.. ++  ..+.+|||+|.........      
T Consensus         3 ~~~~~Kv~lvG~~~vGKTsLi~r~~~~~-f~~~~~~t~~~~~~--~~~~~-~~~~~~l~~~d~~g~~~~~~~~~------   72 (173)
T d2fn4a1           3 PSETHKLVVVGGGGVGKSALTIQFIQSY-FVSDYDPTIEDSYT--KICSV-DGIPARLDILDTAGQEEFGAMRE------   72 (173)
T ss_dssp             SSCEEEEEEEECTTSSHHHHHHHHHHSS-CCSSCCTTCCEEEE--EEEEE-TTEEEEEEEEECCCTTTTSCCHH------
T ss_pred             CCCeEEEEEECCCCcCHHHHHHHHHhCC-CCccccccccccee--eEecc-CCeeeeeeccccccccccccccc------
Confidence            3455799999999999999999998765 33333322222222  22333 43  3678899999887543332      


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                           .++..++++++|+|.++..+... ..+++.+.+.... ...|+++|.||+|+....
T Consensus        73 -----~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~~~p~ilvgnK~Dl~~~~  127 (173)
T d2fn4a1          73 -----QYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDR-DDFPVVLVGNKADLESQR  127 (173)
T ss_dssp             -----HHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTS-SCCCEEEEEECGGGGGGC
T ss_pred             -----hhhccceeeeeecccccccccchhhhhhHHHHHHhcc-CCCceEEEEEeechhhcc
Confidence                 23445799999999984433322 3444444443322 236999999999987543

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=2.1e-16  Score=106.57  Aligned_cols=119  Identities=21%  Similarity=0.159  Sum_probs=74.1

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEE-EEEEeeCCc--eEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM-QRTVLKDGQ--VVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~--~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      ..+|+++|.+|+|||||++++++... .....+   |..... ..... ++.  .+.+|||+|....           ..
T Consensus         2 ~~Ki~viG~~~vGKTsLi~r~~~~~f-~~~~~~---T~~~~~~~~~~~-~~~~~~l~~~d~~g~~~~-----------~~   65 (171)
T d2erxa1           2 DYRVAVFGAGGVGKSSLVLRFVKGTF-RESYIP---TVEDTYRQVISC-DKSICTLQITDTTGSHQF-----------PA   65 (171)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCC-CSSCCC---CSCEEEEEEEEE-TTEEEEEEEEECCSCSSC-----------HH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCC-CCccCc---ceeeccccceee-ccccceeccccccccccc-----------cc
Confidence            36899999999999999999998663 222222   222111 11222 443  6788999997753           11


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ....++..++++++|+|+++.-+... ..++..+.+..+.....|+++|.||+|+...+
T Consensus        66 ~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~  124 (171)
T d2erxa1          66 MQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSR  124 (171)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGC
T ss_pred             cccccccceeEEEEEeecccccchhcccchhhhhhhhhccCCCCcEEEEeecccccccc
Confidence            11234556799999999984322222 45555555544433446899999999987654

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=5.7e-16  Score=104.07  Aligned_cols=124  Identities=10%  Similarity=0.078  Sum_probs=75.9

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ..+|+++|.+|+|||||++++++... .....+.. ............ ....+.+|||+|....           ....
T Consensus         3 ~fKivlvG~~~vGKTsLi~r~~~~~f-~~~~~~t~-~~~~~~~~~~~~~~~~~~~~~d~~g~~~~-----------~~~~   69 (167)
T d1z08a1           3 SFKVVLLGEGCVGKTSLVLRYCENKF-NDKHITTL-GASFLTKKLNIGGKRVNLAIWDTAGQERF-----------HALG   69 (167)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHHCCC-CSSCCCCC-SCEEEEEEEESSSCEEEEEEEECCCC------------------
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCC-Cccccccc-ccchheeeeccCCccceeeeeccCCccee-----------cccc
Confidence            36899999999999999999987653 23222211 111222222220 2357889999997642           2223


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccH
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETL  157 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~  157 (173)
                      ..++..+|++++|+|.+++-+-+. ..+++.+......  ..++++|.||+|+...+..+.
T Consensus        70 ~~~~~~~~~~i~v~d~~~~~Sf~~~~~~~~~~~~~~~~--~~~~ilvgnK~Dl~~~~~v~~  128 (167)
T d1z08a1          70 PIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGN--EICLCIVGNKIDLEKERHVSI  128 (167)
T ss_dssp             CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGG--GSEEEEEEECGGGGGGCCSCH
T ss_pred             hhhccCCceeEEEEeCCchhHHHhhhhhhhhccccccc--ccceeeeccccccccccccch
Confidence            457889999999999984433322 3444444444333  378899999999876543333

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=4.2e-16  Score=105.52  Aligned_cols=119  Identities=17%  Similarity=0.142  Sum_probs=75.9

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      -.+|+++|.+|+|||||++++++...........  +.......... ++  ..+.++||||.........         
T Consensus         4 ~~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~--~~~~~~~~~~~-~~~~~~~~i~d~~g~e~~~~~~~---------   71 (175)
T d2f9la1           4 LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTI--GVEFATRSIQV-DGKTIKAQIWDTAGQERYRRITS---------   71 (175)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSCCCC---CCC--SCEEEEEEEEE-TTEEEEEEEEECSSGGGTTCCCH---------
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCcccccc--cceeeeEEEEE-CCEEEEEEecccCCcHHHHHHHH---------
Confidence            3689999999999999999998765322222222  22222222333 33  4788999999654332222         


Q ss_pred             HHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                        ..+..++++++|++.++.-+.. ...+++.+.+.....  .|+++|.||+|+.+..
T Consensus        72 --~~~~~~~~~i~v~d~~~~~S~~~~~~~~~~i~~~~~~~--~piilvgnK~Dl~~~~  125 (175)
T d2f9la1          72 --AYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSN--IVIMLVGNKSDLRHLR  125 (175)
T ss_dssp             --HHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECTTCGGGC
T ss_pred             --HHhhccCeEEEEEECCCcccchhHHHHHHHHHHhcCCC--CcEEEEEeeecccccc
Confidence              3456789999999998432222 234555555554433  6999999999988653

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.66  E-value=2.9e-16  Score=105.19  Aligned_cols=125  Identities=14%  Similarity=0.137  Sum_probs=78.5

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      .+|+++|.+|+|||||++++++... .....+. ............. ....+.+|||+|....           .....
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~-~~~~~~~-~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~-----------~~~~~   67 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSF-DNTYQAT-IGIDFLSKTMYLEDRTIRLQLWDTAGQERF-----------RSLIP   67 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCC-CSSCCCC-CSEEEEEEEEECSSCEEEEEEEEECCSGGG-----------GGGHH
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCC-CCccccc-eeeeccceeeccCCCceeeeecccCCcchh-----------ccchH
Confidence            3799999999999999999987663 2222222 2222222222221 2246889999997642           11223


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHH
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLED  159 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~  159 (173)
                      .++..++++++|++..+..+... ..++..+.......  .|+++|.||+|+.+......++
T Consensus        68 ~~~~~~~~~ilv~d~~~~~s~~~i~~~~~~~~~~~~~~--~~iilvgnK~Dl~~~~~~~~~~  127 (164)
T d1yzqa1          68 SYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSD--VIIMLVGNKTDLADKRQVSIEE  127 (164)
T ss_dssp             HHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTS--SEEEEEEECTTCGGGCCSCHHH
T ss_pred             HHhhccceEEEeeccccccchhhhHhhHHHHHHhcCCC--ceEEEEecccchhhhhhhhHHH
Confidence            46778899999999984433332 45555555544333  7899999999987654444433

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=99.66  E-value=7.4e-16  Score=104.86  Aligned_cols=119  Identities=13%  Similarity=0.077  Sum_probs=78.4

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHH
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIV   94 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~   94 (173)
                      ......+|+++|.+|||||||++.+.+.... ...    .|.......... ++..+.+|||||......          
T Consensus        13 ~~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~-~~~----~t~~~~~~~~~~-~~~~~~i~D~~g~~~~~~----------   76 (182)
T d1moza_          13 GSNKELRILILGLDGAGKTTILYRLQIGEVV-TTK----PTIGFNVETLSY-KNLKLNVWDLGGQTSIRP----------   76 (182)
T ss_dssp             TCSSCEEEEEEEETTSSHHHHHHHTCCSEEE-EEC----SSTTCCEEEEEE-TTEEEEEEEEC----CCT----------
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHhcCCCC-ccc----cccceEEEEEee-CCEEEEEEecccccccch----------
Confidence            4556789999999999999999999876532 111    222233344444 778999999999765432          


Q ss_pred             HHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHccc--ccceEEEEEeCCCCCCC
Q 043441           95 KCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKK--VFDYMIVVFTGGDELED  152 (173)
Q Consensus        95 ~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~  152 (173)
                       ....++..++++++|+|.++..+..+  ..+++.+.....  ...|++||.||+|+...
T Consensus        77 -~~~~~~~~~~~ii~v~d~~d~~s~~~--~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~  133 (182)
T d1moza_          77 -YWRCYYADTAAVIFVVDSTDKDRMST--ASKELHLMLQEEELQDAALLVFANKQDQPGA  133 (182)
T ss_dssp             -TGGGTTTTEEEEEEEEETTCTTTHHH--HHHHHHHHTTSSTTSSCEEEEEEECTTSTTC
T ss_pred             -hHHhhhccceeEEEEeeecccccchh--HHHHHHHHHHhhccCCcceEEEEEeeccccc
Confidence             22357789999999999986555443  223333332221  23699999999998754

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=3.6e-16  Score=105.68  Aligned_cols=120  Identities=17%  Similarity=0.140  Sum_probs=75.7

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC-ccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSS-GVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ..+|+++|.+|+|||||++.+.+... .....+. ..+.......... ....+.+|||||...           +....
T Consensus         5 ~~KI~lvG~~~vGKTsll~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~-----------~~~~~   71 (174)
T d2bmea1           5 LFKFLVIGNAGTGKSCLLHQFIEKKF-KDDSNHTIGVEFGSKIINVGG-KYVKLQIWDTAGQER-----------FRSVT   71 (174)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSC-CTTCCCCSEEEEEEEEEEETT-EEEEEEEEEECCSGG-----------GHHHH
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCC-CcccccccccceeeEEEEecC-cceeEEEEECCCchh-----------hhhhH
Confidence            36899999999999999999987653 2332222 2222222222211 234788999999553           33334


Q ss_pred             HhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ..++..++++++|+|.++.-+.. ...++..+......  ..|+++|.||+|+....
T Consensus        72 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~piivv~nK~D~~~~~  126 (174)
T d2bmea1          72 RSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQ--NIVIILCGNKKDLDADR  126 (174)
T ss_dssp             HTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCT--TCEEEEEEECGGGGGGC
T ss_pred             HHHhhhCCEEEEEEecccchhHHHHhhhhcccccccCC--ceEEEEEEecccccchh
Confidence            56788999999999998332221 13444444444332  37999999999976543

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.65  E-value=3.5e-17  Score=109.20  Aligned_cols=121  Identities=20%  Similarity=0.210  Sum_probs=78.6

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCc--HHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGS--EFVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~--~~~~~~~~~~~   97 (173)
                      .+|+++|.+|+|||||+|+|+|....... ...+.+.......... .+..+.++||||+.......  ........   
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~---   75 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNEDRAIVT-DIPGTTRDVISEEIVI-RGILFRIVDTAGVRSETNDLVERLGIERTL---   75 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCC-CSSCCSSCSCCEEEEE-TTEEEEEEESSCCCSSCCTTCCCCCHHHHH---
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeee-ccccccccceeEEEEe-CCeeEEeccccccccCCccHHHHHHHHHHH---
Confidence            37999999999999999999986643222 1223333333344444 77889999999986543211  11112222   


Q ss_pred             HhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                       ..+..+|++++++++++....++......+    .   ..++++++||.|.....
T Consensus        76 -~~~~~ad~ii~v~d~~~~~~~~~~~~~~~~----~---~~~~i~~~~k~d~~~~~  123 (160)
T d1xzpa2          76 -QEIEKADIVLFVLDASSPLDEEDRKILERI----K---NKRYLVVINKVDVVEKI  123 (160)
T ss_dssp             -HHHHHCSEEEEEEETTSCCCHHHHHHHHHH----T---TSSEEEEEEECSSCCCC
T ss_pred             -HHHHhCCEEEEEEeCCCCcchhhhhhhhhc----c---cccceeeeeeccccchh
Confidence             223456999999999867666554433222    1   26799999999999763

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=99.65  E-value=1.9e-15  Score=102.05  Aligned_cols=117  Identities=11%  Similarity=0.075  Sum_probs=79.8

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+|+++|.+|+|||||++++.+.... .    ...|.......... ....+.++|+||...           ....
T Consensus        10 ~k~~kIvlvG~~~vGKTSli~rl~~~~~~-~----~~~t~~~~~~~~~~-~~~~~~i~D~~g~~~-----------~~~~   72 (173)
T d1e0sa_          10 NKEMRILMLGLDAAGKTTILYKLKLGQSV-T----TIPTVGFNVETVTY-KNVKFNVWDVGGQDK-----------IRPL   72 (173)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHTTCCCCE-E----EEEETTEEEEEEEE-TTEEEEEEEESCCGG-----------GHHH
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCC-C----ccceeeeeEEEeec-cceeeEEecCCCcch-----------hhhH
Confidence            44588999999999999999999875531 1    22333333444444 778999999999664           2334


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~  152 (173)
                      ...+++.++++++|+|.++ ..... ...+++......  ....|++++.||+|+...
T Consensus        73 ~~~~~~~~~~ii~v~D~s~-~~~~~-~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~~  128 (173)
T d1e0sa_          73 WRHYYTGTQGLIFVVDCAD-RDRID-EARQELHRIINDREMRDAIILIFANKQDLPDA  128 (173)
T ss_dssp             HGGGTTTCCEEEEEEETTC-GGGHH-HHHHHHHHHHTSGGGTTCEEEEEEECTTSTTC
T ss_pred             HHhhhcccceEEEEEeccc-chhHH-HHHHHHHHHhhhcccccceeeeeeeccccccc
Confidence            4568889999999999983 32222 233334443322  233799999999998764

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=2.3e-16  Score=106.41  Aligned_cols=115  Identities=17%  Similarity=0.034  Sum_probs=73.0

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEE--EEEEee-CCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM--QRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~--~~~~~~-~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      .+|+++|.+|+|||||++++++... ....   ..|.....  ...... ....+.+|||||..           .....
T Consensus         4 ~Ki~vvG~~~vGKTsli~~~~~~~f-~~~~---~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~-----------~~~~~   68 (170)
T d1i2ma_           4 FKLVLVGDGGTGKTTFVKRHLTGEF-EKKY---VATLGVEVHPLVFHTNRGPIKFNVWDTAGQE-----------KFGGL   68 (170)
T ss_dssp             EEEEEEECTTSSHHHHHHTTC------CCE---EEETTEEEEEEEECBTTCCEEEEEEECTTHH-----------HHSSC
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCC-Cccc---ccceecccccccccccccccccccccccccc-----------cccee
Confidence            5899999999999999999987653 2221   12222221  112220 23478999999943           33333


Q ss_pred             HHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...++..++++++|+|++++-+-+ -..+++.+.....   ..|+++|.||+|+...
T Consensus        69 ~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~---~~piilvgnK~Dl~~~  122 (170)
T d1i2ma_          69 RDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE---NIPIVLCGNKVDIKDR  122 (170)
T ss_dssp             GGGGTTTCCEEEEEEETTSGGGGTTHHHHHHHHHHHHC---SCCEEEEEECCCCSCS
T ss_pred             cchhcccccchhhccccccccccchhHHHHHHHhhccC---CCceeeecchhhhhhh
Confidence            446788999999999998554433 2445555554432   3899999999998755

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.65  E-value=6.6e-16  Score=107.08  Aligned_cols=119  Identities=14%  Similarity=0.188  Sum_probs=84.6

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCc---cccC------------CCCccceeeEEEEEEeeCCceEEEEeCCCCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAF---KSRA------------SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   82 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~---~~~~------------~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~   82 (173)
                      +..+|+++|..++|||||+++|+.....   ....            ...+.|.........+ ++..+.++||||+.++
T Consensus         2 ~~ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~-~~~~i~iiDtPGh~df   80 (204)
T d2c78a3           2 PHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYET-AKRHYSHVDCPGHADY   80 (204)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEEC-SSCEEEEEECCCSGGG
T ss_pred             CCeEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEe-CCeEEEEEeCCCchhh
Confidence            3468999999999999999999632100   0000            0115566666667777 8889999999998863


Q ss_pred             CCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           83 SAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                             ..++.    .....+|+.++|+++.+.+.......+..+... +   -.++++++||+|+.+.
T Consensus        81 -------~~~~~----~~~~~aD~avlVvda~~Gv~~qt~~~~~~~~~~-g---i~~iiv~iNK~D~~~~  135 (204)
T d2c78a3          81 -------IKNMI----TGAAQMDGAILVVSAADGPMPQTREHILLARQV-G---VPYIVVFMNKVDMVDD  135 (204)
T ss_dssp             -------HHHHH----HHHTTCSSEEEEEETTTCCCHHHHHHHHHHHHT-T---CCCEEEEEECGGGCCC
T ss_pred             -------HHHHH----HHHHHCCEEEEEEECCCCCcHHHHHHHHHHHHc-C---CCeEEEEEEecccCCC
Confidence                   33444    344567999999999888888777776666664 1   1457888999999764

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=99.65  E-value=8.4e-17  Score=109.88  Aligned_cols=126  Identities=16%  Similarity=0.114  Sum_probs=75.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA  100 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~  100 (173)
                      .|+|+|++|+|||||+|+|++....  -....+.|............+..+.++||||+.............+.+.+   
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~~~--~~~~~~~T~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~---   77 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAKPK--IADYHFTTLVPNLGMVETDDGRSFVMADLPGLIEGAHQGVGLGHQFLRHI---   77 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCE--ESSTTSSCCCCCEEEEECSSSCEEEEEEHHHHHHHTTCTTTTHHHHHHHH---
T ss_pred             eEEEECCCCCCHHHHHHHHhCCCCc--eecCCCceEeeeeceeEecCCcEEEEecCCCcccCchHHHHHHHHHHHHH---
Confidence            5899999999999999999987652  22334455554455555545678999999998543222222333333332   


Q ss_pred             cCCceEEEEEeecCC--CCCHHH-HHHHHHHHHHHccc-ccceEEEEEeCCCCCCC
Q 043441          101 KDGIHAVLVGFSVRS--RFPQEE-EAALHSWQTLFGKK-VFDYMIVVFTGGDELED  152 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~--~~~~~~-~~~~~~l~~~~~~~-~~~~~~iv~tk~D~~~~  152 (173)
                       ..++.+++++....  .....+ .............. ...|+++|+||+|+.+.
T Consensus        78 -~~~~~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~~  132 (185)
T d1lnza2          78 -ERTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEA  132 (185)
T ss_dssp             -HHCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTH
T ss_pred             -HHhhhhhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHhH
Confidence             23466777776542  222222 22222233332222 23689999999999865

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.65  E-value=4.6e-16  Score=104.79  Aligned_cols=127  Identities=21%  Similarity=0.137  Sum_probs=80.2

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      |..+|+++|.+|+|||||++.+++.. +.....+.............. ....+.+||++|.........          
T Consensus         3 pt~Ki~lvG~~~vGKTsll~~~~~~~-~~~~~~~t~~~~~~~~~~~~~-~~~~~~i~d~~g~~~~~~~~~----------   70 (169)
T d1x1ra1           3 PTYKLVVVGDGGVGKSALTIQFFQKI-FVPDYDPTIEDSYLKHTEIDN-QWAILDVLDTAGQEEFSAMRE----------   70 (169)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSS-CCTTCCTTCCEEEEEEEEETT-EEEEEEEEECCSCGGGCSSHH----------
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCC-CCcccCcceeecccccccccc-ccccccccccccccccccchh----------
Confidence            45789999999999999999998755 323322222222222111111 234788999999876433221          


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHH
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLE  158 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~  158 (173)
                       .++++++++++|++.+++-+... ..++..+.+.... ...|++++.||+|+......+.+
T Consensus        71 -~~~~~~~~~llv~d~~d~~Sf~~~~~~~~~i~~~~~~-~~~p~ilvgnK~Dl~~~~~v~~e  130 (169)
T d1x1ra1          71 -QYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDR-ESFPMILVANKVDLMHLRKVTRD  130 (169)
T ss_dssp             -HHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTS-SCCCEEEEEECTTCSTTCCSCHH
T ss_pred             -hhhhhccEEEEecccccchhhhccchhhHHHHhhccc-cCccEEEEecccchhhhceeehh
Confidence             34556799999999985433332 4556666555432 23689999999998876544433

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=3e-16  Score=105.37  Aligned_cols=122  Identities=16%  Similarity=0.186  Sum_probs=76.3

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCc--eEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ--VVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ..+|+|+|.+|+|||||++++++.... ....+ ..+.......... .+.  .+.+|||||....           ...
T Consensus         4 ~~KivlvG~~~vGKTsli~~~~~~~~~-~~~~~-~~~~~~~~~~~~~-~~~~~~l~i~D~~g~~~~-----------~~~   69 (166)
T d1z0fa1           4 IFKYIIIGDMGVGKSCLLHQFTEKKFM-ADCPH-TIGVEFGTRIIEV-SGQKIKLQIWDTAGQERF-----------RAV   69 (166)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCC-SSCTT-SCCCCEEEEEEEE-TTEEEEEEEEECTTGGGT-----------CHH
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCC-Ccccc-cccccceeEEEEE-CCEEEEEEEeccCCchhH-----------HHH
Confidence            368999999999999999999876632 22222 2222222233333 333  7899999996542           112


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCccc
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEET  156 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~  156 (173)
                      ...+++.++++++|++.++.-+... ..++..+.+....  ..|++++.||+|+.......
T Consensus        70 ~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~--~~~iilvgnK~Dl~~~~~~~  128 (166)
T d1z0fa1          70 TRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNP--NTVIILIGNKADLEAQRDVT  128 (166)
T ss_dssp             HHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCT--TCEEEEEEECTTCGGGCCSC
T ss_pred             HHHHhcCCcEEEEEeccCchHHHHHHHHHHHHHHhhccc--cceEEEEcccccchhhcccH
Confidence            2234557899999999984422221 3444555544332  37899999999976554333

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.64  E-value=3.3e-16  Score=105.25  Aligned_cols=125  Identities=14%  Similarity=0.043  Sum_probs=75.9

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEe-eCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      +..+|+++|.+|+|||||++.+..... .....+...... ....... .....+.++||+|.....           ..
T Consensus         3 k~~Ki~lvG~~~vGKTsli~rl~~~~f-~~~~~~t~~~~~-~~~~~~~~~~~~~~~i~d~~g~~~~~-----------~~   69 (167)
T d1z0ja1           3 RELKVCLLGDTGVGKSSIMWRFVEDSF-DPNINPTIGASF-MTKTVQYQNELHKFLIWDTAGLERFR-----------AL   69 (167)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCC-CTTCCCCCSEEE-EEEEEEETTEEEEEEEEEECCSGGGG-----------GG
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCC-Cccccccccccc-ccccccccccccceeeeecCCchhhh-----------HH
Confidence            357899999999999999999987663 222222111111 1111221 022356799999976431           12


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccH
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETL  157 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~  157 (173)
                      ...++..++++++|+|.++.-+.+. ..+...+......  ..|+++|.||+|+.+.+....
T Consensus        70 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~~iilvgnK~Dl~~~~~v~~  129 (167)
T d1z0ja1          70 APMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPP--SIVVAIAGNKCDLTDVREVME  129 (167)
T ss_dssp             THHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCT--TSEEEEEEECTTCGGGCCSCH
T ss_pred             HHHHHhhccceEEEeeechhhhhhhHHHhhhhhhhccCC--cceEEEecccchhccccchhH
Confidence            2345778899999999973322222 3333334444333  379999999999876543333

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=99.64  E-value=6e-16  Score=104.14  Aligned_cols=125  Identities=19%  Similarity=0.182  Sum_probs=74.4

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      +..+|+++|.+|+|||||++++++.. |.....+.......  ..... ++  ..+.+||++|..+.           ..
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~~~-f~~~~~~T~~~~~~--~~~~~-~~~~~~l~i~d~~g~~~~-----------~~   67 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMYDE-FVEDYEPTKADSYR--KKVVL-DGEEVQIDILDTAGQEDY-----------AA   67 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSC-CCSCCCTTCCEEEE--EEEEE-TTEEEEEEEEECCC---C-----------HH
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCC-CCcccCCccccccc--ccccc-ccccccccccccccccch-----------hh
Confidence            45799999999999999999998655 33332222111111  11222 33  47789999997652           11


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHH
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLE  158 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~  158 (173)
                      ....+++.++++++|++..+.-+.+. ..+++.+.+.... ...|+++|.||+|+...+..+.+
T Consensus        68 ~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~-~~~piiivgnK~Dl~~~~~v~~~  130 (168)
T d1u8za_          68 IRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKED-ENVPFLLVGNKSDLEDKRQVSVE  130 (168)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCC-TTSCEEEEEECGGGGGGCCSCHH
T ss_pred             hhhhcccccceeEEEeeccchhhhhhHHHHHHHHHHhhCC-CCCcEEEEeccccccccccccHH
Confidence            12234556799999999984333222 3455555544322 23689999999998655433333

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.64  E-value=7.1e-16  Score=104.22  Aligned_cols=122  Identities=12%  Similarity=0.040  Sum_probs=71.7

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .+|+++|.+|+|||||++++++...........+.+...............+.++||||...           .......
T Consensus         3 ~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~-----------~~~~~~~   71 (175)
T d1ky3a_           3 LKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQER-----------FQSLGVA   71 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC---------------------C
T ss_pred             EEEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCchh-----------hhhHHHH
Confidence            68999999999999999999876532222111222222111111110224678999999553           2223345


Q ss_pred             ccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHccc--ccceEEEEEeCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKK--VFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~  152 (173)
                      ++..+++++++++.++..+-+ ...+++.+.+.....  ...|+++|.||+|+.+.
T Consensus        72 ~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~  127 (175)
T d1ky3a_          72 FYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEES  127 (175)
T ss_dssp             CSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGG
T ss_pred             HhhccceEEEEeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhh
Confidence            788899999999998443322 245566665554332  23589999999998754

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=6.9e-16  Score=104.26  Aligned_cols=120  Identities=16%  Similarity=0.116  Sum_probs=75.1

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .+|+++|.+|+|||||++++++.............+.......... ....+.++|++|........+           .
T Consensus         4 ~KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~d~~g~~~~~~~~~-----------~   71 (173)
T d2a5ja1           4 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDG-KQIKLQIWDTAGQESFRSITR-----------S   71 (173)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETT-EEEEEEEECCTTGGGTSCCCH-----------H
T ss_pred             EEEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeeee-eEEEEEeecccCccchhhHHH-----------H
Confidence            6899999999999999999987663322222221222222122111 234789999999775433222           4


Q ss_pred             ccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .+..+|++++|++.++.-+.+. ..+++.+.+....+  .|+++|.||+|+....
T Consensus        72 ~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~--~piilv~nK~D~~~~~  124 (173)
T d2a5ja1          72 YYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSN--MVIMLIGNKSDLESRR  124 (173)
T ss_dssp             HHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECTTCGGGC
T ss_pred             HhhccCEEEEEEeecChHHHHhHHHHHHHHHHhCCCC--CeEEEEecCCchhhhh
Confidence            5667899999999984433332 35555555544333  7999999999976543

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.63  E-value=2.5e-16  Score=106.47  Aligned_cols=124  Identities=12%  Similarity=0.116  Sum_probs=60.6

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ..+|+++|.+|+|||||+++|++... ..... +..+.......... ++  ..+.+|||||...           +...
T Consensus         6 ~~Ki~vvG~~~vGKTsLi~~l~~~~~-~~~~~-~t~~~~~~~~~~~~-~~~~~~l~i~D~~G~e~-----------~~~~   71 (173)
T d2fu5c1           6 LFKLLLIGDSGVGKTCVLFRFSEDAF-NSTFI-STIGIDFKIRTIEL-DGKRIKLQIWDTAGQER-----------FRTI   71 (173)
T ss_dssp             EEEEEEECCCCC-----------------CHH-HHHCEEEEEEEEEE-TTEEEEEEEEEC--------------------
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCC-CCccC-ccccceEEEEEEEE-CCEEEEEEEEECCCchh-----------hHHH
Confidence            36899999999999999999987553 22211 12222333334444 44  3677899999553           2233


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHH
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLE  158 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~  158 (173)
                      ...+++.++++|+|+|++++.+.+. ..+.+.+......  ..|+++|.||.|.........+
T Consensus        72 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~~iilv~~k~D~~~~~~~~~~  132 (173)
T d2fu5c1          72 TTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASA--DVEKMILGNKCDVNDKRQVSKE  132 (173)
T ss_dssp             CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCT--TCEEEEEEEC--CCSCCCSCHH
T ss_pred             HHHhccCCCEEEEEEECCChhhHHHHHHHHHHhhhhccC--CceEEEEEecccchhhcccHHH
Confidence            3457889999999999985433332 3444444444333  3799999999998876544333

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=6.5e-16  Score=104.06  Aligned_cols=124  Identities=13%  Similarity=0.086  Sum_probs=77.1

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEe-eCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      .+|+++|.+|+|||||++.++.... .....+..... ........ .....+.+|||+|....           .....
T Consensus         7 ~Ki~vvG~~~vGKTsLi~~l~~~~f-~~~~~~t~~~~-~~~~~~~~~~~~~~~~~~d~~g~~~~-----------~~~~~   73 (170)
T d1r2qa_           7 FKLVLLGESAVGKSSLVLRFVKGQF-HEFQESTIGAA-FLTQTVCLDDTTVKFEIWDTAGQERY-----------HSLAP   73 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCC-CTTCCCCSSEE-EEEEEEEETTEEEEEEEEEECCSGGG-----------GGGHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCC-Ccccccccccc-cccceeeccceEEEEEeccCCCchhh-----------hhhHH
Confidence            5799999999999999999996653 23322222221 12122222 02347899999996642           12222


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHH
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLE  158 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~  158 (173)
                      .+++.+++++++++..+.-+... ..+...+.+.....  .|+++|.||+|+......+.+
T Consensus        74 ~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~--~~iilvgnK~Dl~~~~~v~~e  132 (170)
T d1r2qa_          74 MYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN--IVIALSGNKADLANKRAVDFQ  132 (170)
T ss_dssp             HHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTT--CEEEEEEECGGGGGGCCSCHH
T ss_pred             HHhhCcceEEEEeccchhhHHHHHHHHhhhhhhccCCC--ceEEeecccccccccccccHH
Confidence            46778999999999984333222 34444444443333  789999999998766544444

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=1.7e-15  Score=102.65  Aligned_cols=117  Identities=18%  Similarity=0.083  Sum_probs=74.0

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .+|+++|.+|+|||||++.+++... .....+.............. ....+.+|||+|.....           .....
T Consensus         3 ~KivvvG~~~vGKTsLi~~~~~~~f-~~~~~~t~~~~~~~~~~~~~-~~~~l~i~D~~g~~~~~-----------~~~~~   69 (177)
T d1kmqa_           3 KKLVIVGDGACGKTCLLIVNSKDQF-PEVYVPTVFENYVADIEVDG-KQVELALWDTAGLEDYD-----------RLRPL   69 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCC-CSSCCCCSEEEEEEEEEETT-EEEEEEEEEECCSGGGT-----------TTGGG
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCC-CCCcCCceeeeccccccccc-cceeeeccccCccchhc-----------ccchh
Confidence            6899999999999999999987653 22222221111111122211 22368999999976432           22346


Q ss_pred             ccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ++..+|++++|+|.++.-+-+.  ..+.+.+... ..  ..|+++|.||+|+...
T Consensus        70 ~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~-~~--~~piilvgnK~Dl~~~  121 (177)
T d1kmqa_          70 SYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF-CP--NVPIILVGNKKDLRND  121 (177)
T ss_dssp             GCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-ST--TSCEEEEEECGGGTTC
T ss_pred             hcccchhhhhhcccchhHHHHHHHHHHHHHHHHh-CC--CCceEEeeecccccch
Confidence            7889999999999984332221  2333333333 22  2799999999998765

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.63  E-value=6e-16  Score=103.64  Aligned_cols=128  Identities=13%  Similarity=0.058  Sum_probs=79.0

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ..+|+++|.+|+|||||++.+++...........+............ ....+.++|++|....          ......
T Consensus         2 ~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~----------~~~~~~   70 (165)
T d1z06a1           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDG-ERIKIQLWDTAGQERF----------RKSMVQ   70 (165)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETT-EEEEEEEEECCCSHHH----------HTTTHH
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeec-cceEEEEEeccCchhh----------ccccce
Confidence            46899999999999999999987653322222222223223222222 3457889999985421          111122


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHH
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLE  158 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~  158 (173)
                      .++..+|++++|+|.+++-+.+. ..++..+.+.... ...|+++|.||+|+......+.+
T Consensus        71 ~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~-~~~pi~lvgnK~Dl~~~~~v~~~  130 (165)
T d1z06a1          71 HYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLA-NDIPRILVGNKCDLRSAIQVPTD  130 (165)
T ss_dssp             HHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCC-SCCCEEEEEECTTCGGGCCSCHH
T ss_pred             eeecCCCceEEEEEeehhhhhhhhhhhhHHHHhhccC-CCCeEEEEeccccchhccchhHH
Confidence            45678999999999985433332 3455555544322 23699999999998765433333

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.63  E-value=8.5e-16  Score=106.48  Aligned_cols=119  Identities=10%  Similarity=0.104  Sum_probs=74.2

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      .++|+|+|++|||||||+|+|++....      +..|.......... ++..+.++||||.....   .    .+.....
T Consensus         3 ~p~V~lvG~~n~GKTSLln~l~~~~~~------~~tt~~~~~~~~~~-~~~~~~l~D~~g~~~~~---~----~~~~~~~   68 (209)
T d1nrjb_           3 QPSIIIAGPQNSGKTSLLTLLTTDSVR------PTVVSQEPLSAADY-DGSGVTLVDFPGHVKLR---Y----KLSDYLK   68 (209)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSSCC------CBCCCSSCEEETTG-GGSSCEEEECCCCGGGT---H----HHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC------CeEEecceEEEEEe-CCeEEEEEecccccchh---h----HHHHHHH
Confidence            479999999999999999999986531      12222223333334 67789999999976421   2    2223333


Q ss_pred             hccCCceEEEEEeecCCCCC--HHHHHHHHH----HHHHHcccccceEEEEEeCCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFP--QEEEAALHS----WQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~--~~~~~~~~~----l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      .....++.+++++++.+...  .....++..    +.....  ...|+++|+||+|+....
T Consensus        69 ~~~~~~~~~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~--~~~piiiv~NK~D~~~~~  127 (209)
T d1nrjb_          69 TRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCE--NGIDILIACNKSELFTAR  127 (209)
T ss_dssp             HHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHST--TCCCEEEEEECTTSTTCC
T ss_pred             HHhhhccccceEEEEecccccHHHHHHHHHHHHHHHHHHHh--ccCCeEEEEEeecccccC
Confidence            44445688888888863322  122233222    222222  237899999999998753

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.62  E-value=5.1e-15  Score=100.99  Aligned_cols=120  Identities=17%  Similarity=0.073  Sum_probs=75.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ....+|+++|.+|+|||||+++++... |.....+.............. ....+.+|||+|........          
T Consensus         7 ~~~~Ki~lvG~~~vGKTsLi~r~~~~~-f~~~~~~Ti~~~~~~~~~~~~-~~~~l~i~D~~g~e~~~~~~----------   74 (185)
T d2atxa1           7 ALMLKCVVVGDGAVGKTCLLMSYANDA-FPEEYVPTVFDHYAVSVTVGG-KQYLLGLYDTAGQEDYDRLR----------   74 (185)
T ss_dssp             EEEEEEEEEECTTSSHHHHHHHHHHSS-CCCSCCCSSCCCEEEEEESSS-CEEEEEEECCCCSSSSTTTG----------
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHhhCC-CCCcCCCceeeeeeEEEeeCC-ceEEeecccccccchhhhhh----------
Confidence            345789999999999999999998755 333332222222111111111 22467899999976543222          


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                       ..++..+|++++|+|++++-+-+.  ..+.+.++.. ..  ..|+++|.||+|+.+.
T Consensus        75 -~~~~~~a~~~ilv~d~t~~~Sf~~~~~~~~~~~~~~-~~--~~~~ilvgnK~Dl~~~  128 (185)
T d2atxa1          75 -PLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY-AP--NVPFLLIGTQIDLRDD  128 (185)
T ss_dssp             -GGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-ST--TCCEEEEEECTTSTTC
T ss_pred             -hhcccccceeeeccccchHHHHHHHHHHHHHHHHhc-CC--CCCeeEeeeccccccc
Confidence             257889999999999984433222  2333334333 22  2789999999998754

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=99.62  E-value=4.3e-15  Score=100.88  Aligned_cols=117  Identities=15%  Similarity=0.210  Sum_probs=77.2

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccC-----CCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRA-----SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEI   93 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~-----~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~   93 (173)
                      ..+|+++|+++||||||+|+|++........     ...+.+.......... .+..+.++|+||..           ++
T Consensus         5 ~inIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~-~~~~~~~~d~~g~~-----------~~   72 (179)
T d1wb1a4           5 NINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKL-ENYRITLVDAPGHA-----------DL   72 (179)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEE-TTEEEEECCCSSHH-----------HH
T ss_pred             CEEEEEEeCCCCcHHHHHHHHHHhcCceecccccceeeeeeecccccccccc-CCcccccccccccc-----------cc
Confidence            4579999999999999999999754211110     0112223333333344 66788999999943           34


Q ss_pred             HHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           94 VKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        94 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..........+|++++++++.+.........+..+...     ..|+++|+||+|+...
T Consensus        73 ~~~~~~~l~~~d~~ilv~d~~~g~~~~~~~~~~~~~~~-----~~p~iiv~NKiD~~~~  126 (179)
T d1wb1a4          73 IRAVVSAADIIDLALIVVDAKEGPKTQTGEHMLILDHF-----NIPIIVVITKSDNAGT  126 (179)
T ss_dssp             HHHHHHHTTSCCEEEEEEETTTCSCHHHHHHHHHHHHT-----TCCBCEEEECTTSSCH
T ss_pred             ccchhhhhhhccccccccccccccchhhhhhhhhhhhc-----CCcceeccccccccCH
Confidence            44444566788999999999877777666655554442     2789999999999875

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.61  E-value=1.4e-15  Score=102.10  Aligned_cols=122  Identities=15%  Similarity=0.054  Sum_probs=73.9

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      +..+|+++|.+|+|||||++++++... .....+.............. ....+.+||++|....    .       ...
T Consensus         2 k~~Ki~lvG~~~vGKTsLi~r~~~~~f-~~~~~~t~~~~~~~~~~~~~-~~~~l~~~d~~g~~~~----~-------~~~   68 (167)
T d1kaoa_           2 REYKVVVLGSGGVGKSALTVQFVTGTF-IEKYDPTIEDFYRKEIEVDS-SPSVLEILDTAGTEQF----A-------SMR   68 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCC-CSCCCTTCCEEEEEEEEETT-EEEEEEEEECCCTTCC----H-------HHH
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCC-CCccCCceeeeeeeeeecCc-ceEeeccccCCCcccc----c-------cch
Confidence            357899999999999999999987653 23322222222222222211 2247889999996652    1       111


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ..++..++++++|++.++..+... ..+...+..... ....|+++|.||+|+....
T Consensus        69 ~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~piilvgnK~Dl~~~~  124 (167)
T d1kaoa_          69 DLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKR-YEKVPVILVGNKVDLESER  124 (167)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTT-TSCCCEEEEEECGGGGGGC
T ss_pred             HHHhhcccceeeeeeecchhhhhhhhchhhhhhhhcc-CCCCCEEEEEEccchhhcc
Confidence            234556799999999984433332 333333333222 2236899999999987654

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.61  E-value=3.7e-15  Score=100.28  Aligned_cols=125  Identities=17%  Similarity=0.110  Sum_probs=75.1

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCc--eEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ--VVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ..+|+++|.+|+|||||++.+++........ ............... .+.  .+.+|||||...           +...
T Consensus         6 ~fKi~vvG~~~vGKTsli~~~~~~~~~~~~~-~~~~~~~~~~~~~~~-~~~~~~l~i~Dt~G~e~-----------~~~~   72 (170)
T d2g6ba1           6 AFKVMLVGDSGVGKTCLLVRFKDGAFLAGTF-ISTVGIDFRNKVLDV-DGVKVKLQMWDTAGQER-----------FRSV   72 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCCCCC-CCCCSCEEEEEEEEE-TTEEEEEEEEECCCC-----------------
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCcccc-cceeeeeeEEEEEEe-cCcEEEEEEEECCCchh-----------hHHH
Confidence            3689999999999999999988755322222 222222222222333 343  678999999654           2223


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHH
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLE  158 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~  158 (173)
                      ...++..+|++++|++.++..+... ..+...+.+....  ..++++|.||+|.......+.+
T Consensus        73 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~~iilv~~k~d~~~~~~v~~~  133 (170)
T d2g6ba1          73 THAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQH--DVALMLLGNKVDSAHERVVKRE  133 (170)
T ss_dssp             --CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCT--TCEEEEEEECCSTTSCCCSCHH
T ss_pred             HHHhhcCCceeEEEecCCcccchhhhhhhhhhhhhccCC--CceEEEEEeeechhhcccccHH
Confidence            3457778899999999984332221 2333333343332  3789999999998876544433

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.61  E-value=4.2e-15  Score=103.05  Aligned_cols=119  Identities=17%  Similarity=0.193  Sum_probs=72.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      +.|+++|++|+|||||+|+|++......  . +..+............+..+.++|+||...       ..   ...+..
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~~~~~~--~-~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~-------~~---~~~~~~   67 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTGQYRDT--Q-TSITDSSAIYKVNNNRGNSLTLIDLPGHES-------LR---FQLLDR   67 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSCCCCB--C-CCCSCEEEEEECSSTTCCEEEEEECCCCHH-------HH---HHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcc--c-CCeeEEEEEEEEeeeeeeeeeeeecccccc-------cc---chhhhh
Confidence            4799999999999999999998664221  1 122222222222222456899999999542       11   123334


Q ss_pred             ccCCceEEEEEeecCCCCCHHHHHHH----HHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEEEAAL----HSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~~~~~----~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ++..++.+++|+|+++. ........    +.+.+........|++||.||+|+...
T Consensus        68 ~~~~~~~~i~v~D~~d~-~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a  123 (207)
T d2fh5b1          68 FKSSARAVVFVVDSAAF-QREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMA  123 (207)
T ss_dssp             HGGGEEEEEEEEETTTH-HHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTC
T ss_pred             hhhhccccceEEEcccc-cccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCC
Confidence            56778999999999833 22212222    222222112223689999999999864

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=99.60  E-value=3.3e-15  Score=102.79  Aligned_cols=119  Identities=17%  Similarity=0.200  Sum_probs=83.6

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCC------Ccc--------ccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRR------AFK--------SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   83 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~------~~~--------~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~   83 (173)
                      +-.+|+++|..++|||||+++|++..      .+.        ..-...+.|.........+ .+..+.++||||..+  
T Consensus         2 p~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~~~~-~~~~~~~iDtPGh~~--   78 (196)
T d1d2ea3           2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYST-AARHYAHTDCPGHAD--   78 (196)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEEC-SSCEEEEEECSSHHH--
T ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEEEEe-ceeeEEeecCcchHH--
Confidence            34689999999999999999997521      000        0011234555555555666 788999999999553  


Q ss_pred             CCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           84 AGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                               +..........+|+.++|+++.+......+..+..+.+. +   ..++++++||+|+...
T Consensus        79 ---------f~~~~~~~~~~aD~allVVda~~G~~~QT~~~~~~a~~~-~---~~~iIv~iNK~D~~~~  134 (196)
T d1d2ea3          79 ---------YVKNMITGTAPLDGCILVVAANDGPMPQTREHLLLARQI-G---VEHVVVYVNKADAVQD  134 (196)
T ss_dssp             ---------HHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHHHHHT-T---CCCEEEEEECGGGCSC
T ss_pred             ---------HHHHHHHHHhhcCeEEEEEEcCCCCchhHHHHHHHHHHh-c---CCcEEEEEeccccccc
Confidence                     333444566788999999999988877666666555554 2   2578999999999864

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.59  E-value=2.4e-15  Score=101.35  Aligned_cols=118  Identities=23%  Similarity=0.167  Sum_probs=70.5

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      .+|+++|.+|+|||||++++++.. |.....+.......  ..... ++  ..+.+|||+|..+...           ..
T Consensus         6 ~Ki~lvG~~~vGKTsLi~r~~~~~-f~~~~~~t~~~~~~--~~~~~-~~~~~~~~~~d~~g~~~~~~-----------~~   70 (171)
T d2erya1           6 YRLVVVGGGGVGKSALTIQFIQSY-FVTDYDPTIEDSYT--KQCVI-DDRAARLDILDTAGQEEFGA-----------MR   70 (171)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSC-CCSSCCTTCCEEEE--EEEEE-TTEEEEEEEEECC----CCH-----------HH
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCC-CCcccCccccccee--eeeee-cccccccccccccccccccc-----------cc
Confidence            689999999999999999998765 32332222222222  22222 33  3789999999776421           11


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ..++..+|++++|+|.++.-+... ..++..+.+.... ...|+++|.||+|+....
T Consensus        71 ~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~-~~~p~ilvgnK~Dl~~~~  126 (171)
T d2erya1          71 EQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDR-DEFPMILIGNKADLDHQR  126 (171)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTS-SCCSEEEEEECTTCTTSC
T ss_pred             cccccccceEEEeeccccccchhhHHHHhHHHHhhccc-CCCCEEEEEeccchhhhc
Confidence            233445799999999984322221 3444444443332 236899999999987654

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.59  E-value=4.7e-15  Score=101.02  Aligned_cols=120  Identities=13%  Similarity=0.071  Sum_probs=75.6

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCC-CccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASS-SGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      .+|+|+|.+|+|||||++.+++... .....+ .+.+.......... ....+.++||||.........           
T Consensus         3 ~Kv~vvG~~~vGKSSLi~~l~~~~f-~~~~~~t~~~~~~~~~~~~~~-~~~~~~~~d~~g~~~~~~~~~-----------   69 (184)
T d1vg8a_           3 LKVIILGDSGVGKTSLMNQYVNKKF-SNQYKATIGADFLTKEVMVDD-RLVTMQIWDTAGQERFQSLGV-----------   69 (184)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCC-CSSCCCCCSEEEEEEEEESSS-CEEEEEEEEECSSGGGSCSCC-----------
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCC-CCCcCCccceeeeeeeeeeCC-ceEEEEeeecCCccccccccc-----------
Confidence            5799999999999999999987653 232222 22222222222211 234788999999765433322           


Q ss_pred             hccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHccc--ccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKK--VFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~  152 (173)
                      ..+..+++++++++.++.-+.. -..+++.+.......  ...|+++|.||+|+...
T Consensus        70 ~~~~~~~~~i~~~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~~  126 (184)
T d1vg8a_          70 AFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENR  126 (184)
T ss_dssp             GGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCC
T ss_pred             ccccCccEEEEeecccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeeccccc
Confidence            4567889999999997322222 134555555543321  23589999999997653

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.59  E-value=2.9e-15  Score=100.53  Aligned_cols=126  Identities=15%  Similarity=0.062  Sum_probs=78.2

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      +..+|+++|.+|+|||||+++++.... .....+.............. ....+.+||++|........           
T Consensus         2 r~~KivvvG~~~vGKTsli~r~~~~~f-~~~~~~t~~~~~~~~~~~~~-~~~~~~~~d~~g~~~~~~~~-----------   68 (167)
T d1c1ya_           2 REYKLVVLGSGGVGKSALTVQFVQGIF-VEKYDPTIEDSYRKQVEVDC-QQCMLEILDTAGTEQFTAMR-----------   68 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCC-CCSCCCCSEEEEEEEEESSS-CEEEEEEEEECSSCSSTTHH-----------
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCC-CCccCCccccccceeEEeee-eEEEeccccccCcccccccc-----------
Confidence            346899999999999999999987663 23322222212211112111 33478999999987643211           


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccH
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETL  157 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~  157 (173)
                      ..++..+|++++|++.++.-+.+. ..+++.+.+.... ...|+++|.||+|+......+.
T Consensus        69 ~~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~-~~~p~ilvgnK~Dl~~~~~~~~  128 (167)
T d1c1ya_          69 DLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDT-EDVPMILVGNKCDLEDERVVGK  128 (167)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCC-SCCCEEEEEECTTCGGGCCSCH
T ss_pred             cccccccceeEEeeeccchhhhHhHHHHHHHHHHhcCC-CCCeEEEEEEecCcccccccch
Confidence            134556799999999984433222 3455555444322 2368999999999886543333

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.59  E-value=2.8e-15  Score=102.13  Aligned_cols=121  Identities=18%  Similarity=0.036  Sum_probs=76.1

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      ++...+|+|+|.+|+|||||++.+++... .....+.............. ....+.+||++|.....           .
T Consensus         2 ~p~~iKivviG~~~vGKTsli~~~~~~~f-~~~~~~ti~~~~~~~~~~~~-~~~~~~~~d~~g~~~~~-----------~   68 (183)
T d1mh1a_           2 SPQAIKCVVVGDGAVGKTCLLISYTTNAF-PGEYIPTVFDNYSANVMVDG-KPVNLGLWDTAGQEDYD-----------R   68 (183)
T ss_dssp             CCEEEEEEEECSTTSSHHHHHHHHHHSSC-CSSCCCCSCCEEEEEEEETT-EEEEEEEECCCCSGGGT-----------T
T ss_pred             CceeEEEEEECCCCCCHHHHHHHHHhCCC-CcccccceeeceeeeeeccC-cceEEEeecccccccch-----------h
Confidence            35668999999999999999999987663 23322222222222222211 23467899999966432           2


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHH--HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEE--EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ....+++.++++++|+|+++.-+-+.  ..+...++.. ..  ..|+++|.||+|+.+.
T Consensus        69 ~~~~~~~~~~~~ilv~d~~~~~sf~~i~~~~~~~~~~~-~~--~~piilvgnK~Dl~~~  124 (183)
T d1mh1a_          69 LRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHH-CP--NTPIILVGTKLDLRDD  124 (183)
T ss_dssp             TGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-ST--TSCEEEEEECHHHHTC
T ss_pred             hhhhcccccceeeeeeccchHHHHHHHHHHHHHHHHHh-CC--CCcEEEEeecccchhh
Confidence            22357889999999999984433222  2233334333 22  2699999999997654

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.59  E-value=8.8e-15  Score=98.29  Aligned_cols=122  Identities=18%  Similarity=0.102  Sum_probs=74.1

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ..+|+++|.+|+|||||++.+++.. |.....+   |....+.......+  ..+.+|||+|....    .. .      
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~~~-f~~~~~p---Ti~~~~~~~~~~~~~~~~l~i~D~~g~~~~----~~-~------   66 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLTKR-FIWEYDP---TLESTYRHQATIDDEVVSMEILDTAGQEDT----IQ-R------   66 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSC-CCSCCCT---TCCEEEEEEEEETTEEEEEEEEECCCCCCC----HH-H------
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCC-CCCccCC---ceeccccccccccccceEEEEeeccccccc----cc-c------
Confidence            3689999999999999999999765 3233222   22222111111133  47899999997642    11 1      


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHH-HHHHHHHHHHcccccceEEEEEeCCCCCCCCcccH
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEE-AALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETL  157 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~  157 (173)
                       ..++..++++++|+|.+++.+.... .+...+..... ....|+++|.||+|+......+.
T Consensus        67 -~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~piilvgnK~Dl~~~r~V~~  126 (168)
T d2atva1          67 -EGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKK-PKNVTLILVGNKADLDHSRQVST  126 (168)
T ss_dssp             -HHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHT-TSCCCEEEEEECGGGGGGCCSCH
T ss_pred             -hhhhcccccceeecccCCccchhhhhhhccccccccc-ccCcceeeeccchhhhhhccCcH
Confidence             1234467999999999855333332 23333333222 23379999999999875543333

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.59  E-value=4e-15  Score=100.76  Aligned_cols=119  Identities=15%  Similarity=0.122  Sum_probs=73.7

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      +..+|+++|..|+|||||++++.+... .....+. .+.......... .+  ..+.+|||||........         
T Consensus         6 ~~iKi~vvG~~~vGKTsli~~l~~~~~-~~~~~~~-~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~~~~---------   73 (177)
T d1x3sa1           6 TTLKILIIGESGVGKSSLLLRFTDDTF-DPELAAT-IGVDFKVKTISV-DGNKAKLAIWDTAGQERFRTLT---------   73 (177)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCC-CTTCCCC-CSEEEEEEEEEE-TTEEEEEEEEEECSSGGGCCSH---------
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCC-CCccccc-eeecceeEEEEE-eccccEEEEEECCCchhhHHHH---------
Confidence            457899999999999999999987663 2222221 222222223333 33  468999999976532211         


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHc--ccccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFG--KKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~--~~~~~~~~iv~tk~D~~~~  152 (173)
                        ..++..++++++|++.++.-+.  .....++.+...  .....+++++.||.|....
T Consensus        74 --~~~~~~~~~ii~v~d~~~~~s~--~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~~~  128 (177)
T d1x3sa1          74 --PSYYRGAQGVILVYDVTRRDTF--VKLDNWLNELETYCTRNDIVNMLVGNKIDKENR  128 (177)
T ss_dssp             --HHHHTTCCEEEEEEETTCHHHH--HTHHHHHHHHTTCCSCSCCEEEEEEECTTSSSC
T ss_pred             --HHHHhcCCEEEEEEECCCcccc--ccchhhhhhhcccccccceeeEEEeeccccccc
Confidence              1356688999999998833221  122223333221  2344688999999997754

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.59  E-value=3.8e-15  Score=99.81  Aligned_cols=117  Identities=12%  Similarity=0.144  Sum_probs=71.1

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      .+|+++|.+|+|||||++++++..........  .+.......+.. .+  ..+.+|||||........           
T Consensus         3 ~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t--~~~~~~~~~i~~-~~~~~~~~i~Dt~G~~~~~~~~-----------   68 (166)
T d1g16a_           3 MKILLIGDSGVGKSCLLVRFVEDKFNPSFITT--IGIDFKIKTVDI-NGKKVKLQIWDTAGQERFRTIT-----------   68 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCCC---------CCEEEEEEES-SSCEEEEEEECCTTGGGTSCCC-----------
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCccCCc--cceeEEEEEEEE-CCEEEEEEEEECCCchhhHHHH-----------
Confidence            58999999999999999999876532222222  222222223333 33  367789999965432221           


Q ss_pred             HhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..+++.++++++|++.++.-+... ..+...+.....  ...+.+++.+|.|+...
T Consensus        69 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~~~i~~~~k~d~~~~  122 (166)
T d1g16a_          69 TAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHAN--DEAQLLLVGNKSDMETR  122 (166)
T ss_dssp             HHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSC--TTCEEEEEEECTTCTTC
T ss_pred             HHHHhcCCEEEEEEECCCccCHHHHHhhhhhhhcccc--Ccceeeeecchhhhhhh
Confidence            245678899999999985432222 223333333322  23688899999998754

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.58  E-value=4.5e-15  Score=101.74  Aligned_cols=116  Identities=22%  Similarity=0.165  Sum_probs=73.5

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ..+|+++|.+|+|||||++.+++.. |.....+.......  ..... .+  ..+.+|||+|.....           ..
T Consensus         3 ~iKvvllG~~~vGKTSli~r~~~~~-f~~~~~~t~~~~~~--~~~~~-~~~~~~l~i~D~~g~~~~~-----------~~   67 (191)
T d2ngra_           3 TIKCVVVGDGAVGKTCLLISYTTNK-FPSEYVPTVFDNYA--VTVMI-GGEPYTLGLFDTAGQEDYD-----------RL   67 (191)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSC-CCSSCCCCSEEEEE--EEEEE-TTEEEEEEEEEECCSGGGT-----------TT
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCC-CCCCcCCceeeecc--eeEee-CCceeeeeccccccchhhh-----------hh
Confidence            4689999999999999999998765 33332222221111  11222 33  378999999976432           22


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHH--HHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEE--AALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...++..+|++++|+|++++-+-+..  .+.+.+.. ...  ..|+++|.||+|+.+.
T Consensus        68 ~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~-~~~--~~~i~lvgnK~Dl~~~  122 (191)
T d2ngra_          68 RPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITH-HCP--KTPFLLVGTQIDLRDD  122 (191)
T ss_dssp             GGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHH-HCT--TCCEEEEEECGGGGGC
T ss_pred             hhhcccccceeecccccchHHHHHHHHHHHHHHHhh-cCC--CCceEEEecccccccc
Confidence            33578899999999999844332221  22222222 222  3789999999998654

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.58  E-value=6e-15  Score=100.17  Aligned_cols=118  Identities=16%  Similarity=0.064  Sum_probs=72.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .+|+++|.+|+|||||+++++.... .....+.............. ....+.+|||+|......           ....
T Consensus         3 ~KivliG~~~vGKTsli~r~~~~~f-~~~~~~t~~~~~~~~~~~~~-~~~~~~i~D~~g~~~~~~-----------~~~~   69 (179)
T d1m7ba_           3 CKIVVVGDSQCGKTALLHVFAKDCF-PENYVPTVFENYTASFEIDT-QRIELSLWDTSGSPYYDN-----------VRPL   69 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCC-CSSCCCCSEEEEEEEEECSS-CEEEEEEEEECCSGGGTT-----------TGGG
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCCC-CCccCCceeecccccccccc-eEEeeccccccccccccc-----------cccc
Confidence            6899999999999999999987653 23322221212222222111 234678999999664322           1235


Q ss_pred             ccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ++..+|++++|++.++.-+-+. ..+..........  ..|+++|.||+|+...
T Consensus        70 ~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~--~~~iilVgnK~Dl~~~  121 (179)
T d1m7ba_          70 SYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP--NTKMLLVGCKSDLRTD  121 (179)
T ss_dssp             GCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCT--TCEEEEEEECGGGGGC
T ss_pred             hhhhhhhhheeeecccCCCHHHHHHHHHHHHhccCC--cceEEEEEeccccccc
Confidence            7889999999999984432222 1222222222222  3799999999997653

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.58  E-value=1.6e-14  Score=97.39  Aligned_cols=127  Identities=17%  Similarity=0.064  Sum_probs=74.3

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCc-cccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAF-KSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~-~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      .+|+++|.+|+|||||++.+++.... .....+.+............ ....+.+||+|+...        ..++  ...
T Consensus         4 ~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~~~~~d~~~~~g--------~e~~--~~~   72 (172)
T d2g3ya1           4 YRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDG-ESATIILLDMWENKG--------ENEW--LHD   72 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETT-EEEEEEEECCTTTTH--------HHHH--HHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCC-ceeeeeeeccccccc--------cccc--ccc
Confidence            68999999999999999999876532 12222222222222222211 233578999887442        1122  234


Q ss_pred             hccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHH
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLE  158 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~  158 (173)
                      .+++.+|++++|+|+++.-+.+. ..+...+....+ ....|+++|.||+|+...+..+.+
T Consensus        73 ~~~~~~~~~ilvfd~t~~~s~~~~~~~~~~i~~~~~-~~~~piilvgnK~Dl~~~~~v~~~  132 (172)
T d2g3ya1          73 HCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQ-TEDIPIILVGNKSDLVRCREVSVS  132 (172)
T ss_dssp             CCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGG-GTTSCEEEEEECTTCGGGCCSCHH
T ss_pred             ccccccceeeeeecccccchhhhhhhhhhhhhhccc-cCCceEEEEeccccccccccccHH
Confidence            57889999999999984322222 233333332211 123699999999998765433333

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.56  E-value=3.4e-14  Score=96.76  Aligned_cols=119  Identities=13%  Similarity=0.038  Sum_probs=72.3

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEee-----------CCceEEEEeCCCCCCCCCCcHH
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-----------DGQVVNVIDTPGLFDFSAGSEF   88 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-----------~~~~~~v~DtpG~~~~~~~~~~   88 (173)
                      .+|+++|.+|+|||||++.+++.... ....+ ..+...........           ....+.++||||.         
T Consensus         6 ~Ki~ivG~~~vGKTsLi~~l~~~~~~-~~~~~-~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~---------   74 (186)
T d2f7sa1           6 IKLLALGDSGVGKTTFLYRYTDNKFN-PKFIT-TVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQ---------   74 (186)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHCSCCC-CEEEE-EEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESH---------
T ss_pred             EEEEEECCCCcCHHHHHHHHhcCCCC-CccCC-cccceeeEEEEEEecccccccccccceEEeccccCCcc---------
Confidence            68999999999999999999976532 22111 11111111111110           1236899999993         


Q ss_pred             HHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCCCC
Q 043441           89 VGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~~  153 (173)
                        +++......++.+++++++|+|+++.. .. .....++.+....  ....|+++|.||+|+....
T Consensus        75 --e~~~~~~~~~~~~~~~~i~v~d~~~~~-s~-~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~  137 (186)
T d2f7sa1          75 --ERFRSLTTAFFRDAMGFLLMFDLTSQQ-SF-LNVRNWMSQLQANAYCENPDIVLIGNKADLPDQR  137 (186)
T ss_dssp             --HHHHHHHHHHHTTCCEEEEEEETTCHH-HH-HHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGC
T ss_pred             --hhhHHHHHHHHhcCCEEEEEEeccccc-cc-eeeeeccchhhhhccCCCceEEEEeeeccchhhh
Confidence              345555556778999999999997321 11 1222333332221  1235889999999987654

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.56  E-value=5.7e-15  Score=99.30  Aligned_cols=118  Identities=16%  Similarity=0.135  Sum_probs=73.5

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      ..+|+++|.+|+|||||++.+++...........+.....  ..+.. .+  ..+.+|||+|.....           ..
T Consensus         3 ~iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~--~~i~~-~~~~~~l~i~d~~g~~~~~-----------~~   68 (170)
T d1ek0a_           3 SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLT--QRVTI-NEHTVKFEIWDTAGQERFA-----------SL   68 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEE--EEEEE-TTEEEEEEEEEECCSGGGG-----------GG
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCccccccccceeec--ccccc-ccccccccccccCCchhHH-----------HH
Confidence            3689999999999999999998766322222111212122  22222 33  478999999966421           11


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...++..+|++++|++.+++.+.+. ..+...+.....  ...+.+++.||+|+.+.
T Consensus        69 ~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~--~~~~~~~v~nk~d~~~~  123 (170)
T d1ek0a_          69 APMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQAS--KDIIIALVGNKIDMLQE  123 (170)
T ss_dssp             HHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--TTCEEEEEEECGGGGGS
T ss_pred             HHHHHhccceEEEEEeCCcccchhhhhhhhhhhccccc--cccceeeeecccccccc
Confidence            1245778899999999985433332 233333333322  33799999999998654

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.55  E-value=2.9e-14  Score=96.18  Aligned_cols=120  Identities=17%  Similarity=0.083  Sum_probs=75.0

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      +..+|+++|.+|+|||||++.+++... .....+.... ......... .+  ..+.++|++|...           ...
T Consensus         5 ~~~KI~vvG~~~vGKSSli~~~~~~~~-~~~~~~t~~~-~~~~~~~~~-~~~~~~~~i~d~~g~~~-----------~~~   70 (174)
T d1wmsa_           5 SLFKVILLGDGGVGKSSLMNRYVTNKF-DTQLFHTIGV-EFLNKDLEV-DGHFVTMQIWDTAGQER-----------FRS   70 (174)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCC-CC----CCSE-EEEEEEEEE-TTEEEEEEEEECCCCGG-----------GHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCCC-CCccccceee-eeeeeeeee-cCceeeEeeecccCcce-----------ehh
Confidence            346899999999999999999987553 2222221111 111222222 33  4678999999653           222


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHccc--ccceEEEEEeCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKK--VFDYMIVVFTGGDELE  151 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~  151 (173)
                      ........+++++++++.++..+-+ ...+++.+.+.....  ...|+++|.||+|+.+
T Consensus        71 ~~~~~~~~~~~~i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~  129 (174)
T d1wmsa_          71 LRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE  129 (174)
T ss_dssp             HHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSS
T ss_pred             hhhhhhhccceEEEEEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchhh
Confidence            3345677889999999998443322 234555555544322  2368999999999764

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=99.55  E-value=3.3e-14  Score=101.89  Aligned_cols=115  Identities=27%  Similarity=0.272  Sum_probs=84.7

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccc-------cC---------CCCccceeeEEEEEEeeCCceEEEEeCCCCCCCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKS-------RA---------SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   83 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~-------~~---------~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~   83 (173)
                      ++|+++|..++|||||+.+|+.......       +.         ...+.|.........+ ++..+.++||||..++ 
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~-~~~~~n~iDtPGh~dF-   80 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLF-RGHRVFLLDAPGYGDF-   80 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEE-TTEEEEEEECCCSGGG-
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeecccccc-cccceeEEccCchhhh-
Confidence            6799999999999999999853211100       10         1124466666667777 8899999999999974 


Q ss_pred             CCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCC
Q 043441           84 AGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELE  151 (173)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  151 (173)
                            ..+....+..    +|+.++|+++.+.........++.+.+.     ..|.++++||+|+..
T Consensus        81 ------~~e~~~al~~----~D~avlvvda~~Gv~~~t~~~~~~~~~~-----~~p~~i~iNk~D~~~  133 (267)
T d2dy1a2          81 ------VGEIRGALEA----ADAALVAVSAEAGVQVGTERAWTVAERL-----GLPRMVVVTKLDKGG  133 (267)
T ss_dssp             ------HHHHHHHHHH----CSEEEEEEETTTCSCHHHHHHHHHHHHT-----TCCEEEEEECGGGCC
T ss_pred             ------hhhhhhhhcc----cCceEEEeeccCCccchhHHHHHhhhhc-----ccccccccccccccc
Confidence                  3345544444    4999999999989888888887777764     278999999999854

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.54  E-value=9.3e-15  Score=97.92  Aligned_cols=120  Identities=15%  Similarity=0.074  Sum_probs=74.6

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ..+|+++|.+|+|||||++++++... .....+.... ..............+.+||++|....           .....
T Consensus         3 e~Ki~viG~~~vGKTsli~~l~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~l~~~d~~~~~~~-----------~~~~~   69 (166)
T d1ctqa_           3 EYKLVVVGAGGVGKSALTIQLIQNHF-VDEYDPTIED-SYRKQVVIDGETCLLDILDTAGQEEY-----------SAMRD   69 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCC-CCSCCCCSEE-EEEEEEEETTEEEEEEEEEECCCGGG-----------HHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCCC-CCccCCccce-eeccceeeeceeeeeeeeeccCcccc-----------ccchh
Confidence            46899999999999999999998663 2222222111 11111111112346889999997752           11112


Q ss_pred             hccCCceEEEEEeecCCCCCHH-HHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQE-EEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..+..++++++|++.+++.+.+ ...+++.+.+.... ...|+++|.||+|+...
T Consensus        70 ~~~~~~~~~iiv~d~~~~~s~~~~~~~~~~i~~~~~~-~~~piilv~nK~Dl~~~  123 (166)
T d1ctqa_          70 QYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDS-DDVPMVLVGNKCDLAAR  123 (166)
T ss_dssp             HHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTC-SSCCEEEEEECTTCSCC
T ss_pred             hhhhcccccceeecccccccHHHHHHHHHHHHHhcCC-CCCeEEEEecccccccc
Confidence            3455678999999998443333 24555656655432 23689999999997653

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.54  E-value=6.2e-14  Score=100.71  Aligned_cols=120  Identities=18%  Similarity=0.258  Sum_probs=86.8

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccc----------------cCCCCccceeeEEEEEEeeCCceEEEEeCCCCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKS----------------RASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF   80 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~----------------~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~   80 (173)
                      +..++|+++|..|+|||||+.+|+-......                .-...+.|.........+ ++..+.++||||..
T Consensus         4 ~~iRni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~-~~~~~n~iDtPG~~   82 (276)
T d2bv3a2           4 KRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFW-KDHRINIIDAPGHV   82 (276)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEE-TTEEEEEECCCSSS
T ss_pred             hhceEEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeecc-CCeEEEEecCCchh
Confidence            4457899999999999999999852110000                011224555566677778 88999999999999


Q ss_pred             CCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           81 DFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ++..       +....+.    -+|+.++|+++.+..........+...+.     ..|.++++||+|+...+
T Consensus        83 dF~~-------e~~~~l~----~~D~avlVvda~~Gv~~~T~~~w~~a~~~-----~lP~i~fINKmDr~~ad  139 (276)
T d2bv3a2          83 DFTI-------EVERSMR----VLDGAIVVFDSSQGVEPQSETVWRQAEKY-----KVPRIAFANKMDKTGAD  139 (276)
T ss_dssp             SCST-------THHHHHH----HCCEEEEEEETTTSSCHHHHHHHHHHHTT-----TCCEEEEEECTTSTTCC
T ss_pred             hhHH-------HHHHHHH----hhhheEEeccccCCcchhHHHHHHHHHHc-----CCCEEEEEecccccccc
Confidence            8743       3333333    34899999999988888887776666653     28999999999998874

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=99.53  E-value=1.3e-13  Score=91.07  Aligned_cols=115  Identities=11%  Similarity=0.032  Sum_probs=73.8

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .+|+++|++|+|||||+|+|++........     +.......... ....+.++|+||....           ......
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~~-----~~~~~~~~~~~-~~~~~~~~d~~g~~~~-----------~~~~~~   63 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIP-----TIGFNVETVEY-KNISFTVWDVGGQDKI-----------RPLWRH   63 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCC-----CSSCCEEEEEC-SSCEEEEEECCCCGGG-----------HHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcccc-----ceeeEEEEEee-eeEEEEEecCCCcccc-----------hhhhhh
Confidence            379999999999999999998765422211     11112223333 6678999999997641           222234


Q ss_pred             ccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~~  153 (173)
                      ++..+++++++++..+..+...  ...++.+....  ....+++++.||.|+....
T Consensus        64 ~~~~~~~~i~~~d~~~~~~~~~--~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~  117 (160)
T d1r8sa_          64 YFQNTQGLIFVVDSNDRERVNE--AREELMRMLAEDELRDAVLLVFANKQDLPNAM  117 (160)
T ss_dssp             HTTTCSEEEEEEETTCGGGHHH--HHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC
T ss_pred             hhccceeEEEEEEecChHHHHH--HHHHHHHHHHhhcccCceEEEEeecccccccc
Confidence            5677899999999984433322  22233333222  1336899999999988763

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.53  E-value=1.5e-14  Score=97.83  Aligned_cols=113  Identities=16%  Similarity=0.079  Sum_probs=70.8

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCC--ceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      +..+|+++|..|+|||||++.+++... ... .+........  .... ++  ..+.+|||+|...     .        
T Consensus         4 p~~ki~vlG~~~vGKTsLi~~~~~~~f-~~~-~~t~~~~~~~--~i~v-~~~~~~l~i~Dt~g~~~-----~--------   65 (175)
T d2bmja1           4 PELRLGVLGDARSGKSSLIHRFLTGSY-QVL-EKTESEQYKK--EMLV-DGQTHLVLIREEAGAPD-----A--------   65 (175)
T ss_dssp             CEEEEEEECCTTTTHHHHHHHHHHSCC-CCC-CCSSCEEEEE--EEEE-TTEEEEEEEEECSSCCC-----H--------
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHhCCC-CCc-CCccceeEEE--Eeec-CceEEEEEEeecccccc-----c--------
Confidence            568999999999999999999988763 222 2221222221  1222 44  4688999999664     1        


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHHHccc-ccceEEEEEeCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTLFGKK-VFDYMIVVFTGGDELE  151 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~-~~~~~~iv~tk~D~~~  151 (173)
                         .+++.+|++++|+|.+++-+-+. ..+.+++....... ...|+++|.||.|.-.
T Consensus        66 ---~~~~~ad~~ilVfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~  120 (175)
T d2bmja1          66 ---KFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISA  120 (175)
T ss_dssp             ---HHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCS
T ss_pred             ---ccccccceeEEEeecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcch
Confidence               13445799999999985433222 34445554432221 2358999999988643

>d2akab1 c.37.1.8 (B:6-304) Dynamin G domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.52  E-value=2.2e-13  Score=99.27  Aligned_cols=132  Identities=16%  Similarity=0.169  Sum_probs=78.7

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCc-cceeeEE------------------------------------
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSG-VTSTCEM------------------------------------   60 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~-~t~~~~~------------------------------------   60 (173)
                      .-++++|+|..++|||||+|+|+|......+..+.. ..+....                                    
T Consensus        25 ~~P~ivvvG~~SsGKSsliNaLlg~~~lP~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  104 (299)
T d2akab1          25 DLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVT  104 (299)
T ss_dssp             CCCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHC
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHhCCCcCCCCCCccccCCEEEEEeccccceeEEEeCCCCeeCCHHHHHHHHHHHHHHhh
Confidence            356899999999999999999999886555543211 0011110                                    


Q ss_pred             ------------EEEEeeCCceEEEEeCCCCCCCCCCc--HHHHHHHHHHHHhccCCce-EEEEEeecCCCCCHHHHHHH
Q 043441           61 ------------QRTVLKDGQVVNVIDTPGLFDFSAGS--EFVGMEIVKCIGLAKDGIH-AVLVGFSVRSRFPQEEEAAL  125 (173)
Q Consensus        61 ------------~~~~~~~~~~~~v~DtpG~~~~~~~~--~~~~~~~~~~~~~~~~~~~-~ii~v~~~~~~~~~~~~~~~  125 (173)
                                  .....+....+.++||||+.......  ......+...+..+...++ .++++.++...++...  ..
T Consensus       105 ~~~~~~~~~~i~l~~~~p~~~~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~--~~  182 (299)
T d2akab1         105 GTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSD--AL  182 (299)
T ss_dssp             SSTTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCH--HH
T ss_pred             CCCcCcCCccEEEEEcCCCCCCeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhH--HH
Confidence                        11112133468999999998654322  2223333344444444455 5556666664555543  33


Q ss_pred             HHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441          126 HSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus       126 ~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ..+++.-+.  ..++++|+||+|..+..
T Consensus       183 ~~~~~~~~~--~~r~i~Vltk~D~~~~~  208 (299)
T d2akab1         183 KIAKEVDPQ--GQRTIGVITKLDLMDEG  208 (299)
T ss_dssp             HHHHHHCTT--CSSEEEEEECGGGSCTT
T ss_pred             HHHHHhCcC--CCceeeEEeccccccch
Confidence            334443222  26899999999999764

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=99.52  E-value=3.1e-13  Score=90.91  Aligned_cols=119  Identities=11%  Similarity=0.004  Sum_probs=73.1

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKC   96 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~   96 (173)
                      +...+|+++|.+|||||||+++|.+.......  .....   ....... .+..+.++|+++........          
T Consensus        13 ~k~~kI~vvG~~~~GKSsLi~rl~~~~~~~~~--~~~~~---~~~~~~~-~~~~~~~~d~~~~~~~~~~~----------   76 (177)
T d1zj6a1          13 HQEHKVIIVGLDNAGKTTILYQFSMNEVVHTS--PTIGS---NVEEIVI-NNTRFLMWDIGGQESLRSSW----------   76 (177)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCEEEE--CCSCS---SCEEEEE-TTEEEEEEECCC----CGGG----------
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCCccc--cccce---eEEEEee-cceEEEEeccccccccccch----------
Confidence            45589999999999999999999987642221  11111   1222333 67899999999866432211          


Q ss_pred             HHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           97 IGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        97 ~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                       ......+++++++++.++..+....................|+++|.||+|+...
T Consensus        77 -~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~  131 (177)
T d1zj6a1          77 -NTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKEC  131 (177)
T ss_dssp             -HHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTC
T ss_pred             -hhhhccceeeeeecccccccchhhhhhhhhhhhhcccccceEEEEEEEccccccc
Confidence             2345567999999999855444432211111111112234799999999998765

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=99.50  E-value=7.6e-14  Score=102.16  Aligned_cols=141  Identities=16%  Similarity=0.175  Sum_probs=77.2

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCcc-ceee--------------------------------------
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGV-TSTC--------------------------------------   58 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~-t~~~--------------------------------------   58 (173)
                      ..++++|+|..++|||||+|+|+|......+..+... .+..                                      
T Consensus        23 ~lP~ivVvG~~ssGKSSliNaLlG~~~lP~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i  102 (306)
T d1jwyb_          23 DLPQIVVVGSQSSGKSSVLENIVGRDFLPRGSGIVTRRPLILQLTHLPIADDGSQTQEWGEFLHKPNDMFYDFSEIREEI  102 (306)
T ss_dssp             CCCEEEEEECSSSSHHHHHHHHHTSCCCCC--------CEEEEEEECCCCTTSCCCCCEEEESSSTTCCBCCTHHHHHHH
T ss_pred             CCCeEEEEeCCCCCHHHHHHHHhCCCCCCCCCCccccCCEEEEEecCCcccCccchhhhhHHhhcCCceecCHHHHHHHH
Confidence            3468999999999999999999998864444321100 0000                                      


Q ss_pred             ------------------EEEEEEeeCCceEEEEeCCCCCCCCCCc--HHHHHHHHHHHHhccCCceEEEEEe-ecCCCC
Q 043441           59 ------------------EMQRTVLKDGQVVNVIDTPGLFDFSAGS--EFVGMEIVKCIGLAKDGIHAVLVGF-SVRSRF  117 (173)
Q Consensus        59 ------------------~~~~~~~~~~~~~~v~DtpG~~~~~~~~--~~~~~~~~~~~~~~~~~~~~ii~v~-~~~~~~  117 (173)
                                        .......+....+.++||||+.......  ..........+..+...++.+++++ ++...+
T Consensus       103 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~~~~~~~  182 (306)
T d1jwyb_         103 IRDTDRMTGKNKGISAQPINLKIYSPHVVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDL  182 (306)
T ss_dssp             HHHCC--------CCCCCEEEEEEETTSCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCS
T ss_pred             HHHHHHhcCCCCcccccceEEEecCCCCCCceEecCCCccccccCCcchhHHHHHHHHHHHHHhCCCceeEEeecccccc
Confidence                              0111122223568999999998654321  1223334444555556667655554 554334


Q ss_pred             CHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCCcccHHHHhcc
Q 043441          118 PQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDNEETLEDYLGR  163 (173)
Q Consensus       118 ~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~  163 (173)
                      ....  ..+.+++.-+.  ..++++|+||+|..... ....+++++
T Consensus       183 ~~~~--~~~~~~~~~~~--~~r~i~Vitk~D~~~~~-~~~~~~l~~  223 (306)
T d1jwyb_         183 ANSD--ALQLAKEVDPE--GKRTIGVITKLDLMDKG-TDAMEVLTG  223 (306)
T ss_dssp             TTCS--HHHHHHHHCSS--CSSEEEEEECTTSSCSS-CCCHHHHTT
T ss_pred             cccH--HHHHHHHhCcC--CCeEEEEEeccccccch-hHHHHHHhC
Confidence            3332  33334444222  26899999999998664 344444443

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=99.50  E-value=2.3e-13  Score=95.15  Aligned_cols=122  Identities=14%  Similarity=0.132  Sum_probs=80.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccc--------------c-----------------CCCCccceeeEEEEEEe
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKS--------------R-----------------ASSSGVTSTCEMQRTVL   65 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~--------------~-----------------~~~~~~t~~~~~~~~~~   65 (173)
                      ++..+++++|...+|||||+++|+.......              +                 ....+.+..........
T Consensus         7 ~~~~~i~viGHVd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~d~~~~e~~~g~ti~~~~~~~~~   86 (222)
T d1zunb3           7 KEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFST   86 (222)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEEC
T ss_pred             CCcceEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHHHHhcCccccceeeeeccccchhhhccCCCceeeEEEEec
Confidence            4567899999999999999999963110000              0                 00112333333444444


Q ss_pred             eCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEe
Q 043441           66 KDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFT  145 (173)
Q Consensus        66 ~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~t  145 (173)
                       .+..+.++||||..++       ..++.    ....-+|+.++|+++.+.+.......+..+... +   ...+++++|
T Consensus        87 -~~~~~~iiD~PGH~df-------v~~~~----~g~~~aD~ailVvda~~G~~~Qt~e~~~~~~~~-g---v~~iiv~vN  150 (222)
T d1zunb3          87 -AKRKFIIADTPGHEQY-------TRNMA----TGASTCDLAIILVDARYGVQTQTRRHSYIASLL-G---IKHIVVAIN  150 (222)
T ss_dssp             -SSEEEEEEECCCSGGG-------HHHHH----HHHTTCSEEEEEEETTTCSCHHHHHHHHHHHHT-T---CCEEEEEEE
T ss_pred             -cceEEEEEeccchhhh-------hhhhc----cccccCceEEEEeccccCcccchHHHHHHHHHc-C---CCEEEEEEE
Confidence             6788999999998863       33344    344566999999999888877766555544443 2   256999999


Q ss_pred             CCCCCCCCc
Q 043441          146 GGDELEDNE  154 (173)
Q Consensus       146 k~D~~~~~~  154 (173)
                      |+|+...+.
T Consensus       151 K~D~~~~~~  159 (222)
T d1zunb3         151 KMDLNGFDE  159 (222)
T ss_dssp             CTTTTTSCH
T ss_pred             ccccccccc
Confidence            999987643

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.49  E-value=1.2e-13  Score=93.29  Aligned_cols=126  Identities=17%  Similarity=0.210  Sum_probs=75.5

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ....|+++|.+|+|||||+|+|++.......  ....+...............+.++|+||....  .............
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~~~~~~~~--~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~   79 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLGQKISITS--RKAQTTRHRIVGIHTEGAYQAIYVDTPGLHME--EKRAINRLMNKAA   79 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCSEEECC--CCSSCCSSCEEEEEEETTEEEEEESSSSCCHH--HHHHHHHHHTCCT
T ss_pred             cccEEEEECCCCCCHHHHHHHHhCCCceeec--cCCCceEEEEEeeeecCCceeEeecCCCceec--chhhhhhhhhhcc
Confidence            3467999999999999999999997753222  23333333333333326678888999997641  0111111111111


Q ss_pred             HhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           98 GLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ......++.++++.+.. ............+.+   .  ..+.++++||+|.+...
T Consensus        80 ~~~~~~~~~~l~~~d~~-~~~~~~~~~~~~l~~---~--~~~~i~v~~k~d~~~~~  129 (179)
T d1egaa1          80 SSSIGDVELVIFVVEGT-RWTPDDEMVLNKLRE---G--KAPVILAVNKVDNVQEK  129 (179)
T ss_dssp             TSCCCCEEEEEEEEETT-CCCHHHHHHHHHHHS---S--SSCEEEEEESTTTCCCH
T ss_pred             ccchhhcceeEEEEecC-ccchhHHHHHHHhhh---c--cCceeeeeeeeeccchh
Confidence            22445677888888877 444444343333332   2  26899999999998763

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.46  E-value=7.3e-13  Score=87.55  Aligned_cols=115  Identities=10%  Similarity=0.021  Sum_probs=75.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL   99 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~   99 (173)
                      .+|+++|++|+|||||+|+|++.....     ..+|.......... .+....++|++|....           ......
T Consensus         1 ~KI~liG~~nvGKSSLln~l~~~~~~~-----~~~t~~~~~~~~~~-~~~~~~~~~~~~~~~~-----------~~~~~~   63 (166)
T d2qtvb1           1 GKLLFLGLDNAGKTTLLHMLKNDRLAT-----LQPTWHPTSEELAI-GNIKFTTFDLGGHIQA-----------RRLWKD   63 (166)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSCCCC-----CCCCCSCEEEEECC-TTCCEEEEECCCSGGG-----------GGGGGG
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCe-----eeceeeEeEEEecc-CCeeEEEEeeccchhh-----------hhhHhh
Confidence            379999999999999999999876421     22333333444444 6778999999986542           222235


Q ss_pred             ccCCceEEEEEeecCCCCCHHHH-HHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          100 AKDGIHAVLVGFSVRSRFPQEEE-AALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       100 ~~~~~~~ii~v~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ....+++++++++..+....... .+....... ......|++++.+|.|+...
T Consensus        64 ~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~i~~~k~d~~~~  116 (166)
T d2qtvb1          64 YFPEVNGIVFLVDAADPERFDEARVELDALFNI-AELKDVPFVILGNKIDAPNA  116 (166)
T ss_dssp             GCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTC-TTTTTCCEEEEEECTTSSSC
T ss_pred             hhhheeeeeeeccccchhhhhhhhHHHHhhhhh-hccCCceEEEEecccccccc
Confidence            67778999999999844433321 222222221 12244689999999998765

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=99.46  E-value=1.2e-12  Score=88.52  Aligned_cols=130  Identities=14%  Similarity=0.146  Sum_probs=72.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      .+..++|+++|.+|+|||||+|+|++.......... +.+.... .......+......++++.................
T Consensus        13 ~~~~~~I~lvG~~NvGKSSL~n~L~~~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (188)
T d1puia_          13 SDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKT-PGRTQLI-NLFEVADGKRLVDLPGYGYAEVPEEMKRKWQRALG   90 (188)
T ss_dssp             CSCSEEEEEEECTTSSHHHHHTTTCCC--------------CCE-EEEEEETTEEEEECCCCC------CCHHHHHHHHH
T ss_pred             CccCCEEEEECCCCCCHHHHHHHHhCCCceEeeccc-ccceeec-cceecccccceeeeecccccchhhhhhhhhhhhhh
Confidence            456799999999999999999999987643222222 2222222 22222145555555555544433333333333333


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ...........++.+.+............++.+...     ..+.++++||+|++..
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~v~~k~D~~~~  142 (188)
T d1puia_          91 EYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVDS-----NIAVLVLLTKADKLAS  142 (188)
T ss_dssp             HHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHT-----TCCEEEEEECGGGSCH
T ss_pred             hhhhhhhheeEEEEeecccccchhHHHHHHHHhhhc-----cccccchhhhhhccCH
Confidence            333444555667777777766666666666666553     2679999999999875

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.42  E-value=7.7e-12  Score=86.28  Aligned_cols=120  Identities=16%  Similarity=0.161  Sum_probs=71.7

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC------ccceeeEEEEE----------------------EeeCCc
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSS------GVTSTCEMQRT----------------------VLKDGQ   69 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~------~~t~~~~~~~~----------------------~~~~~~   69 (173)
                      +..+|+++|...+|||||+++|++...........      ...........                      .....+
T Consensus         7 p~ini~iiGhVd~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r   86 (205)
T d2qn6a3           7 PEVNIGVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLR   86 (205)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHSCCC--------------CEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEE
T ss_pred             CCeEEEEEEccCCcHHHHHHHHHhhhchhhHHHHHhhcccccchhhhhhhhhhhhhhhheeeecccceeeeeeccccceE
Confidence            44699999999999999999999743211110000      00000000000                      000123


Q ss_pred             eEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCH-HHHHHHHHHHHHHcccccceEEEEEeCCC
Q 043441           70 VVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQ-EEEAALHSWQTLFGKKVFDYMIVVFTGGD  148 (173)
Q Consensus        70 ~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~iv~tk~D  148 (173)
                      .+.++||||..           .+..........+|.+++|+++.+.+.. ..+..+..+... +.   .++++++||+|
T Consensus        87 ~~~iiD~PGH~-----------df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~-~i---~~iIV~vNK~D  151 (205)
T d2qn6a3          87 RISFIDAPGHE-----------VLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGII-GV---KNLIIVQNKVD  151 (205)
T ss_dssp             EEEEEECSCHH-----------HHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHT-TC---CCEEEEEECGG
T ss_pred             EEEEeccchHH-----------HHHhhhhcceeccccccccccccccccchhHHHHHHHHHHc-CC---ceeeeccccCC
Confidence            68999999955           3444444556678999999999877633 334444433332 22   57899999999


Q ss_pred             CCCC
Q 043441          149 ELED  152 (173)
Q Consensus       149 ~~~~  152 (173)
                      +...
T Consensus       152 l~~~  155 (205)
T d2qn6a3         152 VVSK  155 (205)
T ss_dssp             GSCH
T ss_pred             Cccc
Confidence            9865

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=99.42  E-value=3.3e-12  Score=87.50  Aligned_cols=121  Identities=14%  Similarity=0.211  Sum_probs=72.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccC-CCCccceeeEEEEE----------------------EeeCCceEEE
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRA-SSSGVTSTCEMQRT----------------------VLKDGQVVNV   73 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~-~~~~~t~~~~~~~~----------------------~~~~~~~~~v   73 (173)
                      .+..+|+++|..++|||||+|+|++...-.... ...+.|........                      .......+.+
T Consensus         3 ~~~inIaiiGhvd~GKSTL~~~L~g~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (195)
T d1kk1a3           3 QAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSF   82 (195)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEE
T ss_pred             CCcEEEEEEeccCCcHHHHHHHHHhhhhhhhHHHHHcCcccccchhhhhhhccchhhhccceeeeeeeeeeecCceeEee
Confidence            345689999999999999999998743211000 00111111110000                      0001235889


Q ss_pred             EeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCC-HHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           74 IDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFP-QEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        74 ~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      +||||..           .+..........+|.+++++++.+... ....+.+..+... +.   .++++++||+|+.+.
T Consensus        83 iDtPGh~-----------~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~-~~---~~iiv~inK~D~~d~  147 (195)
T d1kk1a3          83 IDAPGHE-----------ALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQII-GQ---KNIIIAQNKIELVDK  147 (195)
T ss_dssp             EECSSHH-----------HHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHH-TC---CCEEEEEECGGGSCH
T ss_pred             eccchhh-----------hhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHh-cC---ccceeeeecccchhh
Confidence            9999943           444445555667899999999986643 3334444444433 22   568889999999865

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=99.42  E-value=3.7e-12  Score=84.48  Aligned_cols=117  Identities=13%  Similarity=0.024  Sum_probs=75.3

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ..+|+++|.+|+|||||+|++++......     ..+.......... ++..+.++|++|....           .....
T Consensus         5 e~kI~ivG~~~vGKSSLi~~~~~~~~~~~-----~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~-----------~~~~~   67 (169)
T d1upta_           5 EMRILILGLDGAGKTTILYRLQVGEVVTT-----IPTIGFNVETVTY-KNLKFQVWDLGGLTSI-----------RPYWR   67 (169)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSSCCCC-----CCCSSEEEEEEEE-TTEEEEEEEECCCGGG-----------GGGGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCcce-----ecccceeeeeecc-CceEEEEeeccccccc-----------cccch
Confidence            37899999999999999999998764221     1233333333444 7789999999987642           12222


Q ss_pred             hccCCceEEEEEeecCCCCCHHHH-HHHHHHHHHHcccccceEEEEEeCCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEEE-AALHSWQTLFGKKVFDYMIVVFTGGDELEDN  153 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  153 (173)
                      ......+.++++++..+....... ......... ......+++++.||.|+....
T Consensus        68 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~iv~nk~Dl~~~~  122 (169)
T d1upta_          68 CYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEE-EELRKAILVVFANKQDMEQAM  122 (169)
T ss_dssp             GGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTC-GGGTTCEEEEEEECTTSTTCC
T ss_pred             hhhhhhhhhhhhhhhhhcchhhhccchhhhhhhh-hccccceEEEEEeeccccccc
Confidence            456677899999998744443321 221111111 112336899999999998763

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.39  E-value=1.6e-12  Score=89.06  Aligned_cols=114  Identities=15%  Similarity=0.103  Sum_probs=75.8

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ..+|+++|.+|||||||++.+.    +.....   +|.......... +...+.++|++|...           ......
T Consensus         2 ~iKivllG~~~vGKTsll~r~~----f~~~~~---pTiG~~~~~~~~-~~~~~~~~D~~gq~~-----------~~~~~~   62 (200)
T d1zcba2           2 LVKILLLGAGESGKSTFLKQMR----IIHGQD---PTKGIHEYDFEI-KNVPFKMVDVGGQRS-----------ERKRWF   62 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH----HHHSCC---CCSSEEEEEEEE-TTEEEEEEEECC------------------CT
T ss_pred             eEEEEEECCCCCCHHHHHHHHh----cCCCCC---CeeeeEEEEEee-eeeeeeeecccceee-----------eccccc
Confidence            3689999999999999999983    222222   344455556666 888999999999653           334445


Q ss_pred             hccCCceEEEEEeecCCCCCH--------HHHHHHHHHHHHHccc--ccceEEEEEeCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQ--------EEEAALHSWQTLFGKK--VFDYMIVVFTGGDELE  151 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~--------~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~  151 (173)
                      .+++.+++++++++.++....        ........+.++....  ...|+++++||+|+.+
T Consensus        63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~  125 (200)
T d1zcba2          63 ECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLE  125 (200)
T ss_dssp             TSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHH
T ss_pred             ccccccceeEEEEEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhhh
Confidence            688899999999998744321        1234444444444332  3469999999999863

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.38  E-value=2.6e-12  Score=90.65  Aligned_cols=122  Identities=20%  Similarity=0.242  Sum_probs=78.1

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHh---CCCC------------------ccc--------cCCCCccceeeEEEEEEeeCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSIL---GRRA------------------FKS--------RASSSGVTSTCEMQRTVLKDG   68 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~---~~~~------------------~~~--------~~~~~~~t~~~~~~~~~~~~~   68 (173)
                      +..+|+++|-.++|||||+.+|+   |...                  +..        .-...+.|.........+ .+
T Consensus         5 ~~iNi~iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~-~~   83 (239)
T d1f60a3           5 SHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFET-PK   83 (239)
T ss_dssp             EEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEEC-SS
T ss_pred             CccEEEEEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhcceeccccceeEecc-CC
Confidence            34699999999999999998885   2110                  000        001135666666667777 88


Q ss_pred             ceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCH----HHHHHHHHHH--HHHcccccceEEE
Q 043441           69 QVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQ----EEEAALHSWQ--TLFGKKVFDYMIV  142 (173)
Q Consensus        69 ~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~----~~~~~~~~l~--~~~~~~~~~~~~i  142 (173)
                      .++.++||||..++       ..++.    ....-+|+.++|+++....-.    -..++.+.+.  ..++   ..++++
T Consensus        84 ~~i~iiDtPGH~df-------~~~~~----~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~~~~~~~g---v~~iiv  149 (239)
T d1f60a3          84 YQVTVIDAPGHRDF-------IKNMI----TGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTLG---VRQLIV  149 (239)
T ss_dssp             EEEEEEECCCCTTH-------HHHHH----HSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHTT---CCEEEE
T ss_pred             EEEEEEECCCcHHH-------HHHHH----HHHHHhCEEEEEEECCCCccccccCchHhHHHHHHHHHHcC---CCeEEE
Confidence            89999999999862       22333    566678999999999732100    0012222222  2222   156889


Q ss_pred             EEeCCCCCCCCc
Q 043441          143 VFTGGDELEDNE  154 (173)
Q Consensus       143 v~tk~D~~~~~~  154 (173)
                      ++||+|+...+.
T Consensus       150 ~iNKmD~~~~d~  161 (239)
T d1f60a3         150 AVNKMDSVKWDE  161 (239)
T ss_dssp             EEECGGGGTTCH
T ss_pred             EEECCCCCCCCH
Confidence            999999987653

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.37  E-value=9.2e-12  Score=83.79  Aligned_cols=118  Identities=13%  Similarity=0.054  Sum_probs=71.1

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVK   95 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~   95 (173)
                      .....+|+++|++|||||||+++|.+.......     .+.......... .+....++|+++.......          
T Consensus        10 ~~k~~kI~lvG~~~vGKTsLl~~l~~~~~~~~~-----~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~----------   73 (186)
T d1f6ba_          10 YKKTGKLVFLGLDNAGKTTLLHMLKDDRLGQHV-----PTLHPTSEELTI-AGMTFTTFDLGGHIQARRV----------   73 (186)
T ss_dssp             TTCCEEEEEEEETTSSHHHHHHHHSCC-----------CCCCCSCEEEEE-TTEEEEEEEECC----CCG----------
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHhCCCCccee-----cccccceeEEEe-cccccccccccchhhhhhH----------
Confidence            355689999999999999999999987642211     122222233444 6678889999987654322          


Q ss_pred             HHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcc--cccceEEEEEeCCCCCCC
Q 043441           96 CIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGK--KVFDYMIVVFTGGDELED  152 (173)
Q Consensus        96 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~  152 (173)
                       ........+.++++++..+......  ....+......  ....|++++.||.|+...
T Consensus        74 -~~~~~~~~~~~~~~~d~~d~~~~~~--~~~~~~~~~~~~~~~~~~~li~~~K~D~~~~  129 (186)
T d1f6ba_          74 -WKNYLPAINGIVFLVDCADHERLLE--SKEELDSLMTDETIANVPILILGNKIDRPEA  129 (186)
T ss_dssp             -GGGGGGGCSEEEEEEETTCGGGHHH--HHHHHHHHHTCGGGTTSCEEEEEECTTSTTC
T ss_pred             -HhhhhcccceeeeeeeccCccchHH--HHHHHHHhhcccccCCCceEEEEeccCcccc
Confidence             1245667789999999874433332  12222222211  234799999999998754

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.35  E-value=6e-12  Score=87.85  Aligned_cols=114  Identities=15%  Similarity=0.150  Sum_probs=79.5

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ..+|+++|..|||||||++.+.....     .   +|.......... ++..+.++|+.|.....           ..+.
T Consensus         6 ~~KilllG~~~vGKTsll~~~~~~~~-----~---pTiG~~~~~~~~-~~~~~~~~D~~Gq~~~r-----------~~w~   65 (221)
T d1azta2           6 THRLLLLGAGESGKSTIVKQMRILHV-----V---LTSGIFETKFQV-DKVNFHMFDVGGQRDER-----------RKWI   65 (221)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHHC-----C---CCCSCEEEEEEE-TTEEEEEEECCCSTTTT-----------TGGG
T ss_pred             cCEEEEECCCCCCHHHHHHHHhcCCc-----C---CCCCeEEEEEEE-CcEEEEEEecCccceec-----------cchh
Confidence            47899999999999999999853221     1   233344444555 88899999999977532           2223


Q ss_pred             hccCCceEEEEEeecCCC--------CCHHHHHHHHHHHHHHccc--ccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSR--------FPQEEEAALHSWQTLFGKK--VFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~--------~~~~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~  152 (173)
                      .+++.+++++++++.++.        -.....+..+.+..++...  ...|++|++||+|+.+.
T Consensus        66 ~~~~~~~~ii~v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~  129 (221)
T d1azta2          66 QCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAE  129 (221)
T ss_dssp             GGCTTCSEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHH
T ss_pred             hhcccccceEEEEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhh
Confidence            678899999999998621        1222345555666665554  33699999999998754

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.34  E-value=2.7e-12  Score=94.70  Aligned_cols=120  Identities=22%  Similarity=0.268  Sum_probs=78.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc--------------CCCCccceeeEEEEEEee---------------
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR--------------ASSSGVTSTCEMQRTVLK---------------   66 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~--------------~~~~~~t~~~~~~~~~~~---------------   66 (173)
                      .+..++|+++|..++|||||+.+|+........              -...+.|.........+.               
T Consensus        14 ~~~IRNI~iiGhvd~GKTTL~d~Ll~~~g~i~~~~~~~~~~~D~~~~E~eRgiTi~~~~~~l~~~~~~~~~~~~~~~~~~   93 (341)
T d1n0ua2          14 VTNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDG   93 (341)
T ss_dssp             GGGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCS
T ss_pred             cccCcEEEEEeCCCCcHHHHHHHHHHHCCCccccccccccccccchhHHhcCceEeCCEEEEEeccCcccccchhccccc
Confidence            345677999999999999999999621110000              011123333333333221               


Q ss_pred             CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeC
Q 043441           67 DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTG  146 (173)
Q Consensus        67 ~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk  146 (173)
                      +...+.++||||..++.       .+....+    +-+|+.++|+|+.+.+.......++...+.   .  .|+++++||
T Consensus        94 ~~~~inliDtPGh~dF~-------~ev~~al----~~~D~allVVda~eGv~~qT~~~~~~a~~~---~--~p~i~viNK  157 (341)
T d1n0ua2          94 NSFLINLIDSPGHVDFS-------SEVTAAL----RVTDGALVVVDTIEGVCVQTETVLRQALGE---R--IKPVVVINK  157 (341)
T ss_dssp             SEEEEEEECCCCCCSSC-------HHHHHHH----HTCSEEEEEEETTTBSCHHHHHHHHHHHHT---T--CEEEEEEEC
T ss_pred             cceEEEEEcCCCcHHHH-------HHHHHHH----hhcCceEEEEecccCcchhHHHHHHHHHHc---C--CCeEEEEEC
Confidence            12358899999999863       2344333    345999999999988888887776665553   2  789999999


Q ss_pred             CCCCC
Q 043441          147 GDELE  151 (173)
Q Consensus       147 ~D~~~  151 (173)
                      +|++.
T Consensus       158 iDr~~  162 (341)
T d1n0ua2         158 VDRAL  162 (341)
T ss_dssp             HHHHH
T ss_pred             ccccc
Confidence            99873

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=99.24  E-value=2.1e-11  Score=85.25  Aligned_cols=120  Identities=22%  Similarity=0.241  Sum_probs=71.2

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCcc-----------------------------ccCCCCccceeeEEEEEEeeCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFK-----------------------------SRASSSGVTSTCEMQRTVLKDG   68 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~-----------------------------~~~~~~~~t~~~~~~~~~~~~~   68 (173)
                      +..+|+++|-.++|||||+.+|+......                             ..-...+.+........++ ++
T Consensus         2 p~iNi~viGHVd~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~-~~   80 (224)
T d1jnya3           2 PHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFET-KK   80 (224)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEEC-SS
T ss_pred             CccEEEEEecCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCcccccccccccCchhhhcCCccccceEEEEec-CC
Confidence            34689999999999999999885311000                             0011233454555555566 77


Q ss_pred             ceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHH----HHHHHHHH--HHHcccccceEEE
Q 043441           69 QVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEE----EAALHSWQ--TLFGKKVFDYMIV  142 (173)
Q Consensus        69 ~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~----~~~~~~l~--~~~~~~~~~~~~i  142 (173)
                      ..+.++||||..+           +........+-+|+.++|+++.+......    .++.+.+.  ..++   ..++++
T Consensus        81 ~~i~iiDtPGH~d-----------f~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~~---~~~iIv  146 (224)
T d1jnya3          81 YFFTIIDAPGHRD-----------FVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMG---LDQLIV  146 (224)
T ss_dssp             CEEEECCCSSSTT-----------HHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTT---CTTCEE
T ss_pred             ceeEEeeCCCcHH-----------HHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHhC---CCceEE
Confidence            8999999999986           33333355667899999999985432211    12222222  2222   257899


Q ss_pred             EEeCCCCCCC
Q 043441          143 VFTGGDELED  152 (173)
Q Consensus       143 v~tk~D~~~~  152 (173)
                      ++||+|+...
T Consensus       147 ~iNK~D~~~~  156 (224)
T d1jnya3         147 AVNKMDLTEP  156 (224)
T ss_dssp             EEECGGGSSS
T ss_pred             EEEcccCCCc
Confidence            9999998753

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.24  E-value=2.7e-11  Score=82.24  Aligned_cols=111  Identities=11%  Similarity=0.083  Sum_probs=73.4

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ..+|+++|..|+|||||++.+......         |.......... ....+.+|||.|...           +.....
T Consensus         2 e~KivllG~~~vGKTsl~~r~~~~~~~---------t~~~~~~~~~~-~~~~~~i~D~~Gq~~-----------~~~~~~   60 (195)
T d1svsa1           2 EVKLLLLGAGESGKSTIVKQMKIIHEA---------GTGIVETHFTF-KDLHFKMFDVGGQRS-----------ERKKWI   60 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHSC---------CCSEEEEEEEE-TTEEEEEEEECCSGG-----------GGGGGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCCCC---------CccEEEEEEEe-eeeeeeeeccccccc-----------cccchh
Confidence            468999999999999999998653321         11122233444 778999999999663           344445


Q ss_pred             hccCCceEEEEEeecCCCCCH--------HHHHHHHHHHHHHccc--ccceEEEEEeCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQ--------EEEAALHSWQTLFGKK--VFDYMIVVFTGGDEL  150 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~--------~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~  150 (173)
                      .+++.+++++++++.++..+.        ........+.......  ...|+++++||.|..
T Consensus        61 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~  122 (195)
T d1svsa1          61 HCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLF  122 (195)
T ss_dssp             GGCTTCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHH
T ss_pred             hcccCCceeeeEEeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhh
Confidence            789999999999988632221        1223333333333221  236999999999864

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.22  E-value=5.3e-11  Score=81.04  Aligned_cols=115  Identities=12%  Similarity=0.042  Sum_probs=77.9

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      ..+|+++|..|||||||++.+.... +.     ..+|.......... ....+.+||+.|...           ......
T Consensus         2 e~Kiv~lG~~~vGKTsll~r~~~~~-~~-----~~pTiG~~~~~~~~-~~~~~~~~d~~g~~~-----------~~~~~~   63 (200)
T d2bcjq2           2 ELKLLLLGTGESGKSTFIKQMRIIH-GS-----GVPTTGIIEYPFDL-QSVIFRMVDVGGQRS-----------ERRKWI   63 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHT-SS-----CCCCCSCEEEEEEC-SSCEEEEEECCCSTT-----------GGGGGG
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCC-CC-----CCceeeEEEEEEec-cceeeeecccccccc-----------cccccc
Confidence            3689999999999999999997544 21     12344444445555 778999999999764           233334


Q ss_pred             hccCCceEEEEEeecCCCCC--------HHHHHHHHHHHHHHccc--ccceEEEEEeCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFP--------QEEEAALHSWQTLFGKK--VFDYMIVVFTGGDELE  151 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~--------~~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~  151 (173)
                      .+++.+++++++++.++...        ....+.++.+...+..+  ...|++++.||.|+..
T Consensus        64 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~  126 (200)
T d2bcjq2          64 HCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLE  126 (200)
T ss_dssp             GGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHH
T ss_pred             ccccccceeeEeeeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhhh
Confidence            67889999999999863221        12233444444444332  3369999999999763

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.17  E-value=1.5e-11  Score=90.20  Aligned_cols=88  Identities=15%  Similarity=-0.032  Sum_probs=43.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEE----EEEe-------------------eCCceEEEEeCC
Q 043441           21 TVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ----RTVL-------------------KDGQVVNVIDTP   77 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~----~~~~-------------------~~~~~~~v~Dtp   77 (173)
                      .|++||.+++|||||+|+|++.+....  .++.+|......    ....                   .....+.++|+|
T Consensus         2 ~v~lvG~pn~GKStlfn~lt~~~~~v~--nypftT~~pn~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~D~p   79 (319)
T d1wxqa1           2 EIGVVGKPNVGKSTFFSAATLVDVEIA--NYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVA   79 (319)
T ss_dssp             EEEEEECTTSSHHHHHHHHHC----------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC
T ss_pred             cEeEECCCCCCHHHHHHHHHCCCCchh--cCCCCcccCccceeeCCCCchhhhhhhccCccccccccccccccEEEEECC
Confidence            689999999999999999999765221  222223221110    0000                   012358999999


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecC
Q 043441           78 GLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVR  114 (173)
Q Consensus        78 G~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~  114 (173)
                      |+.......+..+.    .+-...+++|+++.|+++.
T Consensus        80 Gli~ga~~g~~~~~----~~l~~i~~~d~ii~VVd~~  112 (319)
T d1wxqa1          80 GLVPGAHEGRGLGN----KFLDDLRMASALIHVVDAT  112 (319)
T ss_dssp             -------------------CCCSSTTCSEEEEEEETT
T ss_pred             CcccchhcccchHH----HHHHhhccceEEEEEeccc
Confidence            99875443333333    3335677899999999985

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=99.14  E-value=6.9e-11  Score=84.90  Aligned_cols=72  Identities=21%  Similarity=0.308  Sum_probs=47.0

Q ss_pred             CCCCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHH
Q 043441           13 TSPSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFV   89 (173)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~   89 (173)
                      ........+++++|.+++|||||+|+|.+......+. .++.|...+...    .+..+.++||||+..+....+..
T Consensus       106 ~~~~~~~~~v~vvG~PNvGKSsliN~L~~~~~~~~~~-~pG~Tr~~~~i~----~~~~~~l~DTPGi~~p~~~~~~~  177 (273)
T d1puja_         106 KGVKPRAIRALIIGIPNVGKSTLINRLAKKNIAKTGD-RPGITTSQQWVK----VGKELELLDTPGILWPKFEDELV  177 (273)
T ss_dssp             TTCCCCCEEEEEEESTTSSHHHHHHHHHTSCCC-------------CCEE----ETTTEEEEECCCCCCSCCCCHHH
T ss_pred             ccCCCCceEEEEEecCccchhhhhhhhhccceEEECC-cccccccceEEE----CCCCeEEecCCCccccCCccHHH
Confidence            3345677899999999999999999999988655553 345666554432    45779999999998765544433

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.11  E-value=4.8e-11  Score=86.71  Aligned_cols=92  Identities=17%  Similarity=0.081  Sum_probs=64.5

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeC----------------CceEEEEeCCCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD----------------GQVVNVIDTPGLFD   81 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~----------------~~~~~v~DtpG~~~   81 (173)
                      ...++.+||.++||||||+|+|++...... ...+.+|.......+..++                ...+.++|.||+..
T Consensus         9 ~~~kiGivG~Pn~GKSTlfnalT~~~~~~~-anypftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv~   87 (296)
T d1ni3a1           9 NNLKTGIVGMPNVGKSTFFRAITKSVLGNP-ANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTK   87 (296)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHHSTTTST-TCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCCCCc-CCCCccCccCCeEEEeccccchhhhhhcccCCceecccceeeecccccc
Confidence            448899999999999999999997653211 2334444444333333311                13688999999998


Q ss_pred             CCCCcHHHHHHHHHHHHhccCCceEEEEEeecC
Q 043441           82 FSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVR  114 (173)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~  114 (173)
                      ..+.-..++.++...    .+.+|+++.|+++.
T Consensus        88 gA~~g~GLGn~fL~~----ir~~d~lihVV~~f  116 (296)
T d1ni3a1          88 GASTGVGLGNAFLSH----VRAVDAIYQVVRAF  116 (296)
T ss_dssp             CCCSSSSSCHHHHHH----HTTCSEEEEEEECC
T ss_pred             ccccccccHHHHHHH----hhccceeEEEEecc
Confidence            877777666677744    45669999999885

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.08  E-value=4.9e-11  Score=82.72  Aligned_cols=63  Identities=25%  Similarity=0.313  Sum_probs=40.5

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCC----Cc--cceeeEEEEEEeeCCceEEEEeCCCCCCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASS----SG--VTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~----~~--~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~   84 (173)
                      .+.+.+++|++|+|||||+|+|.+......+...    .+  .|+..+.+  .+  .....++||||+.+...
T Consensus        94 ~~kt~~~~G~SGVGKSTLiN~L~~~~~~~T~~vs~~~~rGrHTTt~~~l~--~l--~~gg~iiDTPG~r~~~l  162 (225)
T d1u0la2          94 KGKISTMAGLSGVGKSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQLL--KF--DFGGYVVDTPGFANLEI  162 (225)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHSTTCCCC-------------CCCSCCEE--EC--TTSCEEESSCSSTTCCC
T ss_pred             cCCeEEEECCCCCCHHHHHHhhcchhhhhccCcccccCCCCccccceeEE--EE--CCCcEEEeCCccccccc
Confidence            4578999999999999999999986554443211    12  22333232  22  23468999999987754

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.08  E-value=2.7e-10  Score=80.48  Aligned_cols=122  Identities=19%  Similarity=0.175  Sum_probs=63.2

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHh---CCCCcc--------------------------ccCCCCccceeeEEEEEEeeCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSIL---GRRAFK--------------------------SRASSSGVTSTCEMQRTVLKDG   68 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~---~~~~~~--------------------------~~~~~~~~t~~~~~~~~~~~~~   68 (173)
                      +..+|+++|-.++|||||+.+|+   |...-.                          ......+.+.........+ ..
T Consensus        23 ~~iNi~iiGHVD~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~-~~  101 (245)
T d1r5ba3          23 EHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFET-EH  101 (245)
T ss_dssp             EEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEEC-SS
T ss_pred             CceEEEEEeeCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCccchhhhhhhccccccccCcccccccccccc-cc
Confidence            34579999999999999999984   211000                          0001112333333333444 66


Q ss_pred             ceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHH----HHHHHHHHHHHHcccccceEEEEE
Q 043441           69 QVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQE----EEAALHSWQTLFGKKVFDYMIVVF  144 (173)
Q Consensus        69 ~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~~iv~  144 (173)
                      ..+.++||||..++           .........-+|+.++|+++.+..-..    ..++.+.+.-.... ...++++++
T Consensus       102 ~~i~~iDtPGH~df-----------~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~~-~i~~iiv~i  169 (245)
T d1r5ba3         102 RRFSLLDAPGHKGY-----------VTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQ-GINHLVVVI  169 (245)
T ss_dssp             EEEEECCCCC----------------------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHT-TCSSEEEEE
T ss_pred             ceeeeecccccccc-----------hhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHHc-CCCeEEEEE
Confidence            78999999998863           222224456779999999997432110    01222222221111 125688999


Q ss_pred             eCCCCCCC
Q 043441          145 TGGDELED  152 (173)
Q Consensus       145 tk~D~~~~  152 (173)
                      ||+|+...
T Consensus       170 NKmD~~~~  177 (245)
T d1r5ba3         170 NKMDEPSV  177 (245)
T ss_dssp             ECTTSTTC
T ss_pred             EcCCCCcc
Confidence            99998743

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=99.04  E-value=1.7e-10  Score=79.63  Aligned_cols=127  Identities=18%  Similarity=0.185  Sum_probs=71.0

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCC------------------CccceeeEEEEEE------------
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASS------------------SGVTSTCEMQRTV------------   64 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~------------------~~~t~~~~~~~~~------------   64 (173)
                      .+..+..++++|++|+||||.+-.|...-. ..+...                  .+.......+...            
T Consensus         7 ~~~~p~vi~lvGptGvGKTTTiAKLAa~~~-~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~~   85 (213)
T d1vmaa2           7 PPEPPFVIMVVGVNGTGKTTSCGKLAKMFV-DEGKSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDA   85 (213)
T ss_dssp             CSSSCEEEEEECCTTSSHHHHHHHHHHHHH-HTTCCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHH
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHHHHH-HCCCceEEEeecccccchhHHHHHHhhhcCccccccCCCCcHHHHHHHH
Confidence            456677899999999999999877753211 011000                  0000111111000            


Q ss_pred             ----eeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhcc----CCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccc
Q 043441           65 ----LKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAK----DGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKV  136 (173)
Q Consensus        65 ----~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~----~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~  136 (173)
                          ...+..+++|||||....   ......++........    ..++..++|+++..     ....+..+...+..- 
T Consensus        86 ~~~~~~~~~d~ilIDTaGr~~~---d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~-----~~~~~~~~~~~~~~~-  156 (213)
T d1vmaa2          86 VAHALARNKDVVIIDTAGRLHT---KKNLMEELRKVHRVVKKKIPDAPHETLLVIDATT-----GQNGLVQAKIFKEAV-  156 (213)
T ss_dssp             HHHHHHTTCSEEEEEECCCCSC---HHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGG-----HHHHHHHHHHHHHHS-
T ss_pred             HHHHHHcCCCEEEEeccccccc---hHHHHHHHHHHHhhhhhccccccceeEEeecccc-----Ccchhhhhhhhcccc-
Confidence                002456899999997753   3444445554444322    23677889999961     223333344443322 


Q ss_pred             cceEEEEEeCCCCCCC
Q 043441          137 FDYMIVVFTGGDELED  152 (173)
Q Consensus       137 ~~~~~iv~tk~D~~~~  152 (173)
                       ..--+++||.|+-..
T Consensus       157 -~~~~lI~TKlDe~~~  171 (213)
T d1vmaa2         157 -NVTGIILTKLDGTAK  171 (213)
T ss_dssp             -CCCEEEEECGGGCSC
T ss_pred             -CCceEEEecccCCCc
Confidence             567799999998754

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=99.04  E-value=6.7e-11  Score=85.19  Aligned_cols=88  Identities=17%  Similarity=0.061  Sum_probs=56.7

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeC----------------CceEEEEeCCCCCCCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD----------------GQVVNVIDTPGLFDFS   83 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~----------------~~~~~v~DtpG~~~~~   83 (173)
                      .+|.|||.+++|||||+|+|++...-  ...++.+|.......+..++                ...+.++|.||+....
T Consensus         3 ~~~GivG~Pn~GKSTlf~~lt~~~~~--~~~ypf~ti~pn~gvv~v~d~r~~~l~~~~~~~~~~~a~i~~~Di~GLi~ga   80 (278)
T d1jala1           3 FKCGIVGLPNVGKSTLFNALTKAGIE--AANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGA   80 (278)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC--------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTH
T ss_pred             ceEEEECCCCCCHHHHHHHHHCCCCc--cccCCCCCCCCceEEEecccHhHHHHHHhcCCCceeeeeEEEEEccccCCCc
Confidence            68999999999999999999986642  22223334333333333211                1247799999999765


Q ss_pred             CCcHHHHHHHHHHHHhccCCceEEEEEeec
Q 043441           84 AGSEFVGMEIVKCIGLAKDGIHAVLVGFSV  113 (173)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~  113 (173)
                      +.-+-++.++.+-    .+++|+++.|+++
T Consensus        81 ~~g~Glg~~FL~~----ir~~d~LihVVr~  106 (278)
T d1jala1          81 SKGEGLGNKFLAN----IRETDAIGHVVRC  106 (278)
T ss_dssp             HHHGGGTCCHHHH----HHTCSEEEEEEEC
T ss_pred             ccCCCccHHHHHH----HHhccceEEEeec
Confidence            4444455556644    4456999999986

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=99.03  E-value=3.5e-10  Score=77.68  Aligned_cols=78  Identities=14%  Similarity=0.058  Sum_probs=43.5

Q ss_pred             CceEEEEeCCCCCCCCCCcHHHHHHHHHHHHh-ccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeC
Q 043441           68 GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGL-AKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTG  146 (173)
Q Consensus        68 ~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk  146 (173)
                      +..+++|||||......+.-.....+.+.... ....++-+++|++++.. .....+........      ..--+++||
T Consensus        88 ~~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~-~~~~~~~~~~~~~~------~~~~lI~TK  160 (207)
T d1okkd2          88 GYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTG-QNGLEQAKKFHEAV------GLTGVIVTK  160 (207)
T ss_dssp             TCSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBC-THHHHHHHHHHHHH------CCSEEEEEC
T ss_pred             CCCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccC-chHHHHHHHhhhcc------CCceEEEec
Confidence            34789999999876432222222223333322 22356778889999733 22222332222222      456789999


Q ss_pred             CCCCCC
Q 043441          147 GDELED  152 (173)
Q Consensus       147 ~D~~~~  152 (173)
                      .|.-..
T Consensus       161 lDet~~  166 (207)
T d1okkd2         161 LDGTAK  166 (207)
T ss_dssp             TTSSCC
T ss_pred             cCCCCC
Confidence            998754

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=98.99  E-value=8e-10  Score=76.02  Aligned_cols=76  Identities=9%  Similarity=0.041  Sum_probs=43.5

Q ss_pred             CCceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeC
Q 043441           67 DGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTG  146 (173)
Q Consensus        67 ~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk  146 (173)
                      .+..+++|||||..... +......++.+.....  .++-+++|++++...  +....+....+.+     ..--+++||
T Consensus        93 ~~~d~IlIDTaGr~~~~-~~~~~~~el~~~~~~~--~~~~~~LVl~a~~~~--~~~~~~~~~~~~~-----~~~~lI~TK  162 (211)
T d1j8yf2          93 EKMEIIIVDTAGRHGYG-EEAALLEEMKNIYEAI--KPDEVTLVIDASIGQ--KAYDLASKFNQAS-----KIGTIIITK  162 (211)
T ss_dssp             TTCSEEEEECCCSCCTT-CHHHHHHHHHHHHHHH--CCSEEEEEEEGGGGG--GHHHHHHHHHHHC-----TTEEEEEEC
T ss_pred             cCCceEEEecCCcCccc-hhhHHHHHHHHHHhhc--CCceEEEEEecccCc--chHHHHhhhhccc-----CcceEEEec
Confidence            34578999999986532 2223344555554443  356788888886332  2222222222221     345688999


Q ss_pred             CCCCCC
Q 043441          147 GDELED  152 (173)
Q Consensus       147 ~D~~~~  152 (173)
                      .|+-..
T Consensus       163 lDet~~  168 (211)
T d1j8yf2         163 MDGTAK  168 (211)
T ss_dssp             TTSCSC
T ss_pred             ccCCCc
Confidence            998754

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=98.97  E-value=9.3e-11  Score=81.58  Aligned_cols=62  Identities=32%  Similarity=0.420  Sum_probs=36.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCC----Cc--cceeeEEEEEEeeCCceEEEEeCCCCCCCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASS----SG--VTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~----~~--~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~   84 (173)
                      .+.+.+++|++|+|||||+|+|++......+...    .+  .|+....+  .. .+  ..++||||+.+...
T Consensus        96 ~~~~~vl~G~SGVGKSSLiN~L~~~~~~~t~~vs~~~~rGrHTTt~~~l~--~~-~g--g~iiDTPG~r~~~l  163 (231)
T d1t9ha2          96 QDKTTVFAGQSGVGKSSLLNAISPELGLRTNEISEHLGRGKHTTRHVELI--HT-SG--GLVADTPGFSSLEF  163 (231)
T ss_dssp             TTSEEEEEESHHHHHHHHHHHHCC-------------------CCCCCEE--EE-TT--EEEESSCSCSSCCC
T ss_pred             ccceEEEECCCCccHHHHHHhhccHhHhhhcccccccCCCceeeeeEEEE--ec-CC--CEEEECCccccccc
Confidence            3567889999999999999999986544433211    22  22222222  22 33  46999999987754

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=98.91  E-value=3.3e-10  Score=77.91  Aligned_cols=75  Identities=15%  Similarity=0.142  Sum_probs=43.8

Q ss_pred             CceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhc----cCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEE
Q 043441           68 GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLA----KDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVV  143 (173)
Q Consensus        68 ~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~----~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv  143 (173)
                      +..+++|||||....   .....+++.++....    ...++.+++|+++...  .++   +..+...+..-  ..--++
T Consensus        91 ~~d~ilIDTaGr~~~---d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~--~~~---~~~~~~~~~~~--~~~~lI  160 (211)
T d2qy9a2          91 NIDVLIADTAGRLQN---KSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTG--QNA---VSQAKLFHEAV--GLTGIT  160 (211)
T ss_dssp             TCSEEEECCCCCGGG---HHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGT--HHH---HHHHHHHHHHS--CCCEEE
T ss_pred             CCCEEEeccCCCccc---cHHHHHHHHHHHHHHhhhcccCcceeeeehhcccC--cch---HHHHhhhhhcc--CCceEE
Confidence            346899999997642   244455555444332    1235678889998622  222   22233332211  567799


Q ss_pred             EeCCCCCCC
Q 043441          144 FTGGDELED  152 (173)
Q Consensus       144 ~tk~D~~~~  152 (173)
                      +||.|.-..
T Consensus       161 lTKlDe~~~  169 (211)
T d2qy9a2         161 LTKLDGTAK  169 (211)
T ss_dssp             EECCTTCTT
T ss_pred             EeecCCCCC
Confidence            999999754

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=98.89  E-value=1.9e-09  Score=75.05  Aligned_cols=33  Identities=36%  Similarity=0.395  Sum_probs=28.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -+++..++++|++|||||||++.|.|.....+|
T Consensus        23 i~~Gei~~liGpsGsGKSTLl~~i~Gl~~p~sG   55 (232)
T d2awna2          23 IHEGEFVVFVGPSGCGKSTLLRMIAGLETITSG   55 (232)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEE
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhcCCCCCCC
Confidence            357789999999999999999999997765554

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=98.86  E-value=6.6e-09  Score=72.55  Aligned_cols=78  Identities=14%  Similarity=0.026  Sum_probs=42.6

Q ss_pred             ceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCC
Q 043441           69 QVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGD  148 (173)
Q Consensus        69 ~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D  148 (173)
                      ..+.++|+||..+..    .........+.  ....+.+++++++.........................+.++++||+|
T Consensus        95 ~~~~~id~~g~~~~~----~~~~~~~~~~~--~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~~~~~~~ivvinK~D  168 (244)
T d1yrba1          95 NDYVLIDTPGQMETF----LFHEFGVRLME--NLPYPLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVD  168 (244)
T ss_dssp             CSEEEEECCSSHHHH----HHSHHHHHHHH--TSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGG
T ss_pred             cceeeeccccchhHH----HHHHHHHHHHh--hccCceEEEEeccccccCchhHhhHHHHHHHHHHHhCCCceeeeeccc
Confidence            358999999987421    11111111111  224567888888874444443222222222111123368999999999


Q ss_pred             CCCC
Q 043441          149 ELED  152 (173)
Q Consensus       149 ~~~~  152 (173)
                      +...
T Consensus       169 ~~~~  172 (244)
T d1yrba1         169 LLSE  172 (244)
T ss_dssp             GCCH
T ss_pred             cccH
Confidence            9975

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=98.86  E-value=1.2e-08  Score=71.23  Aligned_cols=127  Identities=13%  Similarity=0.059  Sum_probs=72.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEE---EEEEeeCCceEEEEeCCCCCCCCCCcHHH----
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM---QRTVLKDGQVVNVIDTPGLFDFSAGSEFV----   89 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~---~~~~~~~~~~~~v~DtpG~~~~~~~~~~~----   89 (173)
                      +++..++++|++||||||+++.|.|...+.+|............   ..........-++...|.+++...-.+.+    
T Consensus        27 ~~Ge~~~liG~sGaGKSTll~~i~gl~~p~sG~I~~~g~~i~~~~~~~~~~~~~r~ig~v~Q~~~L~~~ltV~eni~~~~  106 (240)
T d1g2912          27 KDGEFMILLGPSGCGKTTTLRMIAGLEEPSRGQIYIGDKLVADPEKGIFVPPKDRDIAMVFQSYALYPHMTVYDNIAFPL  106 (240)
T ss_dssp             ETTCEEEEECSTTSSHHHHHHHHHTSSCCSEEEEEETTEEEEEGGGTEECCGGGSSEEEECSCCCCCTTSCHHHHHHHHH
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcCCCCCCCEEEECCEEecccchhhhcccccccceecccchhhcchhhhhHhhhhhH
Confidence            56789999999999999999999998765555433222111110   00000012233455556776543211111    


Q ss_pred             -------------------------------------HHHHHHHHHhccCCceEEEEEeecCCCCCHHHH-HHHHHHHHH
Q 043441           90 -------------------------------------GMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEE-AALHSWQTL  131 (173)
Q Consensus        90 -------------------------------------~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~-~~~~~l~~~  131 (173)
                                                           .++...++.....+|+.+++--+.+ .++.... ...+.+.++
T Consensus       107 ~~~~~~~~e~~~~v~~~l~~~~l~~~~~~~p~~LSGGqkQRv~IAraL~~~P~iLllDEPt~-~LD~~~~~~i~~~l~~l  185 (240)
T d1g2912         107 KLRKVPRQEIDQRVREVAELLGLTELLNRKPRELSGGQRQRVALGRAIVRKPQVFLMDEPLS-NLDAKLRVRMRAELKKL  185 (240)
T ss_dssp             HHTTCCHHHHHHHHHHHHHHHTCGGGTTCCGGGSCHHHHHHHHHHHHHHTCCSEEEEECTTT-TSCHHHHHHHHHHHHHH
T ss_pred             HHcCCCHHHHHHHHHHHHHHcCChhHhcCChhhCCHHHHHHHHHHHHHhcCCCEEEecCCCc-ccCHHHHHHHHHHHHHH
Confidence                                                 3444445556677788766654444 7777753 444555554


Q ss_pred             HcccccceEEEEEeC
Q 043441          132 FGKKVFDYMIVVFTG  146 (173)
Q Consensus       132 ~~~~~~~~~~iv~tk  146 (173)
                      ....  .-.+|++||
T Consensus       186 ~~~~--g~tvi~vTH  198 (240)
T d1g2912         186 QRQL--GVTTIYVTH  198 (240)
T ss_dssp             HHHH--TCEEEEEES
T ss_pred             Hhcc--CCEEEEEcC
Confidence            3322  457888888

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=98.85  E-value=5.5e-09  Score=73.00  Aligned_cols=33  Identities=24%  Similarity=0.274  Sum_probs=28.2

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++++|++||||||+++.|.|...+.+|
T Consensus        29 v~~Ge~~~liGpsGaGKSTLl~~i~Gl~~p~sG   61 (239)
T d1v43a3          29 IKDGEFLVLLGPSGCGKTTTLRMIAGLEEPTEG   61 (239)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHHTSSCCSEE
T ss_pred             ECCCCEEEEECCCCChHHHHHHHHHcCCCCCCC
Confidence            356788999999999999999999997765555

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=98.83  E-value=7.2e-09  Score=70.80  Aligned_cols=32  Identities=22%  Similarity=0.118  Sum_probs=27.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++..++++|++|||||||++.|+|...+.+|
T Consensus        25 ~~Gei~~l~G~NGsGKSTLl~~i~gl~~p~~G   56 (200)
T d1sgwa_          25 EKGNVVNFHGPNGIGKTTLLKTISTYLKPLKG   56 (200)
T ss_dssp             ETTCCEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhcccccCCC
Confidence            56778999999999999999999997655444

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=98.81  E-value=1.7e-08  Score=70.56  Aligned_cols=128  Identities=12%  Similarity=0.041  Sum_probs=72.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEE--EEeeCCceEEEEeCCCCCCCCCCcHHH----
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQR--TVLKDGQVVNVIDTPGLFDFSAGSEFV----   89 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~--~~~~~~~~~~v~DtpG~~~~~~~~~~~----   89 (173)
                      -+++..++++|++|||||||++.|.|...+.+|..............  ........-++...|.+++...-.+.+    
T Consensus        28 i~~Ge~~~iiG~sGsGKSTll~~i~gl~~p~~G~I~~~g~~i~~~~~~~~~~~rr~ig~vfQ~~~L~p~ltv~eni~~~l  107 (242)
T d1oxxk2          28 IENGERFGILGPSGAGKTTFMRIIAGLDVPSTGELYFDDRLVASNGKLIVPPEDRKIGMVFQTWALYPNLTAFENIAFPL  107 (242)
T ss_dssp             ECTTCEEEEECSCHHHHHHHHHHHHTSSCCSEEEEEETTEEEEETTEESSCGGGSCEEEEETTSCCCTTSCHHHHHHGGG
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHHcCcCCCCceEEECCEEeecCchhhcchhhccceEEeccccccccccHHHHhhhhh
Confidence            45678999999999999999999999876655543322221111000  000011234455556666432111111    


Q ss_pred             -------------------------------------HHHHHHHHHhccCCceEEEEEeecCCCCCHHH-HHHHHHHHHH
Q 043441           90 -------------------------------------GMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEE-EAALHSWQTL  131 (173)
Q Consensus        90 -------------------------------------~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~  131 (173)
                                                           .++....+.....+|+.+++--+.+ .++... ...++.+.++
T Consensus       108 ~~~~~~~~~~~~~v~~~l~~~gL~~~~~~~p~~LSGGqkQRvaiARaL~~~P~llllDEPt~-~LD~~~~~~i~~~i~~l  186 (242)
T d1oxxk2         108 TNMKMSKEEIRKRVEEVAKILDIHHVLNHFPRELSGAQQQRVALARALVKDPSLLLLDEPFS-NLDARMRDSARALVKEV  186 (242)
T ss_dssp             TTSSCCHHHHHHHHHHHHHHTTCGGGTTSCGGGSCHHHHHHHHHHHHHTTCCSEEEEESTTT-TSCGGGHHHHHHHHHHH
T ss_pred             HhhcCCHHHHHHHHHHHHhhcChHhhhhCChhhCCHHHHhHHHHHhHHhhcccceeecCCcc-CCCHHHHHHHHHHHHHH
Confidence                                                 3444445555677788766544444 777664 4555555554


Q ss_pred             HcccccceEEEEEeC
Q 043441          132 FGKKVFDYMIVVFTG  146 (173)
Q Consensus       132 ~~~~~~~~~~iv~tk  146 (173)
                      ....  .-++|++||
T Consensus       187 ~~~~--g~tvi~vTH  199 (242)
T d1oxxk2         187 QSRL--GVTLLVVSH  199 (242)
T ss_dssp             HHHH--CCEEEEEES
T ss_pred             Hhcc--CCEEEEEEC
Confidence            3322  458888898

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=98.79  E-value=2.1e-09  Score=75.53  Aligned_cols=34  Identities=18%  Similarity=0.169  Sum_probs=29.0

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .-+++..++++|++|||||||++.|+|...+.+|
T Consensus        24 ~i~~Ge~vaivG~sGsGKSTLl~ll~gl~~p~~G   57 (242)
T d1mv5a_          24 EAQPNSIIAFAGPSGGGKSTIFSLLERFYQPTAG   57 (242)
T ss_dssp             EECTTEEEEEECCTTSSHHHHHHHHTTSSCCSBS
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHHHhhCCCCC
Confidence            3467889999999999999999999997765554

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=98.79  E-value=5.2e-09  Score=71.74  Aligned_cols=73  Identities=18%  Similarity=0.168  Sum_probs=45.9

Q ss_pred             CceEEEEeCCCCCCCCCCcHHHHHHHHHHHHhccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCC
Q 043441           68 GQVVNVIDTPGLFDFSAGSEFVGMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGG  147 (173)
Q Consensus        68 ~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~  147 (173)
                      +..+++|||||....   ......++..+....  .++-+++|+++...  .+....++...+.+     ..--+++||.
T Consensus        92 ~~d~vlIDTaGr~~~---d~~~~~el~~~~~~~--~~~~~llv~~a~~~--~~~~~~~~~f~~~~-----~~~~~I~TKl  159 (207)
T d1ls1a2          92 ARDLILVDTAGRLQI---DEPLMGELARLKEVL--GPDEVLLVLDAMTG--QEALSVARAFDEKV-----GVTGLVLTKL  159 (207)
T ss_dssp             TCCEEEEECCCCSSC---CHHHHHHHHHHHHHH--CCSEEEEEEEGGGT--HHHHHHHHHHHHHT-----CCCEEEEECG
T ss_pred             cCcceeecccccchh---hhhhHHHHHHHHhhc--CCceEEEEeccccc--hhHHHHHHHHHhhC-----CCCeeEEeec
Confidence            347899999998753   345556666655443  45778888888622  33333333333332     3456899999


Q ss_pred             CCCCC
Q 043441          148 DELED  152 (173)
Q Consensus       148 D~~~~  152 (173)
                      |.-..
T Consensus       160 De~~~  164 (207)
T d1ls1a2         160 DGDAR  164 (207)
T ss_dssp             GGCSS
T ss_pred             Ccccc
Confidence            98654

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=98.79  E-value=2.2e-09  Score=75.38  Aligned_cols=33  Identities=24%  Similarity=0.218  Sum_probs=28.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -+++..++++|++|||||||++.|+|...+.+|
T Consensus        26 i~~Ge~vaIvG~sGsGKSTLl~ll~gl~~p~~G   58 (241)
T d2pmka1          26 IKQGEVIGIVGRSGSGKSTLTKLIQRFYIPENG   58 (241)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHHhcCCCCCC
Confidence            357789999999999999999999997655444

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=98.79  E-value=2.7e-09  Score=75.46  Aligned_cols=33  Identities=30%  Similarity=0.378  Sum_probs=28.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -+++..++|+|++|||||||++.|+|...+..|
T Consensus        38 i~~Ge~iaivG~sGsGKSTLl~ll~gl~~p~~G   70 (253)
T d3b60a1          38 IPAGKTVALVGRSGSGKSTIASLITRFYDIDEG   70 (253)
T ss_dssp             ECTTCEEEEEECTTSSHHHHHHHHTTTTCCSEE
T ss_pred             EcCCCEEEEECCCCChHHHHHHHHhcccCCCcc
Confidence            457789999999999999999999997655444

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.78  E-value=3.5e-09  Score=74.77  Aligned_cols=33  Identities=18%  Similarity=0.171  Sum_probs=28.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -+++..++++|++|||||||++.|+|...+.+|
T Consensus        37 i~~Ge~vaivG~sGsGKSTLl~li~gl~~p~~G   69 (251)
T d1jj7a_          37 LRPGEVTALVGPNGSGKSTVAALLQNLYQPTGG   69 (251)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHhcccCCCcC
Confidence            367889999999999999999999997765544

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=98.78  E-value=6.9e-09  Score=72.76  Aligned_cols=33  Identities=24%  Similarity=0.314  Sum_probs=28.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++++|++||||||+++.|+|...+.+|
T Consensus        29 i~~Gei~~liGpnGaGKSTl~~~i~Gl~~p~~G   61 (240)
T d1ji0a_          29 VPRGQIVTLIGANGAGKTTTLSAIAGLVRAQKG   61 (240)
T ss_dssp             EETTCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHhCCCCCCcc
Confidence            356789999999999999999999997765555

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=98.77  E-value=1.1e-08  Score=71.64  Aligned_cols=33  Identities=21%  Similarity=0.113  Sum_probs=28.5

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|+|...+.+|
T Consensus        25 v~~Gei~glvG~nGaGKSTLl~~l~G~~~p~~G   57 (238)
T d1vpla_          25 IEEGEIFGLIGPNGAGKTTTLRIISTLIKPSSG   57 (238)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             EcCCCEEEEECCCCCCHHHHHHHHhcCCCCCCC
Confidence            356789999999999999999999998765555

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=98.76  E-value=8.3e-09  Score=71.60  Aligned_cols=125  Identities=14%  Similarity=0.086  Sum_probs=70.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHH------
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFV------   89 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~------   89 (173)
                      -.++..++++|++||||||+++.|.|...+.+|..............  . ....-++..-|.++....-.+.+      
T Consensus        23 i~~Ge~~~liGpsGaGKSTll~~l~Gl~~p~sG~I~~~G~~i~~~~~--~-~r~ig~v~Q~~~l~~~~tV~enl~~~~~~   99 (229)
T d3d31a2          23 VESGEYFVILGPTGAGKTLFLELIAGFHVPDSGRILLDGKDVTDLSP--E-KHDIAFVYQNYSLFPHMNVKKNLEFGMRM   99 (229)
T ss_dssp             ECTTCEEEEECCCTHHHHHHHHHHHTSSCCSEEEEEETTEECTTSCH--H-HHTCEEECTTCCCCTTSCHHHHHHHHHHH
T ss_pred             ECCCCEEEEECCCCCcHHHHHHHHhcCcCCCCCEEEEccEeccccch--h-HhcceeeccccccCccccHHHHHHHHHhh
Confidence            46778999999999999999999999776555432221111000000  0 11123344445555432211111      


Q ss_pred             --------------------------------HHHHHHHHHhccCCceEEEEEeecCCCCCHHHH-HHHHHHHHHHcccc
Q 043441           90 --------------------------------GMEIVKCIGLAKDGIHAVLVGFSVRSRFPQEEE-AALHSWQTLFGKKV  136 (173)
Q Consensus        90 --------------------------------~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~-~~~~~l~~~~~~~~  136 (173)
                                                      .++....+.....+|..+++--+.+ .++.... ...+.+.++.... 
T Consensus       100 ~~~~~~~~~~~~l~~~~l~~~~~~~~~~LSGG~~QRvaiAraL~~~P~iLllDEPts-~LD~~~~~~i~~~l~~l~~~~-  177 (229)
T d3d31a2         100 KKIKDPKRVLDTARDLKIEHLLDRNPLTLSGGEQQRVALARALVTNPKILLLDEPLS-ALDPRTQENAREMLSVLHKKN-  177 (229)
T ss_dssp             HCCCCHHHHHHHHHHTTCTTTTTSCGGGSCHHHHHHHHHHHHTTSCCSEEEEESSST-TSCHHHHHHHHHHHHHHHHHT-
T ss_pred             ccccHHHHHHHHHHHhcchhhHhCChhhCCHHHhcchhhhhhhhccCCceeecCCCc-CCCHHHHHHHHHHHHHHHhcC-
Confidence                                            4444455566777888777655555 7777654 4444455543322 


Q ss_pred             cceEEEEEeC
Q 043441          137 FDYMIVVFTG  146 (173)
Q Consensus       137 ~~~~~iv~tk  146 (173)
                       .-++|++||
T Consensus       178 -g~tii~vtH  186 (229)
T d3d31a2         178 -KLTVLHITH  186 (229)
T ss_dssp             -TCEEEEEES
T ss_pred             -CcEEEEEcC
Confidence             457888888

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=98.67  E-value=2.5e-08  Score=69.31  Aligned_cols=34  Identities=24%  Similarity=0.117  Sum_probs=28.6

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .-+.+-.++++|++|||||||++.|.|...+.+|
T Consensus        27 ~i~~Ge~~~iiG~sGsGKSTLl~~i~gl~~p~sG   60 (230)
T d1l2ta_          27 NIKEGEFVSIMGPSGSGKSTMLNIIGCLDKPTEG   60 (230)
T ss_dssp             EECTTCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             EEcCCCEEEEECCCCCCcchhhHhccCCCCCCcc
Confidence            3467789999999999999999999997765554

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=98.66  E-value=1.4e-08  Score=70.81  Aligned_cols=30  Identities=30%  Similarity=0.267  Sum_probs=25.3

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRAFKSRA   49 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~~~~~~   49 (173)
                      -.++++|++|||||||++.|.|...+.+|.
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~~p~~G~   54 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIVKPDRGE   54 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSSCCSEEE
T ss_pred             EEEEEECCCCChHHHHHHHHHcCCCCCceE
Confidence            477899999999999999999977655543

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=98.65  E-value=7.3e-09  Score=73.21  Aligned_cols=33  Identities=36%  Similarity=0.307  Sum_probs=28.1

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -+++.+++++|++|||||||++.|+|...+..|
T Consensus        41 i~~Ge~vaivG~sGsGKSTLl~ll~gl~~p~~G   73 (255)
T d2hyda1          41 IEKGETVAFVGMSGGGKSTLINLIPRFYDVTSG   73 (255)
T ss_dssp             ECTTCEEEEECSTTSSHHHHHTTTTTSSCCSEE
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHHhcCCcccc
Confidence            357789999999999999999999997765444

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=98.58  E-value=3.1e-08  Score=69.19  Aligned_cols=34  Identities=15%  Similarity=0.039  Sum_probs=28.4

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .-..+..++++|++||||||+++.|.|...+.+|
T Consensus        27 ~i~~Ge~~~iiG~sGsGKSTLl~~i~Gl~~p~sG   60 (240)
T d3dhwc1          27 HVPAGQIYGVIGASGAGKSTLIRCVNLLERPTEG   60 (240)
T ss_dssp             EECSSCEEEEEESTTSSHHHHHHHHTTSSCCSEE
T ss_pred             EEcCCCEEEEECCCCCCHHHHHHHHcCCccccCC
Confidence            3467789999999999999999999997755444

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=98.55  E-value=2.3e-07  Score=65.46  Aligned_cols=33  Identities=18%  Similarity=0.158  Sum_probs=28.1

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      -.++..++|+|++|||||||++.|.|...+.+|
T Consensus        25 i~~GEi~~iiG~sGsGKSTLl~~i~Gl~~p~~G   57 (258)
T d1b0ua_          25 ARAGDVISIIGSSGSGKSTFLRCINFLEKPSEG   57 (258)
T ss_dssp             ECTTCEEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             EcCCCEEEEECCCCCcHHHHHHHHHcCccCCCC
Confidence            357789999999999999999999997765444

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=98.55  E-value=2.4e-08  Score=70.53  Aligned_cols=34  Identities=26%  Similarity=0.282  Sum_probs=28.7

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      .-.++..++|+|++|||||||++.|+|...+.+|
T Consensus        26 ~v~~Gei~~liG~nGaGKSTLl~~i~Gl~~p~~G   59 (254)
T d1g6ha_          26 SVNKGDVTLIIGPNGSGKSTLINVITGFLKADEG   59 (254)
T ss_dssp             EEETTCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             EECCCCEEEEECCCCCcHHHHHHHHHCCCcCCCc
Confidence            3456788999999999999999999998765554

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.42  E-value=5.7e-07  Score=64.24  Aligned_cols=32  Identities=25%  Similarity=0.291  Sum_probs=27.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSR   48 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~   48 (173)
                      +++..++|+|++|||||||++.|+|......|
T Consensus        60 ~~Ge~vaivG~nGsGKSTLl~~i~Gl~~p~~G   91 (281)
T d1r0wa_          60 EKGEMLAITGSTGSGKTSLLMLILGELEASEG   91 (281)
T ss_dssp             CTTCEEEEEESTTSSHHHHHHHHHTSSCCSEE
T ss_pred             cCCCEEEEECCCCChHHHHHHHHhCCCcCCCc
Confidence            57788999999999999999999997655444

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.30  E-value=1.5e-06  Score=57.30  Aligned_cols=25  Identities=24%  Similarity=0.445  Sum_probs=21.8

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRRA   44 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~~   44 (173)
                      .+|+|+|++|+|||||++.+++.-.
T Consensus         1 ~ki~I~G~~G~GKSTLl~~i~~~l~   25 (178)
T d1ye8a1           1 MKIIITGEPGVGKTTLVKKIVERLG   25 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHG
T ss_pred             CEEEEECCCCcHHHHHHHHHHhcCC
Confidence            3799999999999999999987543

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.29  E-value=3.3e-06  Score=60.09  Aligned_cols=69  Identities=26%  Similarity=0.293  Sum_probs=46.1

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCC-ccccCCCCccceeeEEEEEEe--eCCceEEEEeCCCCCCCC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRA-FKSRASSSGVTSTCEMQRTVL--KDGQVVNVIDTPGLFDFS   83 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~-~~~~~~~~~~t~~~~~~~~~~--~~~~~~~v~DtpG~~~~~   83 (173)
                      ...+...|.++|+.++|||+|+|.|++... |..+......|...-......  ..+..++++||.|+.+..
T Consensus        28 ~~~~v~vvsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~~~~~~~~~~~lDteG~~~~~   99 (277)
T d1f5na2          28 ITQPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGDVE   99 (277)
T ss_dssp             CCSBEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCCGG
T ss_pred             CCCCEEEEEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeeccCCCCceEEEEecccccccc
Confidence            345678999999999999999999998653 333333333444433222221  144579999999998753

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=98.16  E-value=6e-07  Score=62.36  Aligned_cols=27  Identities=26%  Similarity=0.340  Sum_probs=24.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      ..+..++++|++|||||||++.|.|..
T Consensus        23 ~~Gei~~iiG~nGaGKSTLl~~l~Gl~   49 (231)
T d1l7vc_          23 RAGEILHLVGPNGAGKSTLLARMAGMT   49 (231)
T ss_dssp             ETTCEEECBCCTTSSHHHHHHHHHTSC
T ss_pred             cCCCEEEEECCCCCcHHHHHHHHhCCC
Confidence            467889999999999999999999965

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=98.11  E-value=7.3e-06  Score=56.37  Aligned_cols=26  Identities=27%  Similarity=0.411  Sum_probs=22.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ++.+.+++.|.-|||||||++.++..
T Consensus         1 ~~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           1 NPIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CCEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            35688999999999999999999864

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.89  E-value=7e-06  Score=57.95  Aligned_cols=113  Identities=12%  Similarity=0.088  Sum_probs=60.4

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ....++|||++|+|||+++..|...-.  .+..+..           . .+..++-+|...+.........+...+...+
T Consensus        38 ~k~n~lLVG~~GvGKTalv~~la~ri~--~~~vp~~-----------l-~~~~i~~l~~~~liag~~~~g~~e~r~~~i~  103 (268)
T d1r6bx2          38 RKNNPLLVGESGVGKTAIAEGLAWRIV--QGDVPEV-----------M-ADCTIYSLDIGSLLAGTKYRGDFEKRFKALL  103 (268)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHHHH--HTCSCGG-----------G-TTCEEEECCCC---CCCCCSSCHHHHHHHHH
T ss_pred             ccCCcEEECCCCCcHHHHHHHHHHHHH--hCCcccc-----------c-ccceeEEeeechHhccCccchhHHHHHHHHH
Confidence            446789999999999999999876442  1211110           0 4455666666666655444455555666555


Q ss_pred             HhccCCceEEEEEeecCCCC-----CHHHHHHHHHHHHHHcccccceEEEEEeC
Q 043441           98 GLAKDGIHAVLVGFSVRSRF-----PQEEEAALHSWQTLFGKKVFDYMIVVFTG  146 (173)
Q Consensus        98 ~~~~~~~~~ii~v~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~~iv~tk  146 (173)
                      .......+.|+|+-+...-+     +.......+.++..+...  .--+|..|-
T Consensus       104 ~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~rg--~i~vIgatT  155 (268)
T d1r6bx2         104 KQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSG--KIRVIGSTT  155 (268)
T ss_dssp             HHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSC--CCEEEEEEC
T ss_pred             HHhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHhCC--CCeEEEeCC
Confidence            55444445555544443111     122445666666555432  333444443

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.88  E-value=3.8e-06  Score=54.73  Aligned_cols=22  Identities=18%  Similarity=0.386  Sum_probs=20.3

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +.++++|.+|||||||++.|+.
T Consensus         3 Pvi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           3 PLLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            5799999999999999999974

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.79  E-value=4.7e-06  Score=54.90  Aligned_cols=23  Identities=30%  Similarity=0.463  Sum_probs=21.1

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .++|+|.|++|+||||+.+.|..
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            47899999999999999999964

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.76  E-value=9.6e-07  Score=59.84  Aligned_cols=23  Identities=22%  Similarity=0.346  Sum_probs=20.4

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +..|+++|.+||||||+.+.|..
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            35689999999999999999975

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.74  E-value=1.1e-05  Score=52.64  Aligned_cols=27  Identities=19%  Similarity=0.347  Sum_probs=23.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .+.+.+|+|.|++||||||+.+.|...
T Consensus         2 ~pk~~~I~i~G~~GsGKTT~~~~La~~   28 (174)
T d1y63a_           2 QPKGINILITGTPGTGKTSMAEMIAAE   28 (174)
T ss_dssp             CCSSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            356789999999999999999999653

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.68  E-value=7e-06  Score=54.53  Aligned_cols=23  Identities=26%  Similarity=0.629  Sum_probs=20.5

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      +.|+|+||+|+||+|+++.|+..
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHh
Confidence            46899999999999999999854

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.67  E-value=1e-05  Score=52.62  Aligned_cols=23  Identities=22%  Similarity=0.572  Sum_probs=20.3

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      -++|+|.|++||||||+.+.|..
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            36799999999999999999954

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=97.66  E-value=1.5e-05  Score=53.08  Aligned_cols=25  Identities=20%  Similarity=0.307  Sum_probs=22.0

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +++.+|+|+|++||||||+.+.|..
T Consensus         1 p~~~riil~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           1 PKGVRAVLLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999999873

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=97.65  E-value=1.5e-05  Score=50.96  Aligned_cols=22  Identities=23%  Similarity=0.521  Sum_probs=19.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..|++.|++||||||+.+.|..
T Consensus         3 klIii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999998864

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.64  E-value=1.9e-05  Score=51.55  Aligned_cols=26  Identities=19%  Similarity=0.248  Sum_probs=22.7

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..++..|+|+|.+||||||+.+.|..
T Consensus         3 ~~~g~~I~l~G~~GsGKTTia~~La~   28 (183)
T d1m8pa3           3 ATQGFTIFLTGYMNSGKDAIARALQV   28 (183)
T ss_dssp             TTCCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            45678899999999999999998864

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.63  E-value=2.1e-05  Score=52.64  Aligned_cols=30  Identities=17%  Similarity=0.343  Sum_probs=25.1

Q ss_pred             CCCCCccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           14 SPSNGVRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      .+++..+.|+|+|++||||||+...|....
T Consensus         3 ~~~~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           3 FSPDQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             SCTTTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            345678899999999999999999997643

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.62  E-value=1.4e-05  Score=53.54  Aligned_cols=83  Identities=17%  Similarity=0.121  Sum_probs=51.6

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCI   97 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~   97 (173)
                      ....+++||++|+|||+++..|...-.  .+..+.           .+ .+..++-+|...+.....-..++..++...+
T Consensus        42 ~k~n~lLvG~pGVGKTalv~~LA~ri~--~~~vp~-----------~L-~~~~i~~ld~~~LiAg~~~rG~~E~rl~~il  107 (195)
T d1jbka_          42 TKNNPVLIGEPGVGKTAIVEGLAQRII--NGEVPE-----------GL-KGRRVLALDMGALVAGAKYRGEFEERLKGVL  107 (195)
T ss_dssp             SSCEEEEECCTTSCHHHHHHHHHHHHH--HTCSCG-----------GG-TTCEEEEECHHHHHTTTCSHHHHHHHHHHHH
T ss_pred             CCCCeEEEecCCcccHHHHHHHHHHHH--hCCCCH-----------HH-cCceEEEeeHHHHhccCCccHHHHHHHHHHH
Confidence            345789999999999999999876432  121111           01 4566777777666655444455666666666


Q ss_pred             Hhc-cCCceEEEEEeecC
Q 043441           98 GLA-KDGIHAVLVGFSVR  114 (173)
Q Consensus        98 ~~~-~~~~~~ii~v~~~~  114 (173)
                      ... ...-+.|+|+-+..
T Consensus       108 ~e~~~~~~~iILfIDeih  125 (195)
T d1jbka_         108 NDLAKQEGNVILFIDELH  125 (195)
T ss_dssp             HHHHHSTTTEEEEEETGG
T ss_pred             HHHhcCCCcEEEEcchHH
Confidence            543 22345666665554

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.62  E-value=2.5e-05  Score=51.41  Aligned_cols=26  Identities=38%  Similarity=0.300  Sum_probs=22.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ++.+..|+++|.+||||||+...++.
T Consensus        11 ~~~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          11 SPNPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             CSSCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            46678999999999999999998864

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.62  E-value=1.7e-05  Score=52.53  Aligned_cols=24  Identities=33%  Similarity=0.403  Sum_probs=21.1

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      +..|+|+||+||||||+++.|...
T Consensus         2 G~iivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           2 GRVVVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhh
Confidence            467899999999999999999754

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.61  E-value=2.1e-05  Score=52.53  Aligned_cols=25  Identities=24%  Similarity=0.416  Sum_probs=21.4

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +.+..|+|+|++||||||+.+.|..
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3457889999999999999999864

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.61  E-value=1.9e-05  Score=53.55  Aligned_cols=25  Identities=20%  Similarity=0.232  Sum_probs=22.0

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ++..++|+||+|||||||++.|+..
T Consensus         1 ~G~livi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           1 QGTLYIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhh
Confidence            4678999999999999999999754

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.59  E-value=2.8e-05  Score=50.53  Aligned_cols=26  Identities=27%  Similarity=0.465  Sum_probs=22.1

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ......++|+|++||||||+.+.|..
T Consensus         3 ~~~~~iivl~G~~GsGKsT~a~~La~   28 (171)
T d1knqa_           3 NHDHHIYVLMGVSGSGKSAVASEVAH   28 (171)
T ss_dssp             CTTSEEEEEECSTTSCHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            34567888999999999999999864

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=97.58  E-value=1.8e-05  Score=52.71  Aligned_cols=25  Identities=20%  Similarity=0.266  Sum_probs=21.4

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .+.+|+|+|++||||||+.+.|..+
T Consensus         2 ~Pm~I~i~GppGsGKsT~a~~La~~   26 (189)
T d1zaka1           2 DPLKVMISGAPASGKGTQCELIKTK   26 (189)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999998643

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=97.55  E-value=2.4e-05  Score=56.83  Aligned_cols=25  Identities=20%  Similarity=0.195  Sum_probs=22.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHh
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~   40 (173)
                      ..+..+|.+.|++|||||||++.|.
T Consensus        51 ~~~~~~IgitG~pGaGKSTLi~~l~   75 (327)
T d2p67a1          51 CGNTLRLGVTGTPGAGKSTFLEAFG   75 (327)
T ss_dssp             CSCSEEEEEEECTTSCHHHHHHHHH
T ss_pred             cCCceEEEeeCCCCCCHHHHHHHHH
Confidence            3567999999999999999999996

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.54  E-value=2.4e-05  Score=50.73  Aligned_cols=23  Identities=26%  Similarity=0.471  Sum_probs=20.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      +.|+|.|++||||||+.+.|...
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~   25 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQ   25 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999999753

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=97.54  E-value=3.3e-05  Score=50.31  Aligned_cols=25  Identities=24%  Similarity=0.490  Sum_probs=21.7

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .+..|+|.|++||||||+.+.|...
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4567899999999999999999764

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.53  E-value=2.6e-05  Score=50.80  Aligned_cols=22  Identities=18%  Similarity=0.194  Sum_probs=19.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +.+.++|.+|||||||++.|+.
T Consensus         2 kii~I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEEeCCCCCHHHHHHHHHH
Confidence            3578999999999999998865

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=97.49  E-value=3.9e-05  Score=51.20  Aligned_cols=28  Identities=21%  Similarity=0.372  Sum_probs=23.9

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .+.+..+|+|+|++||||||+...|...
T Consensus         2 ~~~r~mrIiliG~PGSGKtT~a~~La~~   29 (189)
T d2ak3a1           2 ASARLLRAAIMGAPGSGKGTVSSRITKH   29 (189)
T ss_dssp             CSSCCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCcceeEEEECCCCCCHHHHHHHHHHH
Confidence            3556789999999999999999998753

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.47  E-value=2.6e-05  Score=50.82  Aligned_cols=21  Identities=38%  Similarity=0.642  Sum_probs=18.7

Q ss_pred             cEEEEEcCCCCCHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~   40 (173)
                      ++|+++|.+||||||+.+.|.
T Consensus         2 p~IvliG~~G~GKSTig~~La   22 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLA   22 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHH
Confidence            568899999999999998884

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.46  E-value=3.3e-05  Score=49.52  Aligned_cols=22  Identities=36%  Similarity=0.681  Sum_probs=19.3

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +.|+|+|++||||||+.+.|..
T Consensus         3 k~I~l~G~~GsGKSTvak~La~   24 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQ   24 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999854

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.46  E-value=3.7e-05  Score=50.59  Aligned_cols=22  Identities=27%  Similarity=0.561  Sum_probs=19.4

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+|+|+|++||||||+.+.|..
T Consensus         1 m~I~i~G~pGSGKsT~a~~La~   22 (182)
T d1zina1           1 MNLVLMGLPGAGKGTQAEKIVA   22 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3699999999999999999843

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=97.43  E-value=4.8e-05  Score=49.44  Aligned_cols=24  Identities=21%  Similarity=0.361  Sum_probs=20.7

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .+.|+|.|++||||||+.+.|...
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~   26 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            467888899999999999998753

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.42  E-value=4.3e-05  Score=50.90  Aligned_cols=23  Identities=26%  Similarity=0.388  Sum_probs=20.4

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +++|+|+|++||||||....|..
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~   23 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVE   23 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            47899999999999999988854

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.42  E-value=3.8e-05  Score=51.08  Aligned_cols=22  Identities=27%  Similarity=0.522  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 043441           21 TVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~   42 (173)
                      -|+|+||+||||+|+++.|+..
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            3899999999999999999653

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=97.41  E-value=4.7e-05  Score=49.90  Aligned_cols=21  Identities=24%  Similarity=0.477  Sum_probs=19.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~   40 (173)
                      +.|++.|++||||||+.+.|.
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~   22 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAM   22 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHH
Confidence            579999999999999999884

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.40  E-value=5.5e-05  Score=50.10  Aligned_cols=26  Identities=19%  Similarity=0.268  Sum_probs=21.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...+..|+|.|++||||||+.+.|..
T Consensus        19 ~~~~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          19 TAGRLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             CSSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHH
Confidence            34556788999999999999999853

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=97.38  E-value=5.3e-05  Score=50.00  Aligned_cols=23  Identities=26%  Similarity=0.590  Sum_probs=19.9

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .+|+|+|++||||||+...|...
T Consensus         1 M~I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           1 MNIVLMGLPGAGKGTQADRIVEK   23 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            37899999999999999988643

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.37  E-value=4.6e-05  Score=49.80  Aligned_cols=22  Identities=27%  Similarity=0.362  Sum_probs=19.6

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +.|+|.|++|+|||||+..+..
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~   23 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASE   23 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHH
Confidence            4589999999999999999864

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=97.36  E-value=4.8e-05  Score=49.34  Aligned_cols=20  Identities=35%  Similarity=0.703  Sum_probs=18.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q 043441           21 TVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~   40 (173)
                      +|+|+|++||||||+.+.|.
T Consensus         2 ~I~liG~~GsGKsTi~k~La   21 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALA   21 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHH
Confidence            58999999999999999884

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.34  E-value=3.3e-05  Score=51.20  Aligned_cols=25  Identities=24%  Similarity=0.246  Sum_probs=21.8

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..+..|+|+|.+||||||+.+.|..
T Consensus        17 ~~g~vI~L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          17 FRGCTVWLTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             CCCEEEEEESSCHHHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3577899999999999999999853

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=97.34  E-value=6.9e-05  Score=54.22  Aligned_cols=26  Identities=27%  Similarity=0.275  Sum_probs=22.9

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..+..+|.+.|++|||||||++.|..
T Consensus        48 ~~~~~~igitG~pGaGKSTli~~l~~   73 (323)
T d2qm8a1          48 TGRAIRVGITGVPGVGKSTTIDALGS   73 (323)
T ss_dssp             CCCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             cCCceEEeeeCCCCCCHHHHHHHHHH
Confidence            34679999999999999999999864

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=97.33  E-value=5.5e-05  Score=52.78  Aligned_cols=28  Identities=18%  Similarity=0.396  Sum_probs=23.0

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ....+..|+|.|++|+||||+..+|.+.
T Consensus        28 ~~~~P~~ilL~GpPGtGKT~la~~la~~   55 (273)
T d1gvnb_          28 AVESPTAFLLGGQPGSGKTSLRSAIFEE   55 (273)
T ss_dssp             CCSSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            3445567999999999999999999763

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=97.33  E-value=4.5e-05  Score=55.21  Aligned_cols=24  Identities=33%  Similarity=0.477  Sum_probs=21.6

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      ..+++.|++||||||++|+|++..
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i  190 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFI  190 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGS
T ss_pred             CCEEEEeeccccchHHHHHHhhhc
Confidence            569999999999999999999754

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.33  E-value=9.9e-05  Score=54.66  Aligned_cols=102  Identities=14%  Similarity=0.114  Sum_probs=43.6

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGMEIVKCIG   98 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~~~~~~~~~~~~~~~~~~   98 (173)
                      .-+++|||++|+|||+++..|.....  .+..+..           + .+..++-+|...+.....-..++...+...+.
T Consensus        43 k~n~llvG~~GvGKtaiv~~la~~i~--~~~vp~~-----------l-~~~~i~~ld~~~l~ag~~~~g~~e~r~~~i~~  108 (387)
T d1qvra2          43 KNNPVLIGEPGVGKTAIVEGLAQRIV--KGDVPEG-----------L-KGKRIVSLQMGSLLAGAKYRGEFEERLKAVIQ  108 (387)
T ss_dssp             CCCCEEEECTTSCHHHHHHHHHHHHH--HTCSCTT-----------S-TTCEEEEECC-----------CHHHHHHHHHH
T ss_pred             CCCCeEECCCCCCHHHHHHHHHHHHH--hCCCCHH-----------H-cCceEEEeeHhhhhcccCcchhHHHHHHHHHH
Confidence            34579999999999999988765432  2211110           1 44556666665555443333344555555554


Q ss_pred             hccC-CceEEEEEeecCCCCC----HHHHHHHHHHHHHHcc
Q 043441           99 LAKD-GIHAVLVGFSVRSRFP----QEEEAALHSWQTLFGK  134 (173)
Q Consensus        99 ~~~~-~~~~ii~v~~~~~~~~----~~~~~~~~~l~~~~~~  134 (173)
                      .... ..+.|+|+-+...-+.    .......+.|+-.+..
T Consensus       109 ~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~r  149 (387)
T d1qvra2         109 EVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALAR  149 (387)
T ss_dssp             HHHTTCSSEEEEECCC-------------------HHHHHT
T ss_pred             HhccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhC
Confidence            4322 2345565544442221    2234555666666554

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.30  E-value=7e-05  Score=49.21  Aligned_cols=22  Identities=18%  Similarity=0.392  Sum_probs=19.3

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+|+++|++||||||..+.|..
T Consensus         1 m~I~i~G~pGSGKsT~~~~La~   22 (179)
T d1e4va1           1 MRIILLGAPVAGKGTQAQFIME   22 (179)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3789999999999999988854

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=97.29  E-value=7.8e-05  Score=49.70  Aligned_cols=26  Identities=23%  Similarity=0.455  Sum_probs=22.0

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGRR   43 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~~   43 (173)
                      ..+.|+|+|++||||||+...|....
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~~~   32 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQKY   32 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            34789999999999999999996543

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.28  E-value=6.8e-05  Score=49.99  Aligned_cols=20  Identities=35%  Similarity=0.549  Sum_probs=18.4

Q ss_pred             EEEEcCCCCCHHHHHHHHhC
Q 043441           22 VVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        22 i~lvG~~g~GKStlin~l~~   41 (173)
                      |+|+||+||||||+++.|+.
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            78999999999999999864

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.28  E-value=7.9e-05  Score=49.04  Aligned_cols=22  Identities=23%  Similarity=0.444  Sum_probs=19.6

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+|+|+|++||||||+.+.|..
T Consensus         1 m~I~i~G~pGsGKsT~a~~La~   22 (181)
T d2cdna1           1 MRVLLLGPPGAGKGTQAVKLAE   22 (181)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3799999999999999999854

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.26  E-value=9.3e-05  Score=48.73  Aligned_cols=23  Identities=22%  Similarity=0.440  Sum_probs=20.3

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..+|+|+|++||||||+...|..
T Consensus         2 ~mrIvl~G~pGSGKtT~a~~La~   24 (180)
T d1akya1           2 SIRMVLIGPPGAGKGTQAPNLQE   24 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999864

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.22  E-value=0.0001  Score=49.73  Aligned_cols=22  Identities=27%  Similarity=0.287  Sum_probs=19.7

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHh
Q 043441           19 VRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~   40 (173)
                      +..|+|.|++||||||+.+.|.
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~   23 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIV   23 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
Confidence            5788999999999999999873

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=97.18  E-value=0.0001  Score=48.07  Aligned_cols=21  Identities=24%  Similarity=0.561  Sum_probs=18.2

Q ss_pred             cEEEEEcCCCCCHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~   40 (173)
                      ..|+++|.+||||||+.+.|.
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA   23 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELA   23 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHH
Confidence            347789999999999999984

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=97.16  E-value=0.00011  Score=48.23  Aligned_cols=21  Identities=24%  Similarity=0.314  Sum_probs=18.3

Q ss_pred             cEEEEEcCCCCCHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~   40 (173)
                      +.+++.|.+||||||+++.|.
T Consensus         2 kiivi~G~~GsGKTT~~~~La   22 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVK   22 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHH
Confidence            356788999999999999985

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.07  E-value=0.0017  Score=44.41  Aligned_cols=24  Identities=21%  Similarity=0.441  Sum_probs=20.6

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..+.+++.|++|+||||++..++.
T Consensus        32 ~~~~lll~Gp~G~GKTt~~~~la~   55 (252)
T d1sxje2          32 DLPHLLLYGPNGTGKKTRCMALLE   55 (252)
T ss_dssp             CCCCEEEECSTTSSHHHHHHTHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHH
Confidence            345699999999999999998865

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=97.03  E-value=0.00021  Score=47.49  Aligned_cols=26  Identities=27%  Similarity=0.281  Sum_probs=22.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...+..|++-|..||||||+++.|..
T Consensus         6 ~~kp~~I~ieG~~GsGKTTl~~~L~~   31 (197)
T d2vp4a1           6 GTQPFTVLIEGNIGSGKTTYLNHFEK   31 (197)
T ss_dssp             TCCCEEEEEECSTTSCHHHHHHTTGG
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHH
Confidence            34557899999999999999999865

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=96.98  E-value=0.00025  Score=46.95  Aligned_cols=24  Identities=21%  Similarity=0.281  Sum_probs=21.0

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+..|+|.|.+||||||+.+.|..
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999998854

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=96.90  E-value=0.00021  Score=48.99  Aligned_cols=24  Identities=21%  Similarity=0.391  Sum_probs=21.1

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..+.+++.||+|+||||+++.+.+
T Consensus        34 ~~~~~Ll~GPpG~GKTtla~~la~   57 (239)
T d1ixsb2          34 PLEHLLLFGPPGLGKTTLAHVIAH   57 (239)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHH
Confidence            346799999999999999999975

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=96.90  E-value=0.0017  Score=41.68  Aligned_cols=61  Identities=20%  Similarity=0.198  Sum_probs=37.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   81 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~   81 (173)
                      .++..|++-|.=|||||||++.++..-........+..+... .+  .. .+..+.=+|.--+.+
T Consensus        31 ~~g~ii~L~G~LGaGKTtfvr~~~~~lg~~~~V~SPTF~l~~-~Y--~~-~~~~i~H~DlYRl~~   91 (158)
T d1htwa_          31 EKAIMVYLNGDLGAGKTTLTRGMLQGIGHQGNVKSPTYTLVE-EY--NI-AGKMIYHFDLYRLAD   91 (158)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHHTTCCSCCCCCTTTCEE-EE--EE-TTEEEEEEECTTCSC
T ss_pred             CCCeEEEEecCCCccHHHHHHHHHhhcccccccCCCceEEEE-ee--cc-CCceEEEEEEeccCC
Confidence            456789999999999999999997543332223333333322 22  22 555666777554443

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.85  E-value=0.00041  Score=46.80  Aligned_cols=26  Identities=19%  Similarity=0.204  Sum_probs=22.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...+..|.+.|.+||||||+.+.|..
T Consensus        21 ~~kg~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          21 NQRGLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             TSSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHH
Confidence            45778999999999999999999863

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=96.85  E-value=0.00044  Score=47.80  Aligned_cols=26  Identities=23%  Similarity=0.406  Sum_probs=22.3

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ......++|.|++|+|||++++.+..
T Consensus        40 ~~~~~~lll~GppGtGKT~l~~~l~~   65 (276)
T d1fnna2          40 GHHYPRATLLGRPGTGKTVTLRKLWE   65 (276)
T ss_dssp             TSSCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCCCceEEECCCCCCHHHHHHHHHH
Confidence            34557899999999999999999875

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.81  E-value=0.00052  Score=47.23  Aligned_cols=26  Identities=19%  Similarity=0.362  Sum_probs=22.3

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .....+++.||+|+||||++.+++..
T Consensus        50 ~~~~~lll~GPpG~GKTt~a~~la~~   75 (253)
T d1sxja2          50 GVFRAAMLYGPPGIGKTTAAHLVAQE   75 (253)
T ss_dssp             TSCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHH
Confidence            44567999999999999999999763

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=96.81  E-value=0.00054  Score=47.08  Aligned_cols=22  Identities=23%  Similarity=0.448  Sum_probs=18.8

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..+++.|++|+||||++..+..
T Consensus        35 ~~~Ll~Gp~G~GKtt~a~~~~~   56 (239)
T d1njfa_          35 HAYLFSGTRGVGKTSIARLLAK   56 (239)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH
T ss_pred             eeEEEECCCCCcHHHHHHHHHH
Confidence            4588999999999999988753

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=96.79  E-value=0.0005  Score=47.60  Aligned_cols=25  Identities=24%  Similarity=0.341  Sum_probs=21.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+...|++.|++|+|||++.++|.+
T Consensus        38 ~p~~~vLL~GppGtGKT~la~alA~   62 (246)
T d1d2na_          38 TPLVSVLLEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             CSEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHhh
Confidence            3456799999999999999999975

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.78  E-value=0.00035  Score=50.08  Aligned_cols=24  Identities=21%  Similarity=0.477  Sum_probs=21.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ++..++++||||+|||.+.++|..
T Consensus        48 ~~~~iLl~GPpG~GKT~lAkalA~   71 (309)
T d1ofha_          48 TPKNILMIGPTGVGKTEIARRLAK   71 (309)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHhh
Confidence            457789999999999999999875

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=96.77  E-value=4.9e-05  Score=50.43  Aligned_cols=21  Identities=29%  Similarity=0.420  Sum_probs=18.3

Q ss_pred             cEEEEEcCCCCCHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~   40 (173)
                      ...+|+|++||||||++.+|.
T Consensus        25 ~~tvi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          25 LVTTLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            466789999999999999973

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=96.77  E-value=0.0005  Score=49.19  Aligned_cols=26  Identities=19%  Similarity=0.184  Sum_probs=21.7

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHh
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~   40 (173)
                      ....+..|+|.|++||||||+.+.|.
T Consensus        76 ~~k~P~iIGIaG~sgSGKSTla~~L~  101 (308)
T d1sq5a_          76 GQRIPYIISIAGSVAVGKSTTARVLQ  101 (308)
T ss_dssp             -CCCCEEEEEEECTTSSHHHHHHHHH
T ss_pred             CCCCCEEEEEeCCCCCCCcHHHHHHH
Confidence            35667899999999999999988763

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=96.77  E-value=0.0004  Score=48.84  Aligned_cols=47  Identities=11%  Similarity=0.021  Sum_probs=35.6

Q ss_pred             hccCCceEEEEEeecCCCCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441           99 LAKDGIHAVLVGFSVRSRFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus        99 ~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      .....+|+|++|+|+.+.++..+....+.+    ..   .|.++|+||+|+.+.
T Consensus        11 ~~i~~~DvIl~V~DaR~P~ss~~~~l~~~~----~~---Kp~IlVlNK~DLv~~   57 (273)
T d1puja_          11 EKLKLIDIVYELVDARIPMSSRNPMIEDIL----KN---KPRIMLLNKADKADA   57 (273)
T ss_dssp             HHGGGCSEEEEEEETTSTTTTSCHHHHHHC----SS---SCEEEEEECGGGSCH
T ss_pred             HHHHhCCEEEEEEECCCCCCCCCHHHHHHH----cC---CCeEEEEECccCCch
Confidence            345567999999999878887765543333    22   789999999999876

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=96.76  E-value=0.00044  Score=47.27  Aligned_cols=23  Identities=26%  Similarity=0.459  Sum_probs=20.4

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+.+++.||+|+||||+.+.|..
T Consensus        35 ~~~~L~~GPpGtGKT~lA~~la~   57 (238)
T d1in4a2          35 LDHVLLAGPPGLGKTTLAHIIAS   57 (238)
T ss_dssp             CCCEEEESSTTSSHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHh
Confidence            35699999999999999999875

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=96.71  E-value=0.00055  Score=46.09  Aligned_cols=23  Identities=13%  Similarity=0.128  Sum_probs=19.5

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..-+++.|++|+||||++..+..
T Consensus        24 ~h~lLl~Gp~G~GKtt~a~~~a~   46 (207)
T d1a5ta2          24 HHALLIQALPGMGDDALIYALSR   46 (207)
T ss_dssp             CSEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHH
Confidence            45599999999999999987654

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.70  E-value=0.00058  Score=46.44  Aligned_cols=23  Identities=22%  Similarity=0.462  Sum_probs=20.3

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      +.+++.|++|+||||+++.+...
T Consensus        46 ~~lll~Gp~G~GKTtla~~iak~   68 (231)
T d1iqpa2          46 PHLLFAGPPGVGKTTAALALARE   68 (231)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            45899999999999999998763

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=96.70  E-value=0.00039  Score=49.27  Aligned_cols=20  Identities=40%  Similarity=0.614  Sum_probs=18.1

Q ss_pred             cEEEEEcCCCCCHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSI   39 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l   39 (173)
                      ...+|+|++||||||++.+|
T Consensus        25 ~lnvlvG~NgsGKS~iL~Ai   44 (308)
T d1e69a_          25 RVTAIVGPNGSGKSNIIDAI   44 (308)
T ss_dssp             SEEEEECCTTTCSTHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHH
Confidence            46789999999999999887

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=96.64  E-value=0.00062  Score=45.74  Aligned_cols=23  Identities=17%  Similarity=0.336  Sum_probs=20.1

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      +.|++.||+||||||.-..|..+
T Consensus         4 piI~I~GppGSGKgT~ak~La~~   26 (225)
T d1ckea_           4 PVITIDGPSGAGKGTLCKAMAEA   26 (225)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            58889999999999999998653

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=96.56  E-value=0.0008  Score=49.90  Aligned_cols=26  Identities=31%  Similarity=0.323  Sum_probs=22.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .+..-|++.|++||||||++.+++..
T Consensus       156 ~~~GliLvtGpTGSGKSTTl~~~l~~  181 (401)
T d1p9ra_         156 RPHGIILVTGPTGSGKSTTLYAGLQE  181 (401)
T ss_dssp             SSSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             hhhceEEEEcCCCCCccHHHHHHhhh
Confidence            45577999999999999999998864

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=96.54  E-value=0.00089  Score=46.61  Aligned_cols=25  Identities=32%  Similarity=0.531  Sum_probs=21.7

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..+..+++.||+|+|||++++++..
T Consensus        43 ~~~~~iLL~GppGtGKT~la~~iA~   67 (256)
T d1lv7a_          43 KIPKGVLMVGPPGTGKTLLAKAIAG   67 (256)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCCeEEeeCCCCCCccHHHHHHHH
Confidence            3456799999999999999999974

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=96.49  E-value=0.00047  Score=48.80  Aligned_cols=22  Identities=18%  Similarity=0.320  Sum_probs=16.4

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHh
Q 043441           19 VRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~   40 (173)
                      .+.|+|.|.+||||||+.+.|.
T Consensus         4 ~pIIgIaG~SGSGKTTva~~l~   25 (288)
T d1a7ja_           4 HPIISVTGSSGAGTSTVKHTFD   25 (288)
T ss_dssp             SCEEEEESCC---CCTHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHHH
Confidence            3589999999999999998863

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=96.48  E-value=0.00088  Score=46.26  Aligned_cols=23  Identities=17%  Similarity=0.172  Sum_probs=19.9

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...++|.|++|+||||+++.++.
T Consensus        29 ~~~i~i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          29 APITLVLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCcHHHHHHHHHH
Confidence            46788999999999999998763

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.47  E-value=0.00092  Score=49.21  Aligned_cols=20  Identities=30%  Similarity=0.498  Sum_probs=18.0

Q ss_pred             cEEEEEcCCCCCHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSI   39 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l   39 (173)
                      ...+++|++|||||+++.+|
T Consensus        26 ~l~~i~G~NGsGKS~ileAi   45 (427)
T d1w1wa_          26 NFTSIIGPNGSGKSNMMDAI   45 (427)
T ss_dssp             SEEEEECSTTSSHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
Confidence            45789999999999999997

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.46  E-value=0.00097  Score=45.28  Aligned_cols=23  Identities=26%  Similarity=0.440  Sum_probs=20.0

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhCC
Q 043441           20 RTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      +.+++.|++|+||||++..++..
T Consensus        34 ~~lll~Gp~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          34 PHMLFYGPPGTGKTSTILALTKE   56 (237)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCChHHHHHHHHHH
Confidence            45899999999999999998753

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.46  E-value=0.001  Score=46.24  Aligned_cols=24  Identities=21%  Similarity=0.454  Sum_probs=21.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+.-+++.|++|+|||++++++..
T Consensus        37 ~~~giLL~GppGtGKT~l~~ala~   60 (258)
T d1e32a2          37 PPRGILLYGPPGTGKTLIARAVAN   60 (258)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCceeEEecCCCCCchHHHHHHHH
Confidence            446799999999999999999876

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=96.46  E-value=0.001  Score=45.97  Aligned_cols=24  Identities=29%  Similarity=0.497  Sum_probs=21.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...-+++.|++|+|||+++++|.+
T Consensus        41 ~~~giLl~GppGtGKT~la~aia~   64 (247)
T d1ixza_          41 IPKGVLLVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             CCSEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCceEEEecCCCCChhHHHHHHHH
Confidence            345699999999999999999985

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.44  E-value=0.0013  Score=46.38  Aligned_cols=26  Identities=31%  Similarity=0.364  Sum_probs=21.3

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHh
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~   40 (173)
                      ....+..|+|.|.+||||||+...|.
T Consensus        23 ~~~~P~iIGi~G~qGSGKSTl~~~l~   48 (286)
T d1odfa_          23 GNKCPLFIFFSGPQGSGKSFTSIQIY   48 (286)
T ss_dssp             TCCSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCCCEEEEeECCCCCCHHHHHHHHH
Confidence            34456789999999999999887663

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.40  E-value=0.00082  Score=50.50  Aligned_cols=24  Identities=21%  Similarity=0.477  Sum_probs=21.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+.+|+++||||+|||-+.++|.+
T Consensus        48 ~ksNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          48 TPKNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             ccccEEEECCCCCCHHHHHHHHHH
Confidence            356899999999999999999865

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=96.33  E-value=0.00062  Score=47.27  Aligned_cols=21  Identities=29%  Similarity=0.396  Sum_probs=17.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhCC
Q 043441           22 VVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        22 i~lvG~~g~GKStlin~l~~~   42 (173)
                      +++.|++|+|||++++.++..
T Consensus        49 l~l~GppGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          49 YGSIGRVGIGKTTLAKFTVKR   69 (287)
T ss_dssp             EECTTCCSSSHHHHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHHHHH
Confidence            455699999999999998753

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=96.30  E-value=0.0013  Score=44.20  Aligned_cols=21  Identities=33%  Similarity=0.531  Sum_probs=19.0

Q ss_pred             cEEEEEcCCCCCHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~   40 (173)
                      ..|+|.|..||||||+.+.|.
T Consensus         4 ~iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEEECCCcCCHHHHHHHHH
Confidence            478899999999999999885

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.29  E-value=0.00092  Score=46.73  Aligned_cols=26  Identities=27%  Similarity=0.463  Sum_probs=22.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .....++|.|++|+|||++++++.+.
T Consensus        39 ~~~~giLL~Gp~GtGKT~l~~ala~~   64 (265)
T d1r7ra3          39 TPSKGVLFYGPPGCGKTLLAKAIANE   64 (265)
T ss_dssp             CCCCEEEEBCCTTSSHHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCcchhHHHHHHHH
Confidence            45567999999999999999999763

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=96.29  E-value=0.0015  Score=43.86  Aligned_cols=23  Identities=22%  Similarity=0.296  Sum_probs=19.6

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..+|++-||+||||||....|..
T Consensus         3 ~i~IaIdGp~GsGKgT~ak~La~   25 (223)
T d1q3ta_           3 TIQIAIDGPASSGKSTVAKIIAK   25 (223)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35678889999999999999865

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.26  E-value=0.031  Score=37.98  Aligned_cols=22  Identities=23%  Similarity=0.262  Sum_probs=19.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSI   39 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l   39 (173)
                      ....++|-|++.+||||+++.+
T Consensus        40 ~~~~~iiTGpN~~GKSt~lk~i   61 (234)
T d1wb9a2          40 QRRMLIITGPNMGGKSTYMRQT   61 (234)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHH
T ss_pred             CceEEEEeccCchhhHHHHHHH
Confidence            3467899999999999999986

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=96.22  E-value=0.0016  Score=43.60  Aligned_cols=22  Identities=27%  Similarity=0.388  Sum_probs=19.4

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..|+|.|..||||||+.+.|-.
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999998853

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.21  E-value=0.0063  Score=40.99  Aligned_cols=27  Identities=15%  Similarity=0.107  Sum_probs=22.6

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      -+++..++|.|++|+|||+|...++..
T Consensus        31 i~~G~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          31 VETGSITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             EESSSEEEEEESTTSSHHHHHHHHTTT
T ss_pred             CcCCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            356778999999999999999877643

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.17  E-value=0.0015  Score=43.25  Aligned_cols=26  Identities=12%  Similarity=0.098  Sum_probs=22.2

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      -.++..+.+.|++|+|||+|...++.
T Consensus        20 i~~G~v~~i~G~~GsGKT~l~l~la~   45 (242)
T d1n0wa_          20 IETGSITEMFGEFRTGKTQICHTLAV   45 (242)
T ss_dssp             EETTSEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcCCEEEEEEeCCCCCHHHHHHHHHH
Confidence            35678899999999999999977764

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.15  E-value=0.001  Score=45.19  Aligned_cols=23  Identities=22%  Similarity=0.326  Sum_probs=20.8

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+.|++-|..||||||+++.|..
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGG
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999865

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.15  E-value=0.0017  Score=43.17  Aligned_cols=21  Identities=24%  Similarity=0.411  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhC
Q 043441           21 TVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~   41 (173)
                      .|+|-|.-||||||+++.|..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999998753

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.14  E-value=0.0018  Score=43.31  Aligned_cols=23  Identities=26%  Similarity=0.499  Sum_probs=19.8

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ++.|++-|..||||||+++.|..
T Consensus         2 gkfIviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           2 SKYIVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            46788999999999999998753

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.13  E-value=0.0018  Score=43.78  Aligned_cols=21  Identities=29%  Similarity=0.509  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhC
Q 043441           21 TVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+++.|++|+||||++..++.
T Consensus        37 ~lLl~Gp~G~GKttl~~~la~   57 (227)
T d1sxjc2          37 HLLFYGPPGTGKTSTIVALAR   57 (227)
T ss_dssp             CEEEECSSSSSHHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHH
Confidence            488999999999999999875

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.13  E-value=0.0018  Score=43.72  Aligned_cols=22  Identities=18%  Similarity=0.363  Sum_probs=19.1

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +.+++.|++|+||||+++.+..
T Consensus        37 ~~~ll~Gp~G~GKTt~a~~la~   58 (224)
T d1sxjb2          37 PHMIISGMPGIGKTTSVHCLAH   58 (224)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCchhhHHHHHH
Confidence            3489999999999999988764

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.08  E-value=0.0027  Score=45.44  Aligned_cols=26  Identities=27%  Similarity=0.415  Sum_probs=21.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..+...++++||+|+|||.+.+.|..
T Consensus        49 ~~p~~~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          49 HKPVGSFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             TSCSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCceEEEEECCCcchhHHHHHHHHh
Confidence            34455799999999999999999854

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.96  E-value=0.0024  Score=42.85  Aligned_cols=24  Identities=21%  Similarity=0.292  Sum_probs=19.5

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+..|++-|..||||||.++.|..
T Consensus         2 rG~lI~ieG~dGsGKsT~~~~L~~   25 (209)
T d1nn5a_           2 RGALIVLEGVDRAGKSTQSRKLVE   25 (209)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHH
Confidence            346788889999999998888743

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=95.92  E-value=0.11  Score=34.96  Aligned_cols=21  Identities=24%  Similarity=0.199  Sum_probs=18.4

Q ss_pred             cEEEEEcCCCCCHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~   40 (173)
                      ..++|-|++.+||||+++.+.
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~   56 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTA   56 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHH
T ss_pred             cEEEEECCCccccchhhhhhH
Confidence            368999999999999999863

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=95.87  E-value=0.0033  Score=41.10  Aligned_cols=25  Identities=28%  Similarity=0.407  Sum_probs=21.2

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .+.-+++.|++|+||||+.-.|...
T Consensus        14 ~g~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          14 FGVGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             TTEEEEEEESSSSSHHHHHHHHHTT
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHHc
Confidence            3466899999999999999888753

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.82  E-value=0.0027  Score=43.18  Aligned_cols=23  Identities=22%  Similarity=0.196  Sum_probs=20.6

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ++.|++=|.-||||||+++.|..
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHH
Confidence            46899999999999999999864

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=95.80  E-value=0.0036  Score=40.86  Aligned_cols=24  Identities=29%  Similarity=0.329  Sum_probs=20.5

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+.-+++.|++|+||||+.-.|..
T Consensus        13 ~g~gvl~~G~sG~GKStlal~l~~   36 (176)
T d1kkma_          13 YGLGVLITGDSGVGKSETALELVQ   36 (176)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHH
Confidence            346799999999999999988764

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=95.74  E-value=0.0033  Score=45.87  Aligned_cols=25  Identities=20%  Similarity=0.460  Sum_probs=21.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .+...++++||||+|||-+.++|..
T Consensus        66 ~p~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          66 LSKSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCcceeeeCCCCccHHHHHHHHHh
Confidence            4567799999999999999999864

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=95.71  E-value=0.003  Score=43.06  Aligned_cols=24  Identities=17%  Similarity=0.311  Sum_probs=20.8

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHh
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~   40 (173)
                      +.+..++|.|++|+|||+|.-.++
T Consensus        34 p~G~~~li~G~pGsGKT~~~lq~~   57 (254)
T d1pzna2          34 ETQAITEVFGEFGSGKTQLAHTLA   57 (254)
T ss_dssp             ESSEEEEEEESTTSSHHHHHHHHH
T ss_pred             cCCEEEEEEcCCCCCHHHHHHHHH
Confidence            567789999999999999997664

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=95.66  E-value=0.004  Score=45.39  Aligned_cols=25  Identities=24%  Similarity=0.369  Sum_probs=21.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +....+++.||+|+|||++.++|++
T Consensus       152 ~~~~~~~~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         152 PKKRYWLFKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcCeEEEECCCCCCHHHHHHHHHH
Confidence            4456899999999999999999865

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=95.45  E-value=0.0046  Score=42.04  Aligned_cols=22  Identities=23%  Similarity=0.466  Sum_probs=19.5

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..|+|.|..||||||+.+.|..
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999853

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=95.39  E-value=0.0058  Score=39.58  Aligned_cols=25  Identities=32%  Similarity=0.385  Sum_probs=20.6

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .+.-+++.|++|+||||+.-.|...
T Consensus        14 ~g~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          14 YGVGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHc
Confidence            4567999999999999999777643

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=95.36  E-value=0.0046  Score=41.72  Aligned_cols=26  Identities=19%  Similarity=0.187  Sum_probs=22.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      -+++..++|.|++|+|||+|...++.
T Consensus        31 l~~G~l~~i~G~~G~GKT~~~l~~a~   56 (258)
T d2i1qa2          31 LESQSVTEFAGVFGSGKTQIMHQSCV   56 (258)
T ss_dssp             EETTEEEEEEESTTSSHHHHHHHHHH
T ss_pred             ccCCeEEEEEeCCCCCHHHHHHHHHH
Confidence            45678899999999999999977753

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=95.29  E-value=0.0045  Score=45.78  Aligned_cols=21  Identities=33%  Similarity=0.477  Sum_probs=18.3

Q ss_pred             cEEEEEcCCCCCHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~   40 (173)
                      .-++++|++|+|||++++.++
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li   71 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELA   71 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHH
T ss_pred             ceEEEEeCCCCcHHHHHHHHH
Confidence            458999999999999987765

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.27  E-value=0.0071  Score=41.02  Aligned_cols=27  Identities=11%  Similarity=0.118  Sum_probs=22.7

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .-+++..++|.|++|+|||+|.-.++.
T Consensus        33 Gip~G~~~~i~G~~GsGKT~lalq~~~   59 (258)
T d1v5wa_          33 GIESMAITEAFGEFRTGKTQLSHTLCV   59 (258)
T ss_dssp             SBCSSEEEEEECCTTCTHHHHHHHHHH
T ss_pred             CCcCCEEEEEECCCCCCHHHHHHHHHH
Confidence            346778999999999999999977753

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=95.26  E-value=0.0065  Score=42.14  Aligned_cols=25  Identities=20%  Similarity=0.264  Sum_probs=20.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHh
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~   40 (173)
                      -.++..+++.|++|+|||+|+..+.
T Consensus        32 ~~~G~l~vi~G~~G~GKT~~~~~la   56 (277)
T d1cr2a_          32 ARGGEVIMVTSGSGMGKSTFVRQQA   56 (277)
T ss_dssp             BCTTCEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCCeEEEEEeCCCCCHHHHHHHHH
Confidence            3456789999999999999986654

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.23  E-value=0.0055  Score=41.50  Aligned_cols=26  Identities=19%  Similarity=0.203  Sum_probs=22.0

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      -+++..++|.|++|+|||+|...++.
T Consensus        23 i~~gsl~li~G~pGsGKT~l~~qia~   48 (242)
T d1tf7a2          23 FFKDSIILATGATGTGKTLLVSRFVE   48 (242)
T ss_dssp             EESSCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcCCeEEEEEeCCCCCHHHHHHHHHH
Confidence            35678899999999999999977654

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=95.20  E-value=0.008  Score=41.99  Aligned_cols=25  Identities=28%  Similarity=0.384  Sum_probs=21.5

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      .....|+|.|..|.||||+...++.
T Consensus        42 ~~~~~v~I~GmgGiGKTtLA~~v~~   66 (277)
T d2a5yb3          42 LDSFFLFLHGRAGSGKSVIASQALS   66 (277)
T ss_dssp             SSSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHH
Confidence            3456889999999999999998864

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.18  E-value=0.0069  Score=40.65  Aligned_cols=23  Identities=17%  Similarity=0.287  Sum_probs=20.4

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHh
Q 043441           18 GVRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~   40 (173)
                      .++-|++=|.-||||||.++.|.
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~   24 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILY   24 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHH
T ss_pred             CeEEEEEECCCCCcHHHHHHHHH
Confidence            46789999999999999998885

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=95.04  E-value=0.0068  Score=40.57  Aligned_cols=24  Identities=21%  Similarity=0.252  Sum_probs=20.4

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHH
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSI   39 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l   39 (173)
                      -+++..++|.|++|+|||+|.-.+
T Consensus        23 i~~G~~~~I~G~~G~GKT~la~~~   46 (242)
T d1tf7a1          23 LPIGRSTLVSGTSGTGKTLFSIQF   46 (242)
T ss_dssp             EETTSEEEEEESTTSSHHHHHHHH
T ss_pred             CcCCeEEEEEeCCCCCHHHHHHHH
Confidence            457889999999999999998554

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=95.04  E-value=0.008  Score=37.02  Aligned_cols=24  Identities=21%  Similarity=0.268  Sum_probs=18.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHh
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~   40 (173)
                      ..-.+.+|.+++|+|||+++-.++
T Consensus         6 ~~~~~~ll~apTGsGKT~~~~~~~   29 (136)
T d1a1va1           6 QSFQVAHLHAPTGSGKSTKVPAAY   29 (136)
T ss_dssp             SSCEEEEEECCTTSCTTTHHHHHH
T ss_pred             cCCCEEEEEeCCCCCHHHHHHHHH
Confidence            344667899999999999885543

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=94.80  E-value=0.011  Score=42.24  Aligned_cols=24  Identities=25%  Similarity=0.559  Sum_probs=19.9

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +...++++|++|+|||.+.+.|..
T Consensus        52 p~~~~lf~Gp~G~GKt~lak~la~   75 (315)
T d1qvra3          52 PIGSFLFLGPTGVGKTELAKTLAA   75 (315)
T ss_dssp             CSEEEEEBSCSSSSHHHHHHHHHH
T ss_pred             CceEEEEECCCcchHHHHHHHHHH
Confidence            334688999999999999998764

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=94.77  E-value=0.0046  Score=44.33  Aligned_cols=22  Identities=27%  Similarity=0.454  Sum_probs=19.5

Q ss_pred             cEEEEEcCCCCCHHHHHHHHhC
Q 043441           20 RTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..++++|++|+|||++.+++.+
T Consensus        29 h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_          29 GGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CCEEEECCGGGCTTHHHHHHHH
T ss_pred             CeEEEECCCCccHHHHHHHHHH
Confidence            4699999999999999998753

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=94.67  E-value=0.0099  Score=39.88  Aligned_cols=21  Identities=19%  Similarity=0.300  Sum_probs=19.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhCC
Q 043441           22 VVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        22 i~lvG~~g~GKStlin~l~~~   42 (173)
                      +.+.|++|+|||-|++++...
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~   59 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNE   59 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            789999999999999998753

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=94.66  E-value=0.0081  Score=43.11  Aligned_cols=24  Identities=25%  Similarity=0.356  Sum_probs=21.2

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...+|.|=|.-|+||||+++.|..
T Consensus         3 ~~lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           3 TLLRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEEEECSCTTSSHHHHHHHHTC
T ss_pred             CceEEEEECCcCCCHHHHHHHHHH
Confidence            456899999999999999999965

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=94.56  E-value=0.012  Score=40.51  Aligned_cols=22  Identities=23%  Similarity=0.194  Sum_probs=18.8

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHh
Q 043441           19 VRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~   40 (173)
                      +...+|+|++|+|||+|+-.|.
T Consensus        29 g~~~~i~G~~G~GKS~l~l~la   50 (274)
T d1nlfa_          29 GTVGALVSPGGAGKSMLALQLA   50 (274)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHH
Confidence            5678899999999999986653

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=94.44  E-value=0.0093  Score=42.63  Aligned_cols=22  Identities=18%  Similarity=0.332  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 043441           21 TVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        21 ~i~lvG~~g~GKStlin~l~~~   42 (173)
                      .+++.|++|+|||.+.++|.+.
T Consensus       125 ~~l~~G~pG~GKT~la~ala~~  146 (321)
T d1w44a_         125 MVIVTGKGNSGKTPLVHALGEA  146 (321)
T ss_dssp             EEEEECSSSSCHHHHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHHHH
Confidence            3455799999999999999763

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.40  E-value=0.012  Score=35.74  Aligned_cols=26  Identities=8%  Similarity=0.050  Sum_probs=22.8

Q ss_pred             CCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           16 SNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        16 ~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +.++..|++-|.+|+||||+.++|..
T Consensus         3 ~kqgf~i~~tg~~~~gk~~ia~al~~   28 (122)
T d1g8fa3           3 PKQGFSIVLGNSLTVSREQLSIALLS   28 (122)
T ss_dssp             GGCCEEEEECTTCCSCHHHHHHHHHH
T ss_pred             CccceEEEEeCCCCCCHHHHHHHHHH
Confidence            45788999999999999999999853

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=94.29  E-value=0.019  Score=39.82  Aligned_cols=27  Identities=19%  Similarity=0.240  Sum_probs=22.4

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..+....+++.|++++|||+|+++|..
T Consensus       100 ~~~k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_         100 KFGKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             CSTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCccEEEEEEcCCCCCHHHHHHHHHH
Confidence            345566788999999999999999865

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=94.17  E-value=0.014  Score=41.85  Aligned_cols=25  Identities=28%  Similarity=0.395  Sum_probs=22.0

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ...+|.|=|.-|+||||+++.|...
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHSG
T ss_pred             ceEEEEEECCccCCHHHHHHHHHHH
Confidence            3578999999999999999999764

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=94.14  E-value=0.014  Score=38.71  Aligned_cols=26  Identities=31%  Similarity=0.372  Sum_probs=21.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      +....+++.|++++|||+|.++|+..
T Consensus        51 PKkn~i~~~GP~~TGKS~f~~sl~~~   76 (205)
T d1tuea_          51 PKKNCLVFCGPANTGKSYFGMSFIHF   76 (205)
T ss_dssp             TTCSEEEEESCGGGCHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCccHHHHHHHHHHH
Confidence            44567899999999999999998763

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=94.06  E-value=0.012  Score=42.15  Aligned_cols=25  Identities=28%  Similarity=0.466  Sum_probs=21.6

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhCC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILGR   42 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~~   42 (173)
                      ...+|.|=|.-|+||||+++.|...
T Consensus         4 ~~lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           4 GVLRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEEEESSSSCTTHHHHHHHHT
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHH
Confidence            3468999999999999999999653

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=93.82  E-value=0.014  Score=40.71  Aligned_cols=17  Identities=18%  Similarity=0.327  Sum_probs=14.4

Q ss_pred             cEEEEEcCCCCCHHHHH
Q 043441           20 RTVVFVGRTGNGKSATG   36 (173)
Q Consensus        20 ~~i~lvG~~g~GKStli   36 (173)
                      ..++|+|.+|+||||++
T Consensus        15 ~~~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          15 GPCLVLAGAGSGKTRVI   31 (306)
T ss_dssp             SEEEECCCTTSCHHHHH
T ss_pred             CCEEEEeeCCccHHHHH
Confidence            34789999999999876

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=93.72  E-value=0.016  Score=40.79  Aligned_cols=16  Identities=19%  Similarity=0.422  Sum_probs=14.2

Q ss_pred             EEEEEcCCCCCHHHHH
Q 043441           21 TVVFVGRTGNGKSATG   36 (173)
Q Consensus        21 ~i~lvG~~g~GKStli   36 (173)
                      .++|.|.+|+||||++
T Consensus        26 ~~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVL   41 (318)
T ss_dssp             CEEEEECTTSCHHHHH
T ss_pred             CEEEEecCCccHHHHH
Confidence            4889999999999876

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=93.49  E-value=0.026  Score=39.57  Aligned_cols=25  Identities=16%  Similarity=0.094  Sum_probs=22.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ..+.+++++|.+|+|||+|+..+..
T Consensus        41 grGQr~~I~g~~g~GKT~l~~~i~~   65 (289)
T d1xpua3          41 GRGQRGLIVAPPKAGKTMLLQNIAQ   65 (289)
T ss_dssp             BTTCEEEEEECSSSSHHHHHHHHHH
T ss_pred             cCCCeeeEeCCCCCCHHHHHHHHHH
Confidence            4678999999999999999988765

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=93.43  E-value=0.23  Score=34.19  Aligned_cols=46  Identities=20%  Similarity=0.255  Sum_probs=33.2

Q ss_pred             CCCCccEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeEEEEEEeeCCceEEEEeCCCCCC
Q 043441           15 PSNGVRTVVFVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   81 (173)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~v~DtpG~~~   81 (173)
                      .-+.+..+.+.|++|+|||+|.-.++...+   .                  .+...+++||-|-.+
T Consensus        56 G~~~g~i~e~~G~~~~GKT~l~l~~~~~~q---~------------------~g~~~vyIDtE~~~~  101 (269)
T d1mo6a1          56 GLPRGRVIEIYGPESSGKTTVALHAVANAQ---A------------------AGGVAAFIDAEHALD  101 (269)
T ss_dssp             SBCSSSEEEEECSSSSSHHHHHHHHHHHHH---H------------------TTCEEEEEESSCCCC
T ss_pred             CcccceeEEEecCCCcHHHHHHHHHHHHHh---c------------------CCCEEEEEECCccCC
Confidence            346788999999999999999866543111   0                  345677899988664

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=93.27  E-value=0.12  Score=34.89  Aligned_cols=48  Identities=17%  Similarity=0.056  Sum_probs=28.6

Q ss_pred             cCCceEEEEEeecCC-CCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          101 KDGIHAVLVGFSVRS-RFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..+.|.+++|+.+.+ .+......  ++|--....  ..+.+||+||+|+..+
T Consensus         8 vANiD~~~iV~s~~~P~~~~~~id--R~Lv~a~~~--~i~pvIvlnK~DL~~~   56 (231)
T d1t9ha2           8 ICNVDQAVLVFSAVQPSFSTALLD--RFLVLVEAN--DIQPIICITKMDLIED   56 (231)
T ss_dssp             EECCCEEEEEEESTTTTCCHHHHH--HHHHHHHTT--TCEEEEEEECGGGCCC
T ss_pred             ccccCEEEEEEECCCCCCCHHHHH--HHHHHHHHc--CCCEEEEEeccccccc
Confidence            346788888887752 33333222  223322222  2678999999999865

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=92.90  E-value=0.038  Score=39.97  Aligned_cols=20  Identities=35%  Similarity=0.471  Sum_probs=17.4

Q ss_pred             ccEEEEEcCCCCCHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNS   38 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~   38 (173)
                      ...++|.|++|+||||++..
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~  182 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAK  182 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHH
T ss_pred             CCeEEEEcCCCCCceehHHH
Confidence            56899999999999998854

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=92.28  E-value=0.057  Score=37.30  Aligned_cols=23  Identities=26%  Similarity=0.394  Sum_probs=18.6

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSI   39 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l   39 (173)
                      +.++.+++.|..|+||||+.-.|
T Consensus         6 ~~p~~i~~sGKGGVGKTTvaa~l   28 (296)
T d1ihua1           6 NIPPYLFFTGKGGVGKTSISCAT   28 (296)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHH
T ss_pred             CCCeEEEEECCCcChHHHHHHHH
Confidence            34578889999999999977554

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=92.13  E-value=0.4  Score=31.22  Aligned_cols=24  Identities=4%  Similarity=-0.071  Sum_probs=21.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ....+++-|++|+||+++...+..
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~   37 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPE   37 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            467899999999999999988764

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=92.11  E-value=0.12  Score=34.75  Aligned_cols=48  Identities=8%  Similarity=-0.047  Sum_probs=28.3

Q ss_pred             cCCceEEEEEeecCC-CCCHHHHHHHHHHHHHHcccccceEEEEEeCCCCCCC
Q 043441          101 KDGIHAVLVGFSVRS-RFPQEEEAALHSWQTLFGKKVFDYMIVVFTGGDELED  152 (173)
Q Consensus       101 ~~~~~~ii~v~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  152 (173)
                      ..+.|.+++|+.+.. .+.....+  ++|.-....  ..+.+||+||+|+.+.
T Consensus         8 vANiD~vliV~s~~~P~~~~~~ld--R~Lv~a~~~--~i~pvIvlnK~DL~~~   56 (225)
T d1u0la2           8 VANVDQVILVVTVKMPETSTYIID--KFLVLAEKN--ELETVMVINKMDLYDE   56 (225)
T ss_dssp             EESCCEEEEEECSSTTCCCHHHHH--HHHHHHHHT--TCEEEEEECCGGGCCH
T ss_pred             cccCCEEEEEEeCCCCCCCHHHHH--HHHHHHHHc--CCCEEEEEeCcccCCH
Confidence            346688888887752 34333222  222222112  2689999999999865

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=91.66  E-value=0.06  Score=37.17  Aligned_cols=25  Identities=20%  Similarity=0.239  Sum_probs=20.9

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +.+..+.+.|++|+|||||.-.++.
T Consensus        52 ~~g~itei~G~~gsGKTtl~l~~~~   76 (263)
T d1u94a1          52 PMGRIVEIYGPESSGKTTLTLQVIA   76 (263)
T ss_dssp             ETTSEEEEECSTTSSHHHHHHHHHH
T ss_pred             cCceEEEEecCCCcHHHHHHHHHHH
Confidence            4667899999999999999866543

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=91.66  E-value=0.061  Score=35.26  Aligned_cols=20  Identities=15%  Similarity=0.326  Sum_probs=17.5

Q ss_pred             cEEEEEcCC-CCCHHHHHHHH
Q 043441           20 RTVVFVGRT-GNGKSATGNSI   39 (173)
Q Consensus        20 ~~i~lvG~~-g~GKStlin~l   39 (173)
                      +++.|.|.. |+||||+.-.|
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~L   22 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCAL   22 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHH
Confidence            689999995 99999998666

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=91.49  E-value=0.062  Score=36.78  Aligned_cols=20  Identities=40%  Similarity=0.642  Sum_probs=17.0

Q ss_pred             cEEEEEcCCCCCHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSI   39 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l   39 (173)
                      ++|++.|..|+||||+.-.|
T Consensus         2 r~Iai~gKGGvGKTT~a~nL   21 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNL   21 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHH
T ss_pred             CEEEEECCCcCCHHHHHHHH
Confidence            57889999999999998554

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=90.73  E-value=0.041  Score=33.26  Aligned_cols=20  Identities=25%  Similarity=0.115  Sum_probs=16.1

Q ss_pred             CCccEEEEEcCCCCCHHHHH
Q 043441           17 NGVRTVVFVGRTGNGKSATG   36 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStli   36 (173)
                      ..+..++|.+++|+|||...
T Consensus         5 ~~~~~~il~~~tGsGKT~~~   24 (140)
T d1yksa1           5 KKGMTTVLDFHPGAGKTRRF   24 (140)
T ss_dssp             STTCEEEECCCTTSSTTTTH
T ss_pred             HcCCcEEEEcCCCCChhHHH
Confidence            45678899999999999443

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=90.59  E-value=0.11  Score=35.61  Aligned_cols=21  Identities=24%  Similarity=0.528  Sum_probs=16.0

Q ss_pred             ccEEEEEcCCCCCHHHHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATGNSI   39 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l   39 (173)
                      ...|++-|..|+||||+.-.|
T Consensus        20 ~~iii~sGKGGVGKTT~a~nL   40 (279)
T d1ihua2          20 HGLIMLMGKGGVGKTTMAAAI   40 (279)
T ss_dssp             CEEEEEECSTTSSHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHH
Confidence            355666699999999986554

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=90.47  E-value=0.096  Score=35.64  Aligned_cols=23  Identities=26%  Similarity=0.362  Sum_probs=19.5

Q ss_pred             ccEEEEEcCCCCCHHHHHHHHhC
Q 043441           19 VRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...|+|.|++|+||+++.+.|-.
T Consensus        23 ~~pvlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2          23 ECPVLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             CSCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEECCCCcCHHHHHHHHHH
Confidence            34589999999999999999853

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=90.23  E-value=0.11  Score=36.07  Aligned_cols=23  Identities=17%  Similarity=0.240  Sum_probs=20.3

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHh
Q 043441           18 GVRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~   40 (173)
                      .+.+++++|.+|+|||+|+..+.
T Consensus        67 kGQr~~If~~~g~GKt~l~~~i~   89 (276)
T d2jdid3          67 KGGKIGLFGGAGVGKTVLIMELI   89 (276)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHH
T ss_pred             CCCEEEeeCCCCCCHHHHHHHHH
Confidence            56789999999999999987775

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=90.10  E-value=0.099  Score=33.87  Aligned_cols=17  Identities=29%  Similarity=0.341  Sum_probs=13.8

Q ss_pred             cEEEEEcCCCCCHHHHH
Q 043441           20 RTVVFVGRTGNGKSATG   36 (173)
Q Consensus        20 ~~i~lvG~~g~GKStli   36 (173)
                      ..+++++++|+|||.+.
T Consensus        24 ~n~lv~~pTGsGKT~i~   40 (200)
T d1wp9a1          24 TNCLIVLPTGLGKTLIA   40 (200)
T ss_dssp             SCEEEECCTTSCHHHHH
T ss_pred             CCeEEEeCCCCcHHHHH
Confidence            35789999999999743

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=88.06  E-value=0.16  Score=35.01  Aligned_cols=20  Identities=35%  Similarity=0.586  Sum_probs=16.4

Q ss_pred             cEEEEEcCCCCCHHHHHHHH
Q 043441           20 RTVVFVGRTGNGKSATGNSI   39 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l   39 (173)
                      ++|++-|..|+||||+.-.|
T Consensus         3 r~IaisgKGGVGKTT~a~NL   22 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNL   22 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            46778899999999987554

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=87.93  E-value=0.17  Score=34.89  Aligned_cols=25  Identities=20%  Similarity=0.252  Sum_probs=21.2

Q ss_pred             CCccEEEEEcCCCCCHHHHHHHHhC
Q 043441           17 NGVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      +.+..+.+.|++++|||+|.-.++.
T Consensus        55 p~g~itei~G~~~sGKT~l~l~~~~   79 (268)
T d1xp8a1          55 PRGRITEIYGPESGGKTTLALAIVA   79 (268)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             cCceEEEEecCCccchHHHHHHHHH
Confidence            4667899999999999999977654

>d2bmfa2 c.37.1.14 (A:178-482) Dengue virus helicase {Dengue virus type 2 [TaxId: 11060]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: Dengue virus helicase
species: Dengue virus type 2 [TaxId: 11060]

Probab=87.46  E-value=0.14  Score=35.25  Aligned_cols=18  Identities=22%  Similarity=0.302  Sum_probs=15.3

Q ss_pred             CCccEEEEEcCCCCCHHH
Q 043441           17 NGVRTVVFVGRTGNGKSA   34 (173)
Q Consensus        17 ~~~~~i~lvG~~g~GKSt   34 (173)
                      .....+++.+++|+|||+
T Consensus         7 ~~~~~~lv~~~TGsGKT~   24 (305)
T d2bmfa2           7 RKKRLTIMDLHPGAGKTK   24 (305)
T ss_dssp             STTCEEEECCCTTSSTTT
T ss_pred             hcCCcEEEEECCCCCHHH
Confidence            456778999999999995

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=86.98  E-value=0.068  Score=34.96  Aligned_cols=19  Identities=16%  Similarity=0.240  Sum_probs=15.6

Q ss_pred             CccEEEEEcCCCCCHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATG   36 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStli   36 (173)
                      .+..+++.+++|+|||+..
T Consensus        39 ~~~~~il~apTGsGKT~~a   57 (202)
T d2p6ra3          39 SGKNLLLAMPTAAGKTLLA   57 (202)
T ss_dssp             TCSCEEEECSSHHHHHHHH
T ss_pred             cCCCEEEEcCCCCchhHHH
Confidence            3467899999999999753

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=86.91  E-value=0.17  Score=35.29  Aligned_cols=23  Identities=13%  Similarity=0.274  Sum_probs=19.7

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHh
Q 043441           18 GVRTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~   40 (173)
                      .+.+++++|.+|+|||+++..+.
T Consensus        67 ~GQr~~If~~~g~GKt~ll~~~~   89 (285)
T d2jdia3          67 RGQRELIIGDRQTGKTSIAIDTI   89 (285)
T ss_dssp             TTCBCEEEESTTSSHHHHHHHHH
T ss_pred             CCCEEEeecCCCCChHHHHHHHH
Confidence            56789999999999999986654

>d1gkub1 c.37.1.16 (B:1-250) Helicase-like "domain" of reverse gyrase {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Helicase-like "domain" of reverse gyrase
domain: Helicase-like "domain" of reverse gyrase
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=86.03  E-value=0.095  Score=35.15  Aligned_cols=19  Identities=26%  Similarity=0.359  Sum_probs=15.4

Q ss_pred             CccEEEEEcCCCCCHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATG   36 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStli   36 (173)
                      .+..+++++++|+|||...
T Consensus        57 ~g~~~~i~apTGsGKT~~~   75 (237)
T d1gkub1          57 RKESFAATAPTGVGKTSFG   75 (237)
T ss_dssp             TTCCEECCCCBTSCSHHHH
T ss_pred             CCCCEEEEecCCChHHHHH
Confidence            3456899999999999754

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=85.93  E-value=0.24  Score=34.80  Aligned_cols=18  Identities=33%  Similarity=0.575  Sum_probs=15.4

Q ss_pred             ccEEEEEcCCCCCHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATG   36 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStli   36 (173)
                      +-.-++.|-+|.|||||-
T Consensus        14 ~~~alfFGLSGTGKTTLs   31 (313)
T d2olra1          14 GDVAVFFGLSGTGKTTLS   31 (313)
T ss_dssp             SCEEEEECSTTSSHHHHH
T ss_pred             CCEEEEEccCCCCcccce
Confidence            356789999999999976

>d1r0ka2 c.2.1.3 (A:3-126,A:265-290) 1-deoxy-D-xylulose-5-phosphate reductoisomerase {Zymomonas mobilis [TaxId: 542]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain
domain: 1-deoxy-D-xylulose-5-phosphate reductoisomerase
species: Zymomonas mobilis [TaxId: 542]

Probab=85.26  E-value=0.14  Score=32.03  Aligned_cols=22  Identities=41%  Similarity=0.495  Sum_probs=16.2

Q ss_pred             CccEEEEEcCCCC-CHHHHHHHHh
Q 043441           18 GVRTVVFVGRTGN-GKSATGNSIL   40 (173)
Q Consensus        18 ~~~~i~lvG~~g~-GKStlin~l~   40 (173)
                      ++++|+++|.||| |++| ++-+-
T Consensus         1 ~pK~I~IlGsTGSIG~~t-L~Vi~   23 (150)
T d1r0ka2           1 QPRTVTVLGATGSIGHST-LDLIE   23 (150)
T ss_dssp             CCEEEEEETTTSHHHHHH-HHHHH
T ss_pred             CCcEEEEECCCcHHHHHH-HHHHH
Confidence            3589999999998 6665 45543

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=85.23  E-value=0.26  Score=34.74  Aligned_cols=18  Identities=33%  Similarity=0.575  Sum_probs=15.4

Q ss_pred             ccEEEEEcCCCCCHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATG   36 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStli   36 (173)
                      +-.-++.|-+|.|||||-
T Consensus        14 ~~valffGLSGTGKTTLs   31 (318)
T d1j3ba1          14 GDVAVFFGLSGTGKTTLS   31 (318)
T ss_dssp             CCEEEEEECTTSCHHHHT
T ss_pred             CCEEEEEccCCCCccccc
Confidence            356799999999999975

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=84.51  E-value=0.31  Score=34.43  Aligned_cols=18  Identities=33%  Similarity=0.573  Sum_probs=15.5

Q ss_pred             ccEEEEEcCCCCCHHHHH
Q 043441           19 VRTVVFVGRTGNGKSATG   36 (173)
Q Consensus        19 ~~~i~lvG~~g~GKStli   36 (173)
                      +..-++.|-+|.|||||-
T Consensus        14 gd~alfFGLSGTGKTTLs   31 (323)
T d1ii2a1          14 GDVTVFFGLSGTGKTTLS   31 (323)
T ss_dssp             CCEEEEECCTTSSHHHHH
T ss_pred             CCEEEEEccCCCCcccce
Confidence            356789999999999987

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Ureaplasma urealyticum [TaxId: 2130]

Probab=84.43  E-value=0.44  Score=29.25  Aligned_cols=19  Identities=21%  Similarity=0.160  Sum_probs=14.9

Q ss_pred             EEEEEcCCCCCHHH-HHHHH
Q 043441           21 TVVFVGRTGNGKSA-TGNSI   39 (173)
Q Consensus        21 ~i~lvG~~g~GKSt-lin~l   39 (173)
                      .-+++||-.||||| |+..+
T Consensus         4 L~~i~GpMfsGKTteLi~~~   23 (139)
T d2b8ta1           4 IEFITGPMFAGKTAELIRRL   23 (139)
T ss_dssp             EEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEEccccCHHHHHHHHHH
Confidence            45789999999999 45554

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=84.11  E-value=0.4  Score=31.46  Aligned_cols=20  Identities=30%  Similarity=0.657  Sum_probs=15.8

Q ss_pred             cEEEEE-cCCCCCHHHHHHHH
Q 043441           20 RTVVFV-GRTGNGKSATGNSI   39 (173)
Q Consensus        20 ~~i~lv-G~~g~GKStlin~l   39 (173)
                      +.|++. |..|+||||+.-.|
T Consensus         2 kvIav~s~KGGvGKTtia~nl   22 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANL   22 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHH
T ss_pred             EEEEEECCCCCChHHHHHHHH
Confidence            356666 89999999998654

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=83.66  E-value=0.23  Score=34.36  Aligned_cols=22  Identities=18%  Similarity=0.323  Sum_probs=19.0

Q ss_pred             CccEEEEEcCCCCCHHHHHHHH
Q 043441           18 GVRTVVFVGRTGNGKSATGNSI   39 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l   39 (173)
                      .+.+++++|.+|+|||+++..+
T Consensus        66 ~GQr~~Ifg~~g~GKt~l~~~~   87 (276)
T d1fx0a3          66 RGQRELIIGDRQTGKTAVATDT   87 (276)
T ss_dssp             TTCBCBEEESSSSSHHHHHHHH
T ss_pred             CCceEeeccCCCCChHHHHHHH
Confidence            6678999999999999998543

>d1c9ka_ c.37.1.11 (A:) Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Adenosylcobinamide kinase/adenosylcobinamide phosphate guanylyltransferase CobU
species: Salmonella typhimurium [TaxId: 90371]

Probab=82.53  E-value=0.5  Score=30.39  Aligned_cols=20  Identities=25%  Similarity=0.615  Sum_probs=18.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhC
Q 043441           22 VVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        22 i~lvG~~g~GKStlin~l~~   41 (173)
                      +++.|...||||.+.-.+..
T Consensus         2 iLVtGGarSGKS~~AE~l~~   21 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIG   21 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHC
T ss_pred             EEEECCCCccHHHHHHHHHh
Confidence            68999999999999988875

>d1lkxa_ c.37.1.9 (A:) Myosin S1, motor domain {Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum, class-I myosin MyoE [TaxId: 44689]

Probab=81.88  E-value=0.53  Score=36.76  Aligned_cols=24  Identities=25%  Similarity=0.533  Sum_probs=19.4

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...-|++-|.+|||||.-.+.++.
T Consensus        85 ~~QsIiisGeSGsGKTe~~k~il~  108 (684)
T d1lkxa_          85 ENQCVIISGESGAGKTEASKKIMQ  108 (684)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHH
Confidence            345799999999999998776643

>d2fz4a1 c.37.1.19 (A:24-229) DNA repair protein RAD25 {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DNA repair protein RAD25
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=81.72  E-value=0.59  Score=30.39  Aligned_cols=21  Identities=24%  Similarity=0.322  Sum_probs=16.4

Q ss_pred             cEEEEEcCCCCCHHHHHHHHh
Q 043441           20 RTVVFVGRTGNGKSATGNSIL   40 (173)
Q Consensus        20 ~~i~lvG~~g~GKStlin~l~   40 (173)
                      .+.+++.++|+|||-+.-.++
T Consensus        86 ~~~ll~~~tG~GKT~~a~~~~  106 (206)
T d2fz4a1          86 KRGCIVLPTGSGKTHVAMAAI  106 (206)
T ss_dssp             SEEEEEESSSTTHHHHHHHHH
T ss_pred             CCcEEEeCCCCCceehHHhHH
Confidence            467889999999997765544

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=81.22  E-value=0.61  Score=30.55  Aligned_cols=20  Identities=30%  Similarity=0.669  Sum_probs=16.1

Q ss_pred             cEEEEE-cCCCCCHHHHHHHH
Q 043441           20 RTVVFV-GRTGNGKSATGNSI   39 (173)
Q Consensus        20 ~~i~lv-G~~g~GKStlin~l   39 (173)
                      +.|.+. +..|+||||+.-.|
T Consensus         3 ~vIav~~~kGGvGKTtia~nL   23 (237)
T d1g3qa_           3 RIISIVSGKGGTGKTTVTANL   23 (237)
T ss_dssp             EEEEEECSSTTSSHHHHHHHH
T ss_pred             eEEEEECCCCCCcHHHHHHHH
Confidence            457777 88999999998665

>d1br2a2 c.37.1.9 (A:80-789) Myosin S1, motor domain {Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Chicken (Gallus gallus), pectoral muscle [TaxId: 9031]

Probab=80.50  E-value=0.63  Score=36.51  Aligned_cols=24  Identities=17%  Similarity=0.483  Sum_probs=19.6

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...-|++-|.+|||||.-.+.++.
T Consensus        90 ~~Q~IiisGeSGaGKTe~~k~il~  113 (710)
T d1br2a2          90 EDQSILCTGESGAGKTENTKKVIQ  113 (710)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEeCCCCCHHHHHHHHHH
Confidence            345799999999999998777644

>d1d0xa2 c.37.1.9 (A:2-33,A:80-759) Myosin S1, motor domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Motor proteins
domain: Myosin S1, motor domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=80.01  E-value=0.67  Score=36.37  Aligned_cols=24  Identities=17%  Similarity=0.497  Sum_probs=19.9

Q ss_pred             CccEEEEEcCCCCCHHHHHHHHhC
Q 043441           18 GVRTVVFVGRTGNGKSATGNSILG   41 (173)
Q Consensus        18 ~~~~i~lvG~~g~GKStlin~l~~   41 (173)
                      ...-|++-|.+|||||.-.+.++.
T Consensus       124 ~nQsIiisGeSGaGKTe~~k~il~  147 (712)
T d1d0xa2         124 QNQSLLITGESGAGKTENTKKVIQ  147 (712)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCceEEEeCCCCCCHHHHHHHHHH
Confidence            456799999999999998877644