Citrus Sinensis ID: 030630

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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
MMGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKVCF
Secondary Structure (PSIPRED)
cccccccccccccccccccEEEEEEEccccccHHHHHHHHHccccccccccccccccEEEEEEEEEEccEEEEEEEcccccccccccHHHHHHHHHHHHHcccccEEEEEEEEccccccHHHHHHHHHHHHHHcHHHHccEEEEEEcccccccccccHHHHHcccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccHHccccccccEEEEEEEccccccccccccHccccHEHcccccccccHHHHHcccccccccEEEEEEccccccccccHHHHHHHHHHHHHHcccccEEEEEEEEccccccHHHHHHHHHHHHHHHHHHHcEEEEEEEccHHHccccccHHHHHHccccHHHHHHc
Coil and Loop (DISEMBL)
mmggsaidddweltspsngerTVVLVGrtgngksatgnsilgrrafksrasssgvtstCEMQRTvlkdgqvvnvidtpglfdfsagsefvGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTggdeledndeTLEDylgrecpkplkvcf
Flexible Loop (DISEMBL)
mmggsaidddweltspsngertvvlvgrtgngksatgnsilgrrafksrasssgvtstcemqrtvlkdgqvvNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEdylgrecpkplkvcf
Low Complexity Region (SEG)
MMGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLvvfsvrsrfsQEEEAALHSLQTLFGKKIFDYMIVVFtggdeledndetledYLGRECPKPLKVCF
Disordered region (IsUnstruct)
**********************************************************CEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL*********Y*************
Disordered Region (DISOPRED)
**********************VVLVGRTGNGKSATGNSILGRRAFKS***********EMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKVCF
Disordered Region (DISEMBL)
********DDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAF*************EMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKVCF
Disordered Region (DISPRO)
******************GERTVVLVGRTGNGKSAT******RRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKVCF
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MMGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKVCF
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	174	2.2.26 [Sep-21-2011]
P54120	353	Protein AIG1 OS=Arabidops	no	no	0.931	0.458	0.601	1e-50
O81025	463	Putative protein PHLOEM P	no	no	0.879	0.330	0.528	3e-45
Q9NUV9	329	GTPase IMAP family member	yes	no	0.867	0.458	0.410	3e-28
Q8K3K9	310	GTPase IMAP family member	no	no	0.781	0.438	0.407	2e-22
Q8K349	305	GTPase IMAP family member	no	no	0.827	0.472	0.426	7e-22
Q99JY3	219	GTPase IMAP family member	no	no	0.810	0.643	0.383	2e-21
Q8NHV1	300	GTPase IMAP family member	no	no	0.735	0.426	0.392	2e-20
Q5FVN6	304	GTPase IMAP family member	no	no	0.770	0.440	0.421	4e-20
Q75N62	688	GTPase IMAP family member	no	no	0.833	0.210	0.389	4e-19
Q4KLG2	688	GTPase IMAP family member	no	no	0.844	0.213	0.407	8e-19

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

 Score =  198 bits (503), Expect = 1e-50,   Method: Compositional matrix adjust.
 Identities = 98/163 (60%), Positives = 119/163 (73%), Gaps = 1/163 (0%)

Query: 9   DDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD 68
           D++  + P   E  +VLVGRTGNGKSATGNSI+  + FKS+  SSGVT  C   + V  +
Sbjct: 32  DEFSASQPHPVE-NIVLVGRTGNGKSATGNSIVRSKVFKSKTKSSGVTMECHAVKAVTPE 90

Query: 69  GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHS 128
           G ++NVIDTPGLFD S  +EF+GKEIVKC+ +A  G+HAVL+V SVR+R SQEEE  L +
Sbjct: 91  GPILNVIDTPGLFDLSVSAEFIGKEIVKCLTLADGGLHAVLLVLSVRTRISQEEEMVLST 150

Query: 129 LQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK 171
           LQ LFG KI 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 =  180 bits (457), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 83/157 (52%), Positives = 116/157 (73%), Gaps = 4/157 (2%)

Query: 21  RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL 80
           + +VLVGRTGNGKS+TGN++LG + FKS+  + GVT  CEM R  ++DG ++NVIDTPGL
Sbjct: 6   KNIVLVGRTGNGKSSTGNTLLGTKQFKSKNQAKGVTMICEMYRAAIQDGPIINVIDTPGL 65

Query: 81  FDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDY 140
            D     + +  EI+ C+ MA++GIHAVL+V S R R S+EEE+ +++LQ +FG +I DY
Sbjct: 66  CDSFVPGDDISNEIINCLTMAEEGIHAVLLVLSARGRISKEEESTVNTLQCIFGSQILDY 125

Query: 141 MIVVFTGGDELEDNDETLEDYLGRECP----KPLKVC 173
            IVVFTGGD+LE++D+TL+DY    CP    K L++C
Sbjct: 126 CIVVFTGGDDLEEDDQTLDDYFRAGCPEFLTKVLRLC 162

Arabidopsis thaliana (taxid: 3702)

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

 Score =  124 bits (311), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 64/156 (41%), Positives = 100/156 (64%), Gaps = 5/156 (3%)

Query: 16  PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVI 75
           P N +  +VLVG+TG GKSATGNSILGR+ F S  ++  +T  CE + +  K+ ++V V+
Sbjct: 26  PRNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKETELV-VV 84

Query: 76  DTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK 135
           DTPG+FD    +    KEI++CI +   G HA+L+V  +  R+++EE  A   +  +FG+
Sbjct: 85  DTPGIFDTEVPNAETSKEIIRCILLTSPGPHALLLVVPL-GRYTEEEHKATEKILKMFGE 143

Query: 136 KIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK 171
           +   +MI++FT  D+L D +  L DYL RE P+ ++
Sbjct: 144 RARSFMILIFTRKDDLGDTN--LHDYL-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 =  104 bits (260), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 57/140 (40%), Positives = 86/140 (61%), Gaps = 4/140 (2%)

Query: 23  VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 82
           +VL+G+TG GKS+TGNSILGR+AF S   +  +T  CE   ++  DG+ + V+DTPG+FD
Sbjct: 33  IVLLGKTGAGKSSTGNSILGRKAFLSGICAKSITKVCEKGVSIW-DGKELVVVDTPGIFD 91

Query: 83  FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMI 142
                    KEI +C+ +   G HA+L+V  +   ++ EE  A   L ++F KK   +MI
Sbjct: 92  TEVPDADTQKEITRCVALTSPGPHALLLVIPLGC-YTVEEHKATRKLLSMFEKKARRFMI 150

Query: 143 VVFTGGDELEDNDETLEDYL 162
           ++ T  D+LED D  + +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 =  103 bits (256), Expect = 7e-22,   Method: Compositional matrix adjust.
 Identities = 64/150 (42%), Positives = 94/150 (62%), Gaps = 6/150 (4%)

Query: 23  VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 82
           ++LVG+TG+GKSATGNSILGR+AF+S+ S+  VT+T + + T   +G+ + VIDTP +F 
Sbjct: 106 LLLVGKTGSGKSATGNSILGRQAFESKISARPVTTTFQ-KGTREFEGKELEVIDTPDIFS 164

Query: 83  FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMI 142
                E   K+I  C  +A  G HAVL+V  V  R++ E++A    LQ +FG  I  Y I
Sbjct: 165 PQNQPEATAKKI--CDLLASPGPHAVLLVIQV-GRYTAEDQAVARCLQEIFGNTILAYTI 221

Query: 143 VVFTGGDELEDNDETLEDYLGRECPKPLKV 172
           +VFT  ++L +   +LE+Y+     K L V
Sbjct: 222 LVFTRKEDLAEG--SLEEYIQENNNKSLDV 249

Mus musculus (taxid: 10090)

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

 Score =  102 bits (253), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 56/146 (38%), Positives = 87/146 (59%), Gaps = 5/146 (3%)

Query: 23  VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 82
           +VL+G+TG GKS+TGNSILG + F S   +  +T  CE +R    DG+ + V+DTPG+FD
Sbjct: 33  IVLLGKTGAGKSSTGNSILGEKVFNSGICAKSITKVCE-KRVSTWDGKELVVVDTPGIFD 91

Query: 83  FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMI 142
                    +EI + + +   G HA+L+V  +  R++ EE  A   +  +FGK+   +MI
Sbjct: 92  TEVPDADTQREITRYVALTSPGPHALLLVVPL-GRYTVEEHKATQKILDMFGKQARRFMI 150

Query: 143 VVFTGGDELEDNDETLEDYLGRECPK 168
           ++ T  D+LED D  + +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 = 98.6 bits (244), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 51/130 (39%), Positives = 82/130 (63%), Gaps = 2/130 (1%)

Query: 23  VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 82
           +VLVG+TG+GKSAT N+ILG   F SR ++  VT  C+      + G+ + V+DTPGLFD
Sbjct: 11  IVLVGKTGSGKSATANTILGEEIFDSRIAAQAVTKNCQKASREWQ-GRDLLVVDTPGLFD 69

Query: 83  FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMI 142
                +   KEI +CI  +  G HA+++V  +  R+++EE+  +  ++ +FGK    +M+
Sbjct: 70  TKESLDTTCKEISRCIISSCPGPHAIVLVL-LLGRYTEEEQKTVALIKAVFGKSAMKHMV 128

Query: 143 VVFTGGDELE 152
           ++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 = 97.8 bits (242), Expect = 4e-20,   Method: Compositional matrix adjust.
 Identities = 59/140 (42%), Positives = 86/140 (61%), Gaps = 6/140 (4%)

Query: 23  VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 82
           ++LVG+TG+GKSATGNSILGR+ F+S+ S+  VT   +     L +G+ + VIDTP +  
Sbjct: 105 LLLVGKTGSGKSATGNSILGRQVFESKISARPVTMAFQKGSREL-EGKELEVIDTPDILS 163

Query: 83  FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMI 142
                E   K+I  C  +A  G HAVL+V  V  R++ E++ A   LQ +FG  I  Y I
Sbjct: 164 PQNQPEATAKKI--CDILASPGPHAVLLVIQV-GRYTTEDQEAARCLQEIFGNGILAYTI 220

Query: 143 VVFTGGDELEDNDETLEDYL 162
           +VFT  +EL +   +LE+Y+
Sbjct: 221 LVFTRKEELAEG--SLEEYI 238

Rattus norvegicus (taxid: 10116)

>sp|Q75N62|GIMA8_MOUSE GTPase IMAP family member 8 OS=Mus musculus GN=Gimap8 PE=2 SV=1

 Score = 94.0 bits (232), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 60/154 (38%), Positives = 91/154 (59%), Gaps = 9/154 (5%)

Query: 22  TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF 81
            ++L+GR+G GKSATGN+ILGR AF S+  +  VTS+ +  +  L D Q V V+DTP  F
Sbjct: 477 NIILLGRSGAGKSATGNTILGRSAFFSQLRAQPVTSSSQSGKRTL-DWQDVVVVDTPS-F 534

Query: 82  DFSAGSE----FVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKI 137
             + G+E     + +EI  C+ + ++G+   ++V  +  RF+QE+E  +  L+  F + I
Sbjct: 535 IQTPGTEKDPSRLKEEIHHCLSLCEEGMKIFVLVLQL-GRFTQEDEVVVEQLEASFEENI 593

Query: 138 FDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK 171
             YMIV+FT  ++L D D  L DY      K LK
Sbjct: 594 MKYMIVLFTRKEDLGDGD--LHDYTNNTKNKALK 625

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

Mus musculus (taxid: 10090)

>sp|Q4KLG2|GIMA8_RAT GTPase IMAP family member 8 OS=Rattus norvegicus GN=Gimap8 PE=2 SV=1

 Score = 93.2 bits (230), Expect = 8e-19,   Method: Compositional matrix adjust.
 Identities = 64/157 (40%), Positives = 93/157 (59%), Gaps = 10/157 (6%)

Query: 23  VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 82
           ++L+GR+G GKSATGN+ILGR AF S+  +  VTS  +  R  L D Q + V+DTP L  
Sbjct: 477 IILLGRSGVGKSATGNTILGRPAFVSQLRAQPVTSRSQSGRRTL-DWQDIVVVDTPSLNQ 535

Query: 83  FSAGSE----FVGKEIVKC-IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKI 137
            S G+E     + KEI +C +   ++G+   ++VF +  RF+QE+EA +  L+  F + I
Sbjct: 536 MS-GTEKNPAQLKKEIKQCLLQNCEEGMKVFVLVFQL-GRFTQEDEAVVEQLEASFEENI 593

Query: 138 FDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKVCF 174
             YMIV+FT  ++L D D  L D+      K LK  F
Sbjct: 594 MKYMIVLFTRKEDLGDGD--LYDFTNNTKNKVLKRIF 628

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

Rattus norvegicus (taxid: 10116)

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	174
255539412	339	aig1, putative [Ricinus communis] gi|223	0.977	0.501	0.905	6e-88
224146305	335	predicted protein [Populus trichocarpa]	0.977	0.507	0.894	4e-87
296089429	345	unnamed protein product [Vitis vinifera]	0.977	0.492	0.858	2e-84
225460273	340	PREDICTED: protein AIG1 [Vitis vinifera]	0.977	0.5	0.858	2e-84
147836179	566	hypothetical protein VITISV_037325 [Viti	0.977	0.300	0.852	6e-82
224136037	259	predicted protein [Populus trichocarpa]	0.902	0.606	0.904	2e-78
363814318	336	uncharacterized protein LOC100807910 [Gl	0.977	0.505	0.811	2e-76
356526433	350	PREDICTED: protein AIG1-like [Glycine ma	0.954	0.474	0.819	7e-76
4097585	344	NTGP4, partial [Nicotiana tabacum]	0.965	0.488	0.764	6e-73
449464872	341	PREDICTED: protein AIG1-like [Cucumis sa	0.977	0.498	0.821	1e-69

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

 Score =  328 bits (840), Expect = 6e-88,   Method: Compositional matrix adjust.
 Identities = 154/170 (90%), Positives = 164/170 (96%)

Query: 2   MGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 61
           MGGSAIDDDWELTSPSNG RTVVLVGRTGNGKSATGNS+LGR+AFKSRASSSGVTSTCE+
Sbjct: 1   MGGSAIDDDWELTSPSNGVRTVVLVGRTGNGKSATGNSLLGRKAFKSRASSSGVTSTCEL 60

Query: 62  QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE 121
           Q+TV+ DGQV+NV+DTPGLFDFSA SEFVGKEIVKCI MAKDGIHAVLVVFSVR+RFSQE
Sbjct: 61  QQTVITDGQVINVVDTPGLFDFSAESEFVGKEIVKCINMAKDGIHAVLVVFSVRTRFSQE 120

Query: 122 EEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK 171
           EEAAL SLQTLFG KIFDYMIVVFTGGDELEDNDETLEDYLGRECP+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 =  325 bits (833), Expect = 4e-87,   Method: Compositional matrix adjust.
 Identities = 152/170 (89%), Positives = 163/170 (95%)

Query: 2   MGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 61
           MGGSA+DDDWE  SPSNG RT+VLVGRTGNGKSATGNSILGR+AFKSRASSSGVTS+CE+
Sbjct: 1   MGGSAMDDDWEFASPSNGVRTIVLVGRTGNGKSATGNSILGRKAFKSRASSSGVTSSCEL 60

Query: 62  QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE 121
           QRTVL+DGQ++NVIDTPGLFDFSAGSEFVG+EIVKCI MAKDGIHAVLVVFSVR+RFSQE
Sbjct: 61  QRTVLRDGQIINVIDTPGLFDFSAGSEFVGREIVKCINMAKDGIHAVLVVFSVRTRFSQE 120

Query: 122 EEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK 171
           EEAAL SLQTLFG KI DYMIVVFTGGDELEDNDETLEDYLGRECP+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 =  317 bits (811), Expect = 2e-84,   Method: Compositional matrix adjust.
 Identities = 146/170 (85%), Positives = 163/170 (95%)

Query: 2   MGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 61
           MGGS+IDD+WE T+PS+G RT+VLVGRTGNGKSATGNSILGR++FKSRASSSGVTSTCE+
Sbjct: 6   MGGSSIDDEWEFTAPSSGVRTLVLVGRTGNGKSATGNSILGRKSFKSRASSSGVTSTCEL 65

Query: 62  QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE 121
           QRT+L+DGQ+VNVIDTPGLFD SA S+FVGKEIVKCI +AKDG+HAVLVVFSVR+RFS+E
Sbjct: 66  QRTILRDGQIVNVIDTPGLFDLSAESDFVGKEIVKCIDLAKDGVHAVLVVFSVRTRFSKE 125

Query: 122 EEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK 171
           EEAALHSLQTLFG KI DYMIVVFTGGDELEDNDETLEDYLGRECP+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 =  316 bits (810), Expect = 2e-84,   Method: Compositional matrix adjust.
 Identities = 146/170 (85%), Positives = 163/170 (95%)

Query: 2   MGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 61
           MGGS+IDD+WE T+PS+G RT+VLVGRTGNGKSATGNSILGR++FKSRASSSGVTSTCE+
Sbjct: 1   MGGSSIDDEWEFTAPSSGVRTLVLVGRTGNGKSATGNSILGRKSFKSRASSSGVTSTCEL 60

Query: 62  QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE 121
           QRT+L+DGQ+VNVIDTPGLFD SA S+FVGKEIVKCI +AKDG+HAVLVVFSVR+RFS+E
Sbjct: 61  QRTILRDGQIVNVIDTPGLFDLSAESDFVGKEIVKCIDLAKDGVHAVLVVFSVRTRFSKE 120

Query: 122 EEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK 171
           EEAALHSLQTLFG KI DYMIVVFTGGDELEDNDETLEDYLGRECP+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 =  308 bits (788), Expect = 6e-82,   Method: Compositional matrix adjust.
 Identities = 145/170 (85%), Positives = 162/170 (95%)

Query: 2   MGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 61
           MGGS+IDD+WE T+PS+G RT+VLVGRTGNGKSATGNSILGR++FKSRASSSGVTSTCE+
Sbjct: 1   MGGSSIDDEWEFTAPSSGVRTLVLVGRTGNGKSATGNSILGRKSFKSRASSSGVTSTCEL 60

Query: 62  QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE 121
           QRT+L+DGQ+VNVIDTPGLFD SA S+FVGKEIVKCI +AKDG+HAVLVVFSVR+RFS+E
Sbjct: 61  QRTILRDGQIVNVIDTPGLFDLSAESDFVGKEIVKCIDLAKDGVHAVLVVFSVRTRFSKE 120

Query: 122 EEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK 171
           EEAALHSLQTLFG KI DYMIVVFTGGDELEDNDE 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 =  296 bits (759), Expect = 2e-78,   Method: Compositional matrix adjust.
 Identities = 142/157 (90%), Positives = 150/157 (95%)

Query: 15  SPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNV 74
           SPSNG RTVVLVGRTGNGKSATGNSILG++AFKSRASSSGVTSTCE+Q TVL DGQ++NV
Sbjct: 2   SPSNGVRTVVLVGRTGNGKSATGNSILGKKAFKSRASSSGVTSTCELQSTVLGDGQIINV 61

Query: 75  IDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFG 134
           IDTPGLFDFSAGSEFVG+EIVKCI MAKDGIHAVLVVFSVR+RFSQEEEAAL SLQTLFG
Sbjct: 62  IDTPGLFDFSAGSEFVGREIVKCINMAKDGIHAVLVVFSVRTRFSQEEEAALRSLQTLFG 121

Query: 135 KKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK 171
            KI DYMIVVFTGGDELEDNDETLEDYLGRECP+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 =  290 bits (741), Expect = 2e-76,   Method: Compositional matrix adjust.
 Identities = 138/170 (81%), Positives = 153/170 (90%)

Query: 2   MGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 61
           MGGS+I DDWELTS SN  RTVVLVGRTGNGKSATGN+ILGR+ FKSRASSS V+++CE+
Sbjct: 1   MGGSSIGDDWELTSSSNEGRTVVLVGRTGNGKSATGNTILGRKVFKSRASSSAVSTSCEL 60

Query: 62  QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE 121
           Q T L DGQ+VNVIDTPGLFD S GSEFVGKEIVKCI +AKDGIHAV+VVFSVR+RF++E
Sbjct: 61  QTTELNDGQIVNVIDTPGLFDLSVGSEFVGKEIVKCIDLAKDGIHAVIVVFSVRTRFTEE 120

Query: 122 EEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK 171
           EE AL SLQTLFG KI 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 =  288 bits (736), Expect = 7e-76,   Method: Compositional matrix adjust.
 Identities = 136/166 (81%), Positives = 153/166 (92%)

Query: 6   AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTV 65
           +IDDDWELTS SN  RTVVLVGRTGNGKSATGN+ILGR+AFKSRASSS V+++CE++ T 
Sbjct: 19  SIDDDWELTSSSNEVRTVVLVGRTGNGKSATGNTILGRKAFKSRASSSAVSTSCELKTTE 78

Query: 66  LKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAA 125
           L +GQ+VNVIDTPGLFD SAGSEFVGKEIVKCI +AKDGIHAV+VVFSVR+RF++EEE A
Sbjct: 79  LNNGQIVNVIDTPGLFDLSAGSEFVGKEIVKCIDLAKDGIHAVIVVFSVRTRFTEEEETA 138

Query: 126 LHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK 171
           L SLQTLFG KI DYMIVVFTGGDELE+NDETLEDYLGRECP+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 =  278 bits (711), Expect = 6e-73,   Method: Compositional matrix adjust.
 Identities = 130/170 (76%), Positives = 153/170 (90%), Gaps = 2/170 (1%)

Query: 2   MGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 61
           MGGSAI DDWE  +  NG RT+VLVGRTGNGKSATGNSILGR+AF+S +SS+GVTSTCE+
Sbjct: 6   MGGSAISDDWEFAA--NGARTLVLVGRTGNGKSATGNSILGRKAFRSMSSSAGVTSTCEL 63

Query: 62  QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE 121
           QRTVL+DGQ+++VIDTPGLFDFSA  EF+G EIVKCI MAKDGIHAVLVV SVR+RFS+E
Sbjct: 64  QRTVLEDGQILDVIDTPGLFDFSAEPEFIGNEIVKCINMAKDGIHAVLVVLSVRTRFSRE 123

Query: 122 EEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK 171
           E+AA+ SL+  FG KI DYM++VFTGGD+LEDN+ETLEDYLGR+CP+PLK
Sbjct: 124 EQAAVQSLREFFGGKISDYMVLVFTGGDDLEDNEETLEDYLGRDCPEPLK 173

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449464872|ref|XP_004150153.1| PREDICTED: protein AIG1-like [Cucumis sativus] gi|449520867|ref|XP_004167454.1| PREDICTED: protein AIG1-like [Cucumis sativus]

 Score =  267 bits (683), Expect = 1e-69,   Method: Compositional matrix adjust.
 Identities = 143/174 (82%), Positives = 156/174 (89%), Gaps = 4/174 (2%)

Query: 2   MGGSAIDDDWEL--TSPSNGE--RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTS 57
           MGGSAI++DWEL  TSP+NG   RTVVLVGRTGNGKSATGNSILGR+AFKSRA SSGVT 
Sbjct: 1   MGGSAIEEDWELDLTSPTNGRSARTVVLVGRTGNGKSATGNSILGRKAFKSRACSSGVTV 60

Query: 58  TCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSR 117
           T E+Q TVL DGQ ++VIDTPG+FDFSAGS+FVGKEIVKCI MAKDGIHAVLVVFSVR+R
Sbjct: 61  TSELQTTVLSDGQEIDVIDTPGMFDFSAGSDFVGKEIVKCIDMAKDGIHAVLVVFSVRTR 120

Query: 118 FSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK 171
           FS EEEAAL SLQTLFG KI +YMIVVFTGGDELE+N+ETLEDYLGR CP PLK
Sbjct: 121 FSLEEEAALRSLQTLFGSKIVNYMIVVFTGGDELEENEETLEDYLGRSCPDPLK 174

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	174
TAIR|locus:2009041	342	AT1G33970 [Arabidopsis thalian	0.971	0.494	0.570	2.6e-47
TAIR|locus:2203832	336	AT1G33930 [Arabidopsis thalian	0.936	0.485	0.509	9.9e-39
TAIR|locus:2203817	311	AT1G33950 [Arabidopsis thalian	0.890	0.498	0.496	3e-37
TAIR|locus:2203807	353	AIG1 "AVRRPT2-INDUCED GENE 1"	0.931	0.458	0.496	4.4e-36
TAIR|locus:2140558	394	AT4G09940 [Arabidopsis thalian	0.816	0.360	0.528	1.2e-35
TAIR|locus:2203797	326	AT1G33900 [Arabidopsis thalian	0.959	0.512	0.431	8.3e-35
TAIR|locus:2203802	334	AT1G33890 [Arabidopsis thalian	0.919	0.479	0.443	4.1e-33
TAIR|locus:2039528	463	PP2-A3 "phloem protein 2-A3" [	0.879	0.330	0.433	1.3e-31
TAIR|locus:2140568	336	AT4G09950 [Arabidopsis thalian	0.764	0.395	0.482	3.8e-30
TAIR|locus:2203792	301	AT1G33910 [Arabidopsis thalian	0.862	0.498	0.436	3.4e-29

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

 Score = 495 (179.3 bits), Expect = 2.6e-47, P = 2.6e-47
 Identities = 97/170 (57%), Positives = 118/170 (69%)

Query:     2 MGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 61
             MGG  ++DDWE  S SN +RT+VLVGRTGNGKSATGNSILGR+AF+SRA + GVTSTCE 
Sbjct:     6 MGGDMMEDDWEFASSSNPKRTLVLVGRTGNGKSATGNSILGRKAFRSRARTVGVTSTCES 65

Query:    62 QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQE 121
             QR V +DG ++NV+DTPGLFD S  ++F+GKEIV+CI +A+DGIHA+L          +E
Sbjct:    66 QRVVQEDGDIINVVDTPGLFDLSTAADFIGKEIVRCISLAEDGIHAILLVFSVRRLA-EE 124

Query:   122 EEAALHSLQTLFGKKIFDYMIVVFXXXXXXXXXXXXXXXYLGRECPKPLK 171
             E+  L  LQ LFG KI DYMIVVF               YL   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:2203832 AT1G33930 [Arabidopsis thaliana (taxid:3702)]

 Score = 414 (150.8 bits), Expect = 9.9e-39, P = 9.9e-39
 Identities = 83/163 (50%), Positives = 105/163 (64%)

Query:     9 DDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD 68
             D WEL S S   + VVLVGRTGNGKSATGNSI+GR+ F+S+  + GVT+ C+  R V  D
Sbjct:    24 DRWELPSASEPVKNVVLVGRTGNGKSATGNSIIGRKVFESKYQAVGVTTRCKTFRAVTPD 83

Query:    69 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHS 128
             G ++NVIDTPGLFD +  +EF+ KEIV C+ +A++G+HAV+          QEEE AL +
Sbjct:    84 GPIINVIDTPGLFDLAVSAEFISKEIVNCLILAREGLHAVVLVLSLSTRISQEEENALCT 143

Query:   129 LQTLFGKKIFDYMIVVFXXXXXXXXXXXXXXXYLGRECPKPLK 171
             LQ LFG KI DY+IVVF               YL   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:2203817 AT1G33950 [Arabidopsis thaliana (taxid:3702)]

 Score = 400 (145.9 bits), Expect = 3.0e-37, P = 3.0e-37
 Identities = 77/155 (49%), Positives = 99/155 (63%)

Query:    17 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVID 76
             S     +VLVGRTGNGKSATGNS++G++ F S+A +SGVT  C+    V KDG  +NVID
Sbjct:    13 SKQAENIVLVGRTGNGKSATGNSLIGKKVFASKAHASGVTMKCQTHGVVTKDGHKINVID 72

Query:    77 TPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHSLQTLFGKK 136
             TPGLFD S  +E++ KEIV+C+ +A+ GIHAVL          QEEE  L +LQ LFG +
Sbjct:    73 TPGLFDLSVSAEYISKEIVRCLTLAEGGIHAVLLVLSARTRITQEEENTLRTLQALFGSQ 132

Query:   137 IFDYMIVVFXXXXXXXXXXXXXXXYLGRECPKPLK 171
             I DY++VVF               YLGR+CP  +K
Sbjct:   133 ILDYVVVVFTGGDVLEECKETLEDYLGRDCPTFIK 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 = 389 (142.0 bits), Expect = 4.4e-36, P = 4.4e-36
 Identities = 81/163 (49%), Positives = 99/163 (60%)

Query:     9 DDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD 68
             D++  + P   E  +VLVGRTGNGKSATGNSI+  + FKS+  SSGVT  C   + V  +
Sbjct:    32 DEFSASQPHPVEN-IVLVGRTGNGKSATGNSIVRSKVFKSKTKSSGVTMECHAVKAVTPE 90

Query:    69 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHS 128
             G ++NVIDTPGLFD S  +EF+GKEIVKC+ +A  G+HAVL          QEEE  L +
Sbjct:    91 GPILNVIDTPGLFDLSVSAEFIGKEIVKCLTLADGGLHAVLLVLSVRTRISQEEEMVLST 150

Query:   129 LQTLFGKKIFDYMIVVFXXXXXXXXXXXXXXXYLGRECPKPLK 171
             LQ LFG KI DY+IVVF               YLG   P  LK
Sbjct:   151 LQVLFGSKIVDYLIVVFTGGDVLEDDGMTLEDYLGDNMPDFLK 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:2140558 AT4G09940 [Arabidopsis thaliana (taxid:3702)]

 Score = 385 (140.6 bits), Expect = 1.2e-35, P = 1.2e-35
 Identities = 75/142 (52%), Positives = 101/142 (71%)

Query:     4 GSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQR 63
             GS ++   +L       RT++LVGR+GNGKSATGNSILGR+AFKS+  +SGVT+ CE+Q 
Sbjct:    31 GSGLEVTCDLRLEHKPARTLLLVGRSGNGKSATGNSILGRKAFKSKGRASGVTTACELQS 90

Query:    64 TVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEE 123
             + L +GQ++NVIDTPGLF  S  +EF  +EI++C  + K+GI AVL          +EE+
Sbjct:    91 STLPNGQIINVIDTPGLFSLSPSTEFTCREILRCFSLTKEGIDAVLLVFSLKNRLTEEEK 150

Query:   124 AALHSLQTLFGKKIFDYMIVVF 145
             +AL +L+ LFG KI DYMIVVF
Sbjct:   151 SALFALKILFGSKIVDYMIVVF 172

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 = 377 (137.8 bits), Expect = 8.3e-35, P = 8.3e-35
 Identities = 73/169 (43%), Positives = 106/169 (62%)

Query:     5 SAIDDDWELTSPSNGE--RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ 62
             + ++D  +L  PS  E  + +VLVGRTGNGKSATGNS++G++ F+S   ++GVT  CE  
Sbjct:     2 AGLEDTTDLRLPSASEPIKNIVLVGRTGNGKSATGNSLIGKQVFRSETRATGVTMKCETC 61

Query:    63 RTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEE 122
               V   G  +NVIDTPGLFD S  +E++ +EI+ C+ +A+DG+HAV+          QEE
Sbjct:    62 VAVTPCGTGINVIDTPGLFDLSVSAEYLSQEIINCLVLAEDGLHAVVLVLSVRTRISQEE 121

Query:   123 EAALHSLQTLFGKKIFDYMIVVFXXXXXXXXXXXXXXXYLGRECPKPLK 171
             EA L++LQ +FG +I DY++V+F               YL + CP+ LK
Sbjct:   122 EATLNTLQVIFGSQIIDYLVVLFTGGDELEANNMTLDDYLSKGCPEFLK 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 = 361 (132.1 bits), Expect = 4.1e-33, P = 4.1e-33
 Identities = 71/160 (44%), Positives = 94/160 (58%)

Query:    12 ELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQV 71
             E  S     + +VLVGRTGNGKSATGNS++G+  F S A ++GVT TC+  + V   G  
Sbjct:     5 EQASAYKAVKNIVLVGRTGNGKSATGNSLIGKDVFVSEAKATGVTKTCQTYKAVTPGGSR 64

Query:    72 VNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHSLQT 131
             +NVIDTPGLFD S  +EF+ KEI+ C+ +A+ G+H V+          QEEE  L +LQ 
Sbjct:    65 INVIDTPGLFDLSVSAEFISKEIINCLRLAEGGLHVVVLVLSVRTRITQEEENTLSTLQV 124

Query:   132 LFGKKIFDYMIVVFXXXXXXXXXXXXXXXYLGRECPKPLK 171
             LFG +I DY+IV+F               Y  + CP  LK
Sbjct:   125 LFGNEILDYLIVLFTGGDELEANNQTLDDYFHQGCPYFLK 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 = 347 (127.2 bits), Expect = 1.3e-31, P = 1.3e-31
 Identities = 68/157 (43%), Positives = 95/157 (60%)

Query:    21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL 80
             + +VLVGRTGNGKS+TGN++LG + FKS+  + GVT  CEM R  ++DG ++NVIDTPGL
Sbjct:     6 KNIVLVGRTGNGKSSTGNTLLGTKQFKSKNQAKGVTMICEMYRAAIQDGPIINVIDTPGL 65

Query:    81 FDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHSLQTLFGKKIFDY 140
              D     + +  EI+ C+ MA++GIHAVL          +EEE+ +++LQ +FG +I DY
Sbjct:    66 CDSFVPGDDISNEIINCLTMAEEGIHAVLLVLSARGRISKEEESTVNTLQCIFGSQILDY 125

Query:   141 MIVVFXXXXXXXXXXXXXXXYLGRECP----KPLKVC 173
              IVVF               Y    CP    K L++C
Sbjct:   126 CIVVFTGGDDLEEDDQTLDDYFRAGCPEFLTKVLRLC 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:2140568 AT4G09950 [Arabidopsis thaliana (taxid:3702)]

 Score = 333 (122.3 bits), Expect = 3.8e-30, P = 3.8e-30
 Identities = 67/139 (48%), Positives = 97/139 (69%)

Query:     7 IDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL 66
             +++DW+   P   ERT+VL+GRTGNGKSATGNSILG+  F+S+A    +T  C++ ++ L
Sbjct:    10 VENDWK---P---ERTLVLLGRTGNGKSATGNSILGKTMFQSKARGKFITKECKLHKSKL 63

Query:    67 KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAAL 126
              +G  +NVIDTPGLF  S+ ++F  +EIV+C+ +AK GI AVL          +EE++ L
Sbjct:    64 PNGLTINVIDTPGLFSASSTTDFTIREIVRCLLLAKGGIDAVLLVFSLRNRLTEEEQSTL 123

Query:   127 HSLQTLFGKKIFDYMIVVF 145
              +L+ LFG +I DY+IVVF
Sbjct:   124 RTLKILFGSQIVDYIIVVF 142

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:2203792 AT1G33910 [Arabidopsis thaliana (taxid:3702)]

 Score = 324 (119.1 bits), Expect = 3.4e-29, P = 3.4e-29
 Identities = 69/158 (43%), Positives = 94/158 (59%)

Query:    16 PSNGE--RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVN 73
             PS  E  R +VLVG TGNGKS+TGNS++G+  F           TC+  +T+  DGQ++N
Sbjct:     7 PSASEPVRNIVLVGPTGNGKSSTGNSLIGKEVFILETVEC---KTCKA-KTL--DGQIIN 60

Query:    74 VIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHSLQTLF 133
             VIDTPGLFD S  ++++ KEI+ C+ +   G+HAV+          +EEEAAL+ LQ LF
Sbjct:    61 VIDTPGLFDLSVSTDYMNKEIINCLTLTDGGLHAVVLVLSVGTDILKEEEAALNKLQLLF 120

Query:   134 GKKIFDYMIVVFXXXXXXXXXXXXXXXYLGRECPKPLK 171
             G KI DY++V+F               YL R CP+ LK
Sbjct:   121 GSKIVDYLVVLFTGGDVLEKENKTLDDYLSRGCPEFLK 158

GO:0005525 "GTP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0009617 "response to bacterium" evidence=ISS

---

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	174
pfam04548	211	pfam04548, AIG1, AIG1 family	3e-77
cd01852	201	cd01852, AIG1, AvrRpt2-Induced Gene 1 (AIG1)	5e-71
cd01853	248	cd01853, Toc34_like, Translocon at the Outer-envel	6e-13
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	5e-10
TIGR00993	763	TIGR00993, 3a0901s04IAP86, chloroplast protein imp	1e-07
pfam01926	117	pfam01926, MMR_HSR1, 50S ribosome-binding GTPase	2e-07
cd09912	180	cd09912, DLP_2, Dynamin-like protein including dyn	3e-07
cd00880	161	cd00880, Era_like, E	8e-07
TIGR00991	313	TIGR00991, 3a0901s02IAP34, GTP-binding protein (Ch	3e-05
cd01850	275	cd01850, CDC_Septin, CDC/Septin GTPase family	5e-04
PRK15494	339	PRK15494, era, GTPase Era; Provisional	5e-04
pfam00735	280	pfam00735, Septin, Septin	5e-04
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	6e-04
COG1160	444	COG1160, COG1160, Predicted GTPases [General funct	0.001
COG3596	296	COG3596, COG3596, Predicted GTPase [General functi	0.002

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

 Score =  229 bits (585), Expect = 3e-77
 Identities = 87/151 (57%), Positives = 115/151 (76%), Gaps = 4/151 (2%)

Query: 21  RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL 80
             +VLVG+TGNGKSATGNSILGR+AF+S+  + GVT TC++      DG+++NVIDTPGL
Sbjct: 1   LRIVLVGKTGNGKSATGNSILGRKAFESKLRAQGVTKTCQLVSRTW-DGRIINVIDTPGL 59

Query: 81  FDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDY 140
           FD S  ++F+ KEI++C+ +A+ G HAVL+V S+  RF++EEE AL +LQ LFG KI DY
Sbjct: 60  FDLSVSNDFISKEIIRCLLLAEPGPHAVLLVLSLG-RFTEEEEQALRTLQELFGSKILDY 118

Query: 141 MIVVFTGGDELEDNDETLEDYLGRECPKPLK 171
           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 =  212 bits (543), Expect = 5e-71
 Identities = 79/147 (53%), Positives = 106/147 (72%), Gaps = 4/147 (2%)

Query: 21  RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL 80
             +VLVG+TGNGKSATGN+ILGR+ F+S+ S+SGVT TC+ +  V  DG+ VNVIDTPGL
Sbjct: 1   LRLVLVGKTGNGKSATGNTILGRKVFESKLSASGVTKTCQKESAVW-DGRRVNVIDTPGL 59

Query: 81  FDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDY 140
           FD S   E + KEI++C+ ++  G HA L+V  +  RF++EEE A+  LQ LFG+K+ D+
Sbjct: 60  FDTSVSPEQLSKEIIRCLSLSAPGPHAFLLVVPLG-RFTEEEEQAVEELQELFGEKVLDH 118

Query: 141 MIVVFTGGDELEDNDETLEDYLGRECP 167
            IV+FT GD+LE    +LEDYL   C 
Sbjct: 119 TIVLFTRGDDLE--GGSLEDYLEDSCE 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 = 64.3 bits (157), Expect = 6e-13
 Identities = 45/128 (35%), Positives = 66/128 (51%), Gaps = 7/128 (5%)

Query: 22  TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF 81
           T++++G+TG GKS+T NSI G R     A  S      E+ RTV  DG  +N+IDTPGL 
Sbjct: 33  TILVLGKTGVGKSSTINSIFGERKVSVSAFQSETLRPREVSRTV--DGFKLNIIDTPGLL 90

Query: 82  DFSAGSEFVGKEIVKCIG--MAKDGIHAVLVVFSVRS-RFSQEEEAALHSLQTLFGKKIF 138
           +  +  + V ++I+  I   + K  I  VL V  +   R    +   L ++   FG  I+
Sbjct: 91  E--SQDQRVNRKILSIIKRFLKKKTIDVVLYVDRLDMYRVDNLDVPLLRAITDSFGPSIW 148

Query: 139 DYMIVVFT 146
              IVV T
Sbjct: 149 RNAIVVLT 156

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

 Score = 54.8 bits (132), Expect = 5e-10
 Identities = 46/151 (30%), Positives = 71/151 (47%), Gaps = 14/151 (9%)

Query: 24  VLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQV-VNVIDTPGLFD 82
           V+VGR G GKS+  N++LG       +   G T   ++    L  G+V + ++DTPGL +
Sbjct: 1   VVVGRGGVGKSSLLNALLGGE-VGEVSDVPGTTRDPDVYVKELDKGKVKLVLVDTPGLDE 59

Query: 83  FSA-GSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYM 141
           F   G E + + +++       G   +L+V     R S EE+A L  L+ L  + I   +
Sbjct: 60  FGGLGREELARLLLR-------GADLILLVVDSTDRES-EEDAKLLILRRLRKEGI--PI 109

Query: 142 IVVFTGGDELEDNDETLEDYLGRECPKPLKV 172
           I+V    D L +  E  E     E  K L V
Sbjct: 110 ILVGNKID-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|233224 TIGR00993, 3a0901s04IAP86, chloroplast protein import component Toc86/159, G and M domains

 Score = 50.3 bits (120), Expect = 1e-07
 Identities = 26/59 (44%), Positives = 36/59 (61%), Gaps = 2/59 (3%)

Query: 22  TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL 80
            ++++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|216791 pfam01926, MMR_HSR1, 50S ribosome-binding GTPase

 Score = 46.9 bits (112), Expect = 2e-07
 Identities = 29/125 (23%), Positives = 52/125 (41%), Gaps = 9/125 (7%)

Query: 22  TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF 81
            V LVGR   GKS   N++ G +     +   G T   +    VL  G+ + ++DTPG  
Sbjct: 1   RVALVGRPNVGKSTLINALTGAKVAIV-SDYPGTTR--DPILGVLGLGRQIILVDTPG-L 56

Query: 82  DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYM 141
              A      +   + +   ++    +L+V       ++++E  L  L+ L  K     +
Sbjct: 57  IEGASEGKGVEGFNRFLEAIRE-ADLILLVVDASEGLTEDDEEILEELEKLPKKP----I 111

Query: 142 IVVFT 146
           I+V  
Sbjct: 112 ILVLN 116

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

 Score = 47.9 bits (115), Expect = 3e-07
 Identities = 32/135 (23%), Positives = 51/135 (37%), Gaps = 15/135 (11%)

Query: 22  TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF 81
            + +VG    GKS   N++LG     +    +  T+   + R  L  G  V ++DTPGL 
Sbjct: 2   LLAVVGEFSAGKSTLLNALLGEEVLPT--GVTPTTAVITVLRYGLLKG--VVLVDTPGLN 57

Query: 82  DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYM 141
                   + +  +           AV+ V S     ++ E   L  +    GKKIF   
Sbjct: 58  STIEHHTEITESFLP-------RADAVIFVLSADQPLTESEREFLKEILKWSGKKIF--- 107

Query: 142 IVVFTGGDELEDNDE 156
             V    D L + + 
Sbjct: 108 -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|206646 cd00880, Era_like, E

 Score = 46.1 bits (110), Expect = 8e-07
 Identities = 34/133 (25%), Positives = 54/133 (40%), Gaps = 11/133 (8%)

Query: 24  VLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF 83
            + GR   GKS+  N++LG+      +   G T     +   L     V +IDTPGL + 
Sbjct: 1   AIFGRPNVGKSSLLNALLGQNVGIV-SPIPGTTRDPVRKEWELLPLGPVVLIDTPGLDEE 59

Query: 84  SAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIV 143
                   +E  +      D    VL+V  V S  +  EE A   L    GK +    ++
Sbjct: 60  GGLGRERVEEARQVA----DRADLVLLV--VDSDLTPVEEEAKLGLLRERGKPV----LL 109

Query: 144 VFTGGDELEDNDE 156
           V    D + +++E
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|130064 TIGR00991, 3a0901s02IAP34, GTP-binding protein (Chloroplast Envelope Protein Translocase)

 Score = 42.6 bits (100), Expect = 3e-05
 Identities = 24/61 (39%), Positives = 36/61 (59%), Gaps = 2/61 (3%)

Query: 22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF 81
          T++++G+ G GKS+T NSI+G R     A  S       + RT  + G  +N+IDTPGL 
Sbjct: 40 TILVMGKGGVGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRT--RAGFTLNIIDTPGLI 97

Query: 82 D 82
          +
Sbjct: 98 E 98

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

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

 Score = 39.1 bits (92), Expect = 5e-04
 Identities = 22/70 (31%), Positives = 38/70 (54%), Gaps = 8/70 (11%)

Query: 22 TVVLVGRTGNGKSATGNSILGRRAFKSR---ASSSGVTSTCEMQRT--VLKDGQV---VN 73
           +++VG +G GKS   N++ G + + S+   A    +T T E++ +   L++  V   + 
Sbjct: 6  NIMVVGESGLGKSTFINTLFGTKLYPSKYPPAPGEHITKTVEIKISKAELEENGVKLKLT 65

Query: 74 VIDTPGLFDF 83
          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

>gnl|CDD|185391 PRK15494, era, GTPase Era; Provisional

 Score = 39.3 bits (91), Expect = 5e-04
 Identities = 35/123 (28%), Positives = 55/123 (44%), Gaps = 17/123 (13%)

Query: 22  TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTV------LKDGQVVNVI 75
           +V ++GR  +GKS   N I+G +        S VT   +  R++      LKD QV+ + 
Sbjct: 54  SVCIIGRPNSGKSTLLNRIIGEKL-------SIVTPKVQTTRSIITGIITLKDTQVI-LY 105

Query: 76  DTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK 135
           DTPG+F+     E   K +V+C   +      VL++      F       L  L++L   
Sbjct: 106 DTPGIFEPKGSLE---KAMVRCAWSSLHSADLVLLIIDSLKSFDDITHNILDKLRSLNIV 162

Query: 136 KIF 138
            IF
Sbjct: 163 PIF 165

Length = 339

>gnl|CDD|201420 pfam00735, Septin, Septin

 Score = 38.8 bits (91), Expect = 5e-04
 Identities = 17/71 (23%), Positives = 30/71 (42%), Gaps = 8/71 (11%)

Query: 22 TVVLVGRTGNGKSATGNSILGR-----RAFKSRASSSGVTSTCEMQRTVLKDGQV---VN 73
          T+++VG +G GK+   N++        R     +     T   +     +++  V   + 
Sbjct: 6  TLMVVGESGLGKTTLINTLFLTDLIPERGIPGPSEKIKKTVEIKATTVEIEEDGVKLNLT 65

Query: 74 VIDTPGLFDFS 84
          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|232886 TIGR00231, small_GTP, small GTP-binding protein domain

 Score = 38.1 bits (89), Expect = 6e-04
 Identities = 21/91 (23%), Positives = 34/91 (37%), Gaps = 3/91 (3%)

Query: 20  ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQV-VNVIDTP 78
           E  +V+VG    GKS   N +LG +   +     G T                 N++DT 
Sbjct: 1   EIKIVIVGDPNVGKSTLLNRLLGNKISIT-EYKPGTTRNYVTTVIEEDGKTYKFNLLDTA 59

Query: 79  GLFDFSAGSEFVGKEIVKCIGMAKDGIHAVL 109
           G  D+ A      + +   + +  D +  VL
Sbjct: 60  GQEDYDAIRRLYYRAVESSLRVF-DIVILVL 89

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|224082 COG1160, COG1160, Predicted GTPases [General function prediction only]

 Score = 37.9 bits (89), Expect = 0.001
 Identities = 29/109 (26%), Positives = 43/109 (39%), Gaps = 16/109 (14%)

Query: 21  RTVVLVGRTGNGKSATGNSILGRRAFKSRASS-SGVT-----STCEMQRTVLKDGQVVNV 74
             V +VGR   GKS   N + GRR   +  S   GVT        E        G+   +
Sbjct: 4   PVVAIVGRPNVGKSTLFNRLTGRR--IAIVSDTPGVTRDRIYGDAEWL------GREFIL 55

Query: 75  IDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEE 123
           IDT GL D     + + + I +   +A +    +L V   R   +  +E
Sbjct: 56  IDTGGLDDGDE--DELQELIREQALIAIEEADVILFVVDGREGITPADE 102

Length = 444

>gnl|CDD|226124 COG3596, COG3596, Predicted GTPase [General function prediction only]

 Score = 37.5 bits (87), Expect = 0.002
 Identities = 35/142 (24%), Positives = 51/142 (35%), Gaps = 33/142 (23%)

Query: 23  VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 82
           V+L+G TG GKS+  N++          S  GV +    +  +  DG+ + + DTPGL D
Sbjct: 42  VLLMGATGAGKSSLINALFQGEV--KEVSKVGVGTDITTRLRLSYDGENLVLWDTPGLGD 99

Query: 83  FSAGSEFVGKEIVKCIGMAKDGIHA------------VLVVFSVRSRFSQEEEAALHSLQ 130
                           G  KD  H             VL +     R    +E  L  + 
Sbjct: 100 ----------------GKDKDAEHRQLYRDYLPKLDLVLWLIKADDRALGTDEDFLRDVI 143

Query: 131 TLFGKKIFDYMIVVFTGGDELE 152
            L   K    ++ V T  D  E
Sbjct: 144 ILGLDK---RVLFVVTQADRAE 162

Length = 296

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	174
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	99.95
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.95
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	99.9
COG1159	298	Era GTPase [General function prediction only]	99.89
COG1160	444	Predicted GTPases [General function prediction onl	99.88
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	99.87
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	99.85
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.83
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.81
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.81
PRK00089	292	era GTPase Era; Reviewed	99.8
COG0218	200	Predicted GTPase [General function prediction only	99.8
PRK15494	339	era GTPase Era; Provisional	99.79
COG1160	444	Predicted GTPases [General function prediction onl	99.79
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.78
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.78
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.78
PRK12298	390	obgE GTPase CgtA; Reviewed	99.78
PRK12299	335	obgE GTPase CgtA; Reviewed	99.77
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.77
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.77
COG1084	346	Predicted GTPase [General function prediction only	99.76
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.76
PRK03003	472	GTP-binding protein Der; Reviewed	99.76
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.76
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.76
PRK00093	435	GTP-binding protein Der; Reviewed	99.76
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.76
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.75
PRK00093	435	GTP-binding protein Der; Reviewed	99.75
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.75
COG0486	454	ThdF Predicted GTPase [General function prediction	99.75
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.74
PRK12297	424	obgE GTPase CgtA; Reviewed	99.74
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.74
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.74
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.73
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.73
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.73
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.73
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.73
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.73
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.73
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.72
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.72
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.72
cd00881	189	GTP_translation_factor GTP translation factor fami	99.72
COG3596	296	Predicted GTPase [General function prediction only	99.72
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.72
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.72
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.72
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.72
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.72
PRK12296	500	obgE GTPase CgtA; Reviewed	99.72
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.72
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.72
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.71
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.71
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.71
PRK03003	472	GTP-binding protein Der; Reviewed	99.71
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.71
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.71
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.71
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.71
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.7
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.7
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.7
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.7
PRK11058	426	GTPase HflX; Provisional	99.7
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.7
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.7
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.7
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.7
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.7
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.7
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.7
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.69
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.69
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.69
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.69
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.69
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.69
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.69
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.69
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.69
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.69
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.69
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.68
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.68
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.68
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.68
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.68
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.68
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.68
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.68
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.68
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.68
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.68
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.68
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.68
PTZ00133	182	ADP-ribosylation factor; Provisional	99.68
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	99.68
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.68
CHL00071	409	tufA elongation factor Tu	99.68
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.68
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.67
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.67
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.67
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.67
PRK04213	201	GTP-binding protein; Provisional	99.67
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.67
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.67
PLN00223	181	ADP-ribosylation factor; Provisional	99.67
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.67
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	99.66
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.66
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.66
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.66
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.66
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.66
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.66
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.66
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.66
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.66
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.66
PLN03110	216	Rab GTPase; Provisional	99.66
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	99.66
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.66
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.65
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	99.65
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.65
PRK05306	787	infB translation initiation factor IF-2; Validated	99.65
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.65
PLN03108	210	Rab family protein; Provisional	99.65
PLN03118	211	Rab family protein; Provisional	99.65
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.65
PTZ00369	189	Ras-like protein; Provisional	99.64
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.64
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.64
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.64
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.64
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.64
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.64
PLN03127	447	Elongation factor Tu; Provisional	99.64
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.63
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.63
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.63
CHL00189	742	infB translation initiation factor 2; Provisional	99.63
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.63
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.63
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.63
PRK12735	396	elongation factor Tu; Reviewed	99.63
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.63
PRK12736	394	elongation factor Tu; Reviewed	99.63
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.63
PRK12317	425	elongation factor 1-alpha; Reviewed	99.62
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.62
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.62
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	99.62
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.62
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.62
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.62
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.62
COG0536	369	Obg Predicted GTPase [General function prediction	99.62
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.61
PRK12739	691	elongation factor G; Reviewed	99.61
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	99.61
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.61
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.61
PRK00049	396	elongation factor Tu; Reviewed	99.61
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.61
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.61
PRK00007	693	elongation factor G; Reviewed	99.61
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.61
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.61
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.61
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.6
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.6
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.6
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	99.6
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.6
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.6
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.6
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	99.6
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.6
PLN03126	478	Elongation factor Tu; Provisional	99.6
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.6
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.6
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.6
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.59
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.59
PRK10218	607	GTP-binding protein; Provisional	99.59
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.59
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.58
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.58
PLN00023	334	GTP-binding protein; Provisional	99.58
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.58
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.58
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.58
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.58
COG2229	187	Predicted GTPase [General function prediction only	99.58
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.58
COG2262	411	HflX GTPases [General function prediction only]	99.57
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.57
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.57
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.57
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	99.57
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.57
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.57
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.57
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.56
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.56
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.56
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	99.56
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.55
PRK09866	741	hypothetical protein; Provisional	99.55
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.54
PRK13351	687	elongation factor G; Reviewed	99.54
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.54
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.54
PRK04004	586	translation initiation factor IF-2; Validated	99.54
PTZ00141	446	elongation factor 1- alpha; Provisional	99.53
COG5019	373	CDC3 Septin family protein [Cell division and chro	99.53
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	99.53
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.53
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.53
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.53
KOG2655	366	consensus Septin family protein (P-loop GTPase) [C	99.53
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	99.52
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	99.52
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	99.51
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.5
PRK05433	600	GTP-binding protein LepA; Provisional	99.5
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.49
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	99.49
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.48
PTZ00416	836	elongation factor 2; Provisional	99.48
COG1100	219	GTPase SAR1 and related small G proteins [General	99.48
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	99.47
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.46
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	99.45
PLN00116	843	translation elongation factor EF-2 subunit; Provis	99.45
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	99.44
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.44
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.44
COG1163	365	DRG Predicted GTPase [General function prediction	99.44
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	99.44
KOG1145	683	consensus Mitochondrial translation initiation fac	99.41
KOG1547	336	consensus Septin CDC10 and related P-loop GTPases	99.4
PLN00043	447	elongation factor 1-alpha; Provisional	99.4
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	99.4
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.4
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.4
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.39
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	99.38
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	99.37
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	99.37
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	99.37
PRK12740	668	elongation factor G; Reviewed	99.36
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.36
KOG0090	238	consensus Signal recognition particle receptor, be	99.36
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	99.36
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	99.35
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	99.35
PRK07560	731	elongation factor EF-2; Reviewed	99.35
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.34
PTZ00258	390	GTP-binding protein; Provisional	99.33
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	99.33
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	99.33
KOG0394	210	consensus Ras-related GTPase [General function pre	99.33
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	99.32
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	99.32
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	99.31
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	99.3
PRK09601	364	GTP-binding protein YchF; Reviewed	99.3
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	99.3
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	99.26
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	99.26
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	99.25
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	99.25
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	99.25
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	99.25
KOG0462	650	consensus Elongation factor-type GTP-binding prote	99.25
PRK13536	340	nodulation factor exporter subunit NodI; Provision	99.25
cd03216	163	ABC_Carb_Monos_I This family represents the domain	99.24
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	99.24
cd03246	173	ABCC_Protease_Secretion This family represents the	99.24
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	99.24
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	99.24
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	99.23
COG1125	309	OpuBA ABC-type proline/glycine betaine transport s	99.23
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.23
PRK13537	306	nodulation ABC transporter NodI; Provisional	99.23
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	99.22
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	99.22
cd03215	182	ABC_Carb_Monos_II This family represents domain II	99.22
COG1135	339	AbcC ABC-type metal ion transport system, ATPase c	99.22
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	99.22
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	99.22
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	99.22
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	99.22
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	99.22
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	99.22
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	99.21
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	99.21
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	99.2
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	99.2
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	99.2
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	99.2
PRK10908	222	cell division protein FtsE; Provisional	99.2
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	99.2
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	99.19
cd03269	210	ABC_putative_ATPase This subfamily is involved in	99.19
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	99.19
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.19
PRK09602	396	translation-associated GTPase; Reviewed	99.19
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	99.19
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	99.19
TIGR01288	303	nodI ATP-binding ABC transporter family nodulation	99.19
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	99.19
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	99.19
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	99.18
COG4988	559	CydD ABC-type transport system involved in cytochr	99.18
COG3845	501	ABC-type uncharacterized transport systems, ATPase	99.18
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	99.18
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	99.18
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	99.18
COG0488	530	Uup ATPase components of ABC transporters with dup	99.17
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	99.17
COG4152	300	ABC-type uncharacterized transport system, ATPase	99.17
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	99.17
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	99.17
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	99.16
cd03296	239	ABC_CysA_sulfate_importer Part of the ABC transpor	99.16
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	99.16
PRK11000	369	maltose/maltodextrin transporter ATP-binding prote	99.16
PRK11650	356	ugpC glycerol-3-phosphate transporter ATP-binding	99.16
TIGR01186	363	proV glycine betaine/L-proline transport ATP bindi	99.16
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.16
KOG0395	196	consensus Ras-related GTPase [General function pre	99.15
COG3276	447	SelB Selenocysteine-specific translation elongatio	99.15
PRK11432	351	fbpC ferric transporter ATP-binding subunit; Provi	99.15
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	99.15
TIGR02211	221	LolD_lipo_ex lipoprotein releasing system, ATP-bin	99.15
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	99.15
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	99.14
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	99.14
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	99.14
cd03258	233	ABC_MetN_methionine_transporter MetN (also known a	99.14
cd03295	242	ABC_OpuCA_Osmoprotection OpuCA is a the ATP bindin	99.14
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	99.14
cd03298	211	ABC_ThiQ_thiamine_transporter ABC-type thiamine tr	99.14
COG0410	237	LivF ABC-type branched-chain amino acid transport	99.14
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	99.14
COG1127	263	Ttg2A ABC-type transport system involved in resist	99.14
PRK11629	233	lolD lipoprotein transporter ATP-binding subunit;	99.13
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	99.13
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	99.13
TIGR03265	353	PhnT2 putative 2-aminoethylphosphonate ABC transpo	99.13
TIGR02314	343	ABC_MetN D-methionine ABC transporter, ATP-binding	99.13
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	99.13
PRK10247	225	putative ABC transporter ATP-binding protein YbbL;	99.13
TIGR03864	236	PQQ_ABC_ATP ABC transporter, ATP-binding subunit,	99.13
COG0411	250	LivG ABC-type branched-chain amino acid transport	99.13
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	99.13
COG4586	325	ABC-type uncharacterized transport system, ATPase	99.12
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	99.12
COG1118	345	CysA ABC-type sulfate/molybdate transport systems,	99.12
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	99.12
cd03257	228	ABC_NikE_OppD_transporters The ABC transporter sub	99.11
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	99.11
PRK09452	375	potA putrescine/spermidine ABC transporter ATPase	99.11
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	99.11
PRK11153	343	metN DL-methionine transporter ATP-binding subunit	99.11
PRK13548	258	hmuV hemin importer ATP-binding subunit; Provision	99.11
cd03300	232	ABC_PotA_N PotA is an ABC-type transporter and the	99.11
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	99.1
PRK13632	271	cbiO cobalt transporter ATP-binding subunit; Provi	99.1
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	99.1
TIGR00968	237	3a0106s01 sulfate ABC transporter, ATP-binding pro	99.1
PRK11831	269	putative ABC transporter ATP-binding protein YrbF;	99.1
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	99.1
PRK11264	250	putative amino-acid ABC transporter ATP-binding pr	99.1
PRK10851	353	sulfate/thiosulfate transporter subunit; Provision	99.1
PRK09493	240	glnQ glutamine ABC transporter ATP-binding protein	99.09
PRK09536	402	btuD corrinoid ABC transporter ATPase; Reviewed	99.09
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	99.09
PRK11614	237	livF leucine/isoleucine/valine transporter ATP-bin	99.09
PRK13648	269	cbiO cobalt transporter ATP-binding subunit; Provi	99.09
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	99.09
KOG1486	364	consensus GTP-binding protein DRG2 (ODN superfamil	99.09
PRK10771	232	thiQ thiamine transporter ATP-binding subunit; Pro	99.09
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	99.09
PRK14250	241	phosphate ABC transporter ATP-binding protein; Pro	99.08
COG4555	245	NatA ABC-type Na+ transport system, ATPase compone	99.08
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	99.08
COG3842	352	PotA ABC-type spermidine/putrescine transport syst	99.08
PRK10575	265	iron-hydroxamate transporter ATP-binding subunit;	99.08
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	99.08
PRK13635	279	cbiO cobalt transporter ATP-binding subunit; Provi	99.08
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	99.08
PRK11124	242	artP arginine transporter ATP-binding subunit; Pro	99.08
PRK15177	213	Vi polysaccharide export ATP-binding protein VexC;	99.08
TIGR03258	362	PhnT 2-aminoethylphosphonate ABC transport system,	99.08
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	99.07
PRK10070	400	glycine betaine transporter ATP-binding subunit; P	99.07
TIGR02769	265	nickel_nikE nickel import ATP-binding protein NikE	99.07
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	99.07
COG4619	223	ABC-type uncharacterized transport system, ATPase	99.07
PRK11607	377	potG putrescine transporter ATP-binding subunit; P	99.07
COG3638	258	ABC-type phosphate/phosphonate transport system, A	99.07
cd03256	241	ABC_PhnC_transporter ABC-type phosphate/phosphonat	99.07
PRK13644	274	cbiO cobalt transporter ATP-binding subunit; Provi	99.06
PRK15112	267	antimicrobial peptide ABC system ATP-binding prote	99.06
TIGR03005	252	ectoine_ehuA ectoine/hydroxyectoine ABC transporte	99.06
PRK10253	265	iron-enterobactin transporter ATP-binding protein;	99.06
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	99.06
TIGR03415	382	ABC_choXWV_ATP choline ABC transporter, ATP-bindin	99.06
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	99.05
TIGR02982	220	heterocyst_DevA ABC exporter ATP-binding subunit,	99.05
COG0050	394	TufB GTPases - translation elongation factors [Tra	99.05
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	99.05
TIGR02142	354	modC_ABC molybdenum ABC transporter, ATP-binding p	99.05
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	99.05
TIGR02315	243	ABC_phnC phosphonate ABC transporter, ATP-binding	99.05
TIGR03873	256	F420-0_ABC_ATP proposed F420-0 ABC transporter, AT	99.04
PRK11144	352	modC molybdate transporter ATP-binding protein; Pr	99.04
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	99.04
KOG0447	980	consensus Dynamin-like GTP binding protein [Genera	99.04
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	99.04
PRK13638	271	cbiO cobalt transporter ATP-binding subunit; Provi	99.04
PRK13768	253	GTPase; Provisional	99.04
PRK10619	257	histidine/lysine/arginine/ornithine transporter su	99.04
COG2884	223	FtsE Predicted ATPase involved in cell division [C	99.04
PRK13541	195	cytochrome c biogenesis protein CcmA; Provisional	99.04
KOG2486	320	consensus Predicted GTPase [General function predi	99.04
PRK13650	279	cbiO cobalt transporter ATP-binding subunit; Provi	99.03
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	99.03
PRK13633	280	cobalt transporter ATP-binding subunit; Provisiona	99.03
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	99.03
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	99.03
cd03235	213	ABC_Metallic_Cations ABC component of the metal-ty	99.02
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	99.02
PRK11231	255	fecE iron-dicitrate transporter ATP-binding subuni	99.02
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	99.02
cd03250	204	ABCC_MRP_domain1 Domain 1 of the ABC subfamily C.	99.02
PRK14247	250	phosphate ABC transporter ATP-binding protein; Pro	99.02
PRK13647	274	cbiO cobalt transporter ATP-binding subunit; Provi	99.02
PRK10762	501	D-ribose transporter ATP binding protein; Provisio	99.02
TIGR02857	529	CydD thiol reductant ABC exporter, CydD subunit. U	99.01
COG0488	530	Uup ATPase components of ABC transporters with dup	99.01
PRK13652	277	cbiO cobalt transporter ATP-binding subunit; Provi	99.01
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	99.01
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	99.0
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	99.0
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	99.0
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	99.0
PRK13640	282	cbiO cobalt transporter ATP-binding subunit; Provi	99.0
cd03299	235	ABC_ModC_like Archeal protein closely related to M	99.0
PRK10790	592	putative multidrug transporter membrane\ATP-bindin	99.0
COG1134	249	TagH ABC-type polysaccharide/polyol phosphate tran	98.99
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	98.99
cd03251	234	ABCC_MsbA MsbA is an essential ABC transporter, cl	98.99
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	98.99
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	98.99
PRK13642	277	cbiO cobalt transporter ATP-binding subunit; Provi	98.99
TIGR01978	243	sufC FeS assembly ATPase SufC. SufC is part of the	98.99
TIGR02324	224	CP_lyasePhnL phosphonate C-P lyase system protein	98.99
TIGR03797	686	NHPM_micro_ABC2 NHPM bacteriocin system ABC transp	98.98
PRK13546	264	teichoic acids export protein ATP-binding subunit;	98.98
PRK13636	283	cbiO cobalt transporter ATP-binding subunit; Provi	98.98
PRK11288	501	araG L-arabinose transporter ATP-binding protein;	98.98
TIGR02770	230	nickel_nikD nickel import ATP-binding protein NikD	98.98
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.98
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.98
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.97
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	98.97
TIGR03796	710	NHPM_micro_ABC1 NHPM bacteriocin system ABC transp	98.97
COG1122	235	CbiO ABC-type cobalt transport system, ATPase comp	98.97
KOG0058	716	consensus Peptide exporter, ABC superfamily [Intra	98.97
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.97
PRK12288	347	GTPase RsgA; Reviewed	98.97
cd03234	226	ABCG_White The White subfamily represents ABC tran	98.97
PRK14246	257	phosphate ABC transporter ATP-binding protein; Pro	98.97
PRK10419	268	nikE nickel transporter ATP-binding protein NikE;	98.97
PRK13549	506	xylose transporter ATP-binding subunit; Provisiona	98.97
cd03253	236	ABCC_ATM1_transporter ATM1 is an ABC transporter t	98.96
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	98.96
cd03260	227	ABC_PstB_phosphate_transporter Phosphate uptake is	98.96
PRK14267	253	phosphate ABC transporter ATP-binding protein; Pro	98.96
TIGR00958	711	3a01208 Conjugate Transporter-2 (CT2) Family prote	98.96
PRK10982	491	galactose/methyl galaxtoside transporter ATP-bindi	98.96
KOG4252	246	consensus GTP-binding protein [Signal transduction	98.96
TIGR00972	247	3a0107s01c2 phosphate ABC transporter, ATP-binding	98.96
COG1162	301	Predicted GTPases [General function prediction onl	98.95
PRK14845	1049	translation initiation factor IF-2; Provisional	98.95
PRK13637	287	cbiO cobalt transporter ATP-binding subunit; Provi	98.95
PRK10789	569	putative multidrug transporter membrane\ATP-bindin	98.95
COG1129	500	MglA ABC-type sugar transport system, ATPase compo	98.95
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	98.95

>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=99.95  E-value=1.7e-27  Score=170.86  Aligned_cols=148  Identities=45%  Similarity=0.771  Sum_probs=120.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .+|+++|.+|+||||++|+|+|...+..+....+.|..+......+ .++.+.+|||||+.+.....+...+++.+++..
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            4799999999999999999999998877766677788887777766 889999999999998777778888889998888


Q ss_pred             ccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhHHHHhcccCCCCccc
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKV  172 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~~~~~~l~~  172 (174)
                      ..+++|++++|++.. +++..+...++.+.+.+|.+.+++++||+|++|...+.  .+++|+++..+..|++
T Consensus        80 ~~~g~ha~llVi~~~-r~t~~~~~~l~~l~~~FG~~~~k~~ivvfT~~d~~~~~--~~~~~l~~~~~~~l~~  148 (212)
T PF04548_consen   80 CSPGPHAFLLVIPLG-RFTEEDREVLELLQEIFGEEIWKHTIVVFTHADELEDD--SLEDYLKKESNEALQE  148 (212)
T ss_dssp             TTT-ESEEEEEEETT-B-SHHHHHHHHHHHHHHCGGGGGGEEEEEEEGGGGTTT--THHHHHHHHHHHHHHH
T ss_pred             ccCCCeEEEEEEecC-cchHHHHHHHHHHHHHccHHHHhHhhHHhhhccccccc--cHHHHHhccCchhHhH
Confidence            889999999999999 99999999999999999999999999999999998874  5888887533333433

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=2.7e-26  Score=162.97  Aligned_cols=141  Identities=55%  Similarity=0.888  Sum_probs=120.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      ++|+++|.+|+|||||+|+|+|...+..+....+.|..+......+ .+..+.++||||+.+.....+....++.+++..
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            4799999999999999999999987766555556777777777666 788999999999998766666777888888887


Q ss_pred             ccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhHHHHhccc
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRE  165 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~~  165 (174)
                      +.+++|++++|+++. .++..+...++.+++.++...++++++++||+|.+.+  ..+++|+...
T Consensus        80 ~~~g~~~illVi~~~-~~t~~d~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~~--~~~~~~~~~~  141 (196)
T cd01852          80 SAPGPHAFLLVVPLG-RFTEEEEQAVETLQELFGEKVLDHTIVLFTRGDDLEG--GTLEDYLENS  141 (196)
T ss_pred             cCCCCEEEEEEEECC-CcCHHHHHHHHHHHHHhChHhHhcEEEEEECccccCC--CcHHHHHHhc
Confidence            889999999999998 4999999999999999998888899999999999876  4778777663

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=99.90  E-value=9.9e-23  Score=151.12  Aligned_cols=147  Identities=25%  Similarity=0.339  Sum_probs=106.3

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      ...+|+++|.+|+||||++|+|+|...+..... .+.+.......... .+..+.+|||||+.+...    ...+....+
T Consensus        37 ~~~rIllvGktGVGKSSliNsIlG~~v~~vs~f-~s~t~~~~~~~~~~-~G~~l~VIDTPGL~d~~~----~~e~~~~~i  110 (313)
T TIGR00991        37 SSLTILVMGKGGVGKSSTVNSIIGERIATVSAF-QSEGLRPMMVSRTR-AGFTLNIIDTPGLIEGGY----INDQAVNII  110 (313)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCcccccCC-CCcceeEEEEEEEE-CCeEEEEEECCCCCchHH----HHHHHHHHH
Confidence            458999999999999999999999875433211 12222222222333 678899999999998532    222222322


Q ss_pred             Hh--ccCCceEEEEEEeCC-CCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhHHHHhcccCCCCccc
Q 030630           99 GM--AKDGIHAVLVVFSVR-SRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKV  172 (174)
Q Consensus        99 ~~--~~~~~~~il~v~~~~-~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~~~~~~l~~  172 (174)
                      +.  ...++|++|||.+.+ .+++..+...++.+++.+|...+.++++++||+|...+++.++++|+.+ ++..+++
T Consensus       111 k~~l~~~g~DvVLyV~rLD~~R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~~pd~~~~e~fv~~-~~~~lq~  186 (313)
T TIGR00991       111 KRFLLGKTIDVLLYVDRLDAYRVDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFSPPDGLEYNDFFSK-RSEALLR  186 (313)
T ss_pred             HHHhhcCCCCEEEEEeccCcccCCHHHHHHHHHHHHHhhhhhhccEEEEEECCccCCCCCCCHHHHHHh-cHHHHHH
Confidence            22  234799999997654 2788889999999999999998899999999999987766889999988 4444544

>COG1159 Era GTPase [General function prediction only]

Probab=99.89  E-value=1e-21  Score=143.22  Aligned_cols=126  Identities=22%  Similarity=0.314  Sum_probs=108.6

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      +...++++|++++|||||+|.|+|...  +-.+....|+......+...++..+.++||||+...   .+.+++.+.+.+
T Consensus         5 ksGfVaIiGrPNvGKSTLlN~l~G~Ki--sIvS~k~QTTR~~I~GI~t~~~~QiIfvDTPGih~p---k~~l~~~m~~~a   79 (298)
T COG1159           5 KSGFVAIIGRPNVGKSTLLNALVGQKI--SIVSPKPQTTRNRIRGIVTTDNAQIIFVDTPGIHKP---KHALGELMNKAA   79 (298)
T ss_pred             eEEEEEEEcCCCCcHHHHHHHHhcCce--EeecCCcchhhhheeEEEEcCCceEEEEeCCCCCCc---chHHHHHHHHHH
Confidence            346899999999999999999999986  334667778878888877767889999999999975   577888888888


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      ..++..+|+++||+|+++.++..++..++.++..     +.|+++++||.|...++
T Consensus        80 ~~sl~dvDlilfvvd~~~~~~~~d~~il~~lk~~-----~~pvil~iNKID~~~~~  130 (298)
T COG1159          80 RSALKDVDLILFVVDADEGWGPGDEFILEQLKKT-----KTPVILVVNKIDKVKPK  130 (298)
T ss_pred             HHHhccCcEEEEEEeccccCCccHHHHHHHHhhc-----CCCeEEEEEccccCCcH
Confidence            8999999999999999978999999999888882     15999999999998875

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.88  E-value=2.5e-21  Score=148.29  Aligned_cols=133  Identities=25%  Similarity=0.266  Sum_probs=110.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      +.|+++|.+++|||||+|.|++....-. ...++.|++......+| .+..+.+|||+|+.+  ...+.+.+.++.+...
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~AIV-~D~pGvTRDr~y~~~~~-~~~~f~lIDTgGl~~--~~~~~l~~~i~~Qa~~   79 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRIAIV-SDTPGVTRDRIYGDAEW-LGREFILIDTGGLDD--GDEDELQELIREQALI   79 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCeeeEe-ecCCCCccCCccceeEE-cCceEEEEECCCCCc--CCchHHHHHHHHHHHH
Confidence            6899999999999999999999886433 35677888888888888 778899999999997  3346788889999999


Q ss_pred             ccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhHHHHhc
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLG  163 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~  163 (174)
                      +..++|++|||+|..+++++.|..+.+.|+...     +|+++|+||+|....+ ...-+|..
T Consensus        80 Ai~eADvilfvVD~~~Git~~D~~ia~~Lr~~~-----kpviLvvNK~D~~~~e-~~~~efys  136 (444)
T COG1160          80 AIEEADVILFVVDGREGITPADEEIAKILRRSK-----KPVILVVNKIDNLKAE-ELAYEFYS  136 (444)
T ss_pred             HHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhcC-----CCEEEEEEcccCchhh-hhHHHHHh
Confidence            999999999999999899999999998888542     6999999999997442 33444443

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

Probab=99.87  E-value=5.7e-21  Score=152.43  Aligned_cols=148  Identities=22%  Similarity=0.312  Sum_probs=108.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .+|+++|.+|+|||||+|+|++...+..... ...|+.+....... .+..+.+|||||+.+..... .....+.+++..
T Consensus       119 lrIvLVGKTGVGKSSLINSILGekvf~vss~-~~~TTr~~ei~~~i-dG~~L~VIDTPGL~dt~~dq-~~neeILk~Ik~  195 (763)
T TIGR00993       119 LNILVLGKSGVGKSATINSIFGEVKFSTDAF-GMGTTSVQEIEGLV-QGVKIRVIDTPGLKSSASDQ-SKNEKILSSVKK  195 (763)
T ss_pred             eEEEEECCCCCCHHHHHHHHhccccccccCC-CCCceEEEEEEEEE-CCceEEEEECCCCCccccch-HHHHHHHHHHHH
Confidence            6899999999999999999999886655432 23344443333333 67889999999999864332 234444444433


Q ss_pred             c--cCCceEEEEEEeCCC-CCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCCh-----hhHHHHhcccCCCCccc
Q 030630          101 A--KDGIHAVLVVFSVRS-RFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDND-----ETLEDYLGRECPKPLKV  172 (174)
Q Consensus       101 ~--~~~~~~il~v~~~~~-~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~-----~~~~~~~~~~~~~~l~~  172 (174)
                      +  ..++|++|||++.+. ..+.++...++.|++.||...++++|||+||+|...+++     .++++|+.+ ++..+++
T Consensus       196 ~Lsk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lppdg~ng~~~tye~fv~~-rs~~Lq~  274 (763)
T TIGR00993       196 FIKKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAASAPPDGPNGTPLSYDVFVAQ-RSHIVQQ  274 (763)
T ss_pred             HHhcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCccCCCCCCCCCCcCHHHHHhh-ChHHHHH
Confidence            2  246899999998752 334467889999999999999999999999999997543     579999987 5444544

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.

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

Probab=99.85  E-value=9.3e-20  Score=133.22  Aligned_cols=135  Identities=29%  Similarity=0.346  Sum_probs=97.4

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      ...+|+++|.+|+|||||+|+|++...+... ...+.|.........+ ++..+.+|||||+.+..... .........+
T Consensus        30 ~~~~IllvG~tGvGKSSliNaLlg~~~~~v~-~~~~~T~~~~~~~~~~-~g~~i~vIDTPGl~~~~~~~-~~~~~~~~~I  106 (249)
T cd01853          30 FSLTILVLGKTGVGKSSTINSIFGERKAATS-AFQSETLRVREVSGTV-DGFKLNIIDTPGLLESVMDQ-RVNRKILSSI  106 (249)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHhCCCCcccC-CCCCceEEEEEEEEEE-CCeEEEEEECCCcCcchhhH-HHHHHHHHHH
Confidence            3489999999999999999999998764443 2223455444444444 67789999999999853211 1222233333


Q ss_pred             Hhc--cCCceEEEEEEeCC-CCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChh
Q 030630           99 GMA--KDGIHAVLVVFSVR-SRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDE  156 (174)
Q Consensus        99 ~~~--~~~~~~il~v~~~~-~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~  156 (174)
                      ..+  ...+|+++|+...+ .+++..+...++.|.+.++...+.++++|+||+|...++..
T Consensus       107 ~~~l~~~~idvIL~V~rlD~~r~~~~d~~llk~I~e~fG~~i~~~~ivV~T~~d~~~p~~~  167 (249)
T cd01853         107 KRYLKKKTPDVVLYVDRLDMYRRDYLDLPLLRAITDSFGPSIWRNAIVVLTHAASSPPDGL  167 (249)
T ss_pred             HHHHhccCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhChhhHhCEEEEEeCCccCCCCCC
Confidence            222  23679999998664 26788889999999999998888999999999999866543

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=2.4e-19  Score=116.97  Aligned_cols=116  Identities=23%  Similarity=0.358  Sum_probs=78.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhc
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  101 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~  101 (174)
                      +|+++|.+|+|||||+|+|++......+ ...+.|.........+ .+..+.++||||+.+...... ....+.+.....
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~-~~~~~T~~~~~~~~~~-~~~~~~~vDtpG~~~~~~~~~-~~~~~~~~~~~~   77 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKVS-NIPGTTRDPVYGQFEY-NNKKFILVDTPGINDGESQDN-DGKEIRKFLEQI   77 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEES-SSTTSSSSEEEEEEEE-TTEEEEEEESSSCSSSSHHHH-HHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHhcccccccc-ccccceeeeeeeeeee-ceeeEEEEeCCCCcccchhhH-HHHHHHHHHHHH
Confidence            6899999999999999999986543333 2344555554444445 778889999999987432221 112333444444


Q ss_pred             cCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeC
Q 030630          102 KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTG  147 (174)
Q Consensus       102 ~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk  147 (174)
                       ..+|++++|+++++..+..+...++.++    ..  +|+++|+||
T Consensus        78 -~~~d~ii~vv~~~~~~~~~~~~~~~~l~----~~--~~~i~v~NK  116 (116)
T PF01926_consen   78 -SKSDLIIYVVDASNPITEDDKNILRELK----NK--KPIILVLNK  116 (116)
T ss_dssp             -CTESEEEEEEETTSHSHHHHHHHHHHHH----TT--SEEEEEEES
T ss_pred             -HHCCEEEEEEECCCCCCHHHHHHHHHHh----cC--CCEEEEEcC
Confidence             8889999999987533444556666663    22  699999998

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 ....

>TIGR00436 era GTP-binding protein Era

Probab=99.81  E-value=1e-18  Score=129.84  Aligned_cols=121  Identities=21%  Similarity=0.240  Sum_probs=83.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhc
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  101 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~  101 (174)
                      +|+++|++|+|||||+|+|++......  +....|+...........+..+.++||||+....   ....+.+.+.+...
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~v--s~~~~TTr~~i~~i~~~~~~qii~vDTPG~~~~~---~~l~~~~~~~~~~~   76 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISIT--SPKAQTTRNRISGIHTTGASQIIFIDTPGFHEKK---HSLNRLMMKEARSA   76 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEeec--CCCCCcccCcEEEEEEcCCcEEEEEECcCCCCCc---chHHHHHHHHHHHH
Confidence            689999999999999999999864322  2233344334444444355678999999998642   23344455555556


Q ss_pred             cCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          102 KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       102 ~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      +..+|++++|+|+++.... +..+++.+...     ..|+++|+||+|+...
T Consensus        77 l~~aDvvl~VvD~~~~~~~-~~~i~~~l~~~-----~~p~ilV~NK~Dl~~~  122 (270)
T TIGR00436        77 IGGVDLILFVVDSDQWNGD-GEFVLTKLQNL-----KRPVVLTRNKLDNKFK  122 (270)
T ss_pred             HhhCCEEEEEEECCCCCch-HHHHHHHHHhc-----CCCEEEEEECeeCCCH
Confidence            7788999999999854433 34444444432     2689999999999744

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

>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=99.81  E-value=1.8e-19  Score=122.23  Aligned_cols=123  Identities=23%  Similarity=0.247  Sum_probs=82.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCCh-HHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGS-EFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~-~~~~~~~~~~~~   99 (174)
                      .+|+++|.+++|||||+|+|+|.... .+ ..++.|.......+.+ .+..+.++|+||.++..... +.  +-.++.+.
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~-v~-n~pG~Tv~~~~g~~~~-~~~~~~lvDlPG~ysl~~~s~ee--~v~~~~l~   75 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQK-VG-NWPGTTVEKKEGIFKL-GDQQVELVDLPGIYSLSSKSEEE--RVARDYLL   75 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEE-EE-ESTTSSSEEEEEEEEE-TTEEEEEEE----SSSSSSSHHH--HHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCce-ec-CCCCCCeeeeeEEEEe-cCceEEEEECCCcccCCCCCcHH--HHHHHHHh
Confidence            37999999999999999999999843 33 4567777777777766 77899999999988743322 21  11222222


Q ss_pred             hccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhh
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDET  157 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~  157 (174)
                        ..++|++++|+|++ .+.. +...+..+.+.   .  .|+++++||+|+.+..+..
T Consensus        76 --~~~~D~ii~VvDa~-~l~r-~l~l~~ql~e~---g--~P~vvvlN~~D~a~~~g~~  124 (156)
T PF02421_consen   76 --SEKPDLIIVVVDAT-NLER-NLYLTLQLLEL---G--IPVVVVLNKMDEAERKGIE  124 (156)
T ss_dssp             --HTSSSEEEEEEEGG-GHHH-HHHHHHHHHHT---T--SSEEEEEETHHHHHHTTEE
T ss_pred             --hcCCCEEEEECCCC-CHHH-HHHHHHHHHHc---C--CCEEEEEeCHHHHHHcCCE
Confidence              46789999999998 5422 23333334433   2  7999999999998765433

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=99.80  E-value=2.5e-18  Score=129.11  Aligned_cols=123  Identities=22%  Similarity=0.303  Sum_probs=87.8

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      ...|+++|++|||||||+|+|+|......  +....|+...........+..+.++||||+.+..   ....+.+...+.
T Consensus         5 ~g~V~iiG~pn~GKSTLin~L~g~~~~~v--s~~~~tt~~~i~~i~~~~~~qi~~iDTPG~~~~~---~~l~~~~~~~~~   79 (292)
T PRK00089          5 SGFVAIVGRPNVGKSTLLNALVGQKISIV--SPKPQTTRHRIRGIVTEDDAQIIFVDTPGIHKPK---RALNRAMNKAAW   79 (292)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhCCceeec--CCCCCcccccEEEEEEcCCceEEEEECCCCCCch---hHHHHHHHHHHH
Confidence            46899999999999999999999865322  2233344333333333244689999999998643   334455555666


Q ss_pred             hccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      .....+|++++|+|+++.++..+...++.+...     ..|+++|+||+|+..
T Consensus        80 ~~~~~~D~il~vvd~~~~~~~~~~~i~~~l~~~-----~~pvilVlNKiDl~~  127 (292)
T PRK00089         80 SSLKDVDLVLFVVDADEKIGPGDEFILEKLKKV-----KTPVILVLNKIDLVK  127 (292)
T ss_pred             HHHhcCCEEEEEEeCCCCCChhHHHHHHHHhhc-----CCCEEEEEECCcCCC
Confidence            677889999999999866777666666665532     259999999999984

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.80  E-value=4.4e-18  Score=118.09  Aligned_cols=128  Identities=20%  Similarity=0.265  Sum_probs=97.2

Q ss_pred             CCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCCh---HHHHH
Q 030630           16 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGS---EFVGK   92 (174)
Q Consensus        16 ~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~---~~~~~   92 (174)
                      |.....-|+++|.+++|||||||+|++......-...++.|...++..+    ...++++|.||+.-.....   +.+.+
T Consensus        20 P~~~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~----~~~~~lVDlPGYGyAkv~k~~~e~w~~   95 (200)
T COG0218          20 PEDDLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEV----DDELRLVDLPGYGYAKVPKEVKEKWKK   95 (200)
T ss_pred             CCCCCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEe----cCcEEEEeCCCcccccCCHHHHHHHHH
Confidence            3334478999999999999999999997633232355677777776654    2338899999999766544   34445


Q ss_pred             HHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           93 EIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        93 ~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .+.+++..... ...+++++|+...+...|+++++++.+.-     .|+++++||+|+...
T Consensus        96 ~i~~YL~~R~~-L~~vvlliD~r~~~~~~D~em~~~l~~~~-----i~~~vv~tK~DKi~~  150 (200)
T COG0218          96 LIEEYLEKRAN-LKGVVLLIDARHPPKDLDREMIEFLLELG-----IPVIVVLTKADKLKK  150 (200)
T ss_pred             HHHHHHhhchh-heEEEEEEECCCCCcHHHHHHHHHHHHcC-----CCeEEEEEccccCCh
Confidence            55555554443 78899999998788888999999988874     689999999999985

>PRK15494 era GTPase Era; Provisional

Probab=99.79  E-value=7.6e-18  Score=128.61  Aligned_cols=133  Identities=22%  Similarity=0.285  Sum_probs=88.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .+|+++|.+|+|||||+|+|++....... .....|.........+ ++..+.++||||+.+..   ..+...+.+.+..
T Consensus        53 ~kV~ivG~~nvGKSTLin~l~~~k~~ivs-~k~~tTr~~~~~~~~~-~~~qi~~~DTpG~~~~~---~~l~~~~~r~~~~  127 (339)
T PRK15494         53 VSVCIIGRPNSGKSTLLNRIIGEKLSIVT-PKVQTTRSIITGIITL-KDTQVILYDTPGIFEPK---GSLEKAMVRCAWS  127 (339)
T ss_pred             eEEEEEcCCCCCHHHHHHHHhCCceeecc-CCCCCccCcEEEEEEe-CCeEEEEEECCCcCCCc---ccHHHHHHHHHHH
Confidence            48999999999999999999987642211 1222333222223334 56789999999997532   2234445555545


Q ss_pred             ccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhHHHHhc
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLG  163 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~  163 (174)
                      ++..+|++++|+|..+.++..+..+++.++...     .|.++|+||+|+.......+.+++.
T Consensus       128 ~l~~aDvil~VvD~~~s~~~~~~~il~~l~~~~-----~p~IlViNKiDl~~~~~~~~~~~l~  185 (339)
T PRK15494        128 SLHSADLVLLIIDSLKSFDDITHNILDKLRSLN-----IVPIFLLNKIDIESKYLNDIKAFLT  185 (339)
T ss_pred             HhhhCCEEEEEEECCCCCCHHHHHHHHHHHhcC-----CCEEEEEEhhcCccccHHHHHHHHH
Confidence            577899999999998777777777766665431     4678899999986542223344443

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.79  E-value=8e-19  Score=134.60  Aligned_cols=139  Identities=22%  Similarity=0.242  Sum_probs=103.9

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      ...+++++|.+++|||||+|+|++....-.. ...+.|.+.-...+++ +++.+.++||.|+-....-.+...+.-....
T Consensus       177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~-~~aGTTRD~I~~~~e~-~~~~~~liDTAGiRrk~ki~e~~E~~Sv~rt  254 (444)
T COG1160         177 DPIKIAIIGRPNVGKSSLINAILGEERVIVS-DIAGTTRDSIDIEFER-DGRKYVLIDTAGIRRKGKITESVEKYSVART  254 (444)
T ss_pred             CceEEEEEeCCCCCchHHHHHhccCceEEec-CCCCccccceeeeEEE-CCeEEEEEECCCCCcccccccceEEEeehhh
Confidence            4589999999999999999999998754332 4456677766667776 8899999999999875443332221111122


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhHHHHhcc
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGR  164 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~  164 (174)
                      ..+...+|++++|+|++++++.++......+.+..     ++++||+||||+.+.+..+++++.++
T Consensus       255 ~~aI~~a~vvllviDa~~~~~~qD~~ia~~i~~~g-----~~~vIvvNKWDl~~~~~~~~~~~k~~  315 (444)
T COG1160         255 LKAIERADVVLLVIDATEGISEQDLRIAGLIEEAG-----RGIVIVVNKWDLVEEDEATMEEFKKK  315 (444)
T ss_pred             HhHHhhcCEEEEEEECCCCchHHHHHHHHHHHHcC-----CCeEEEEEccccCCchhhHHHHHHHH
Confidence            22556779999999999999999999998888875     68999999999988644455555433

>cd01894 EngA1 EngA1 subfamily

Probab=99.78  E-value=6.6e-18  Score=115.18  Aligned_cols=121  Identities=25%  Similarity=0.292  Sum_probs=84.4

Q ss_pred             EEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccC
Q 030630           24 VLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKD  103 (174)
Q Consensus        24 ~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~  103 (174)
                      +++|.+|+|||||+|.|++....... ...+.|.........+ .+..+.++||||+.+...   .....+.........
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            47899999999999999987532222 2233444444444545 567899999999987432   334444444445567


Q ss_pred             CceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630          104 GIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus       104 ~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      ++|++++++|..+.....+....+.++...     .|+++|+||+|+....
T Consensus        76 ~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~-----~piiiv~nK~D~~~~~  121 (157)
T cd01894          76 EADVILFVVDGREGLTPADEEIAKYLRKSK-----KPVILVVNKVDNIKEE  121 (157)
T ss_pred             hCCEEEEEEeccccCCccHHHHHHHHHhcC-----CCEEEEEECcccCChH
Confidence            789999999998666666666655555432     6999999999998753

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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.78  E-value=1.4e-17  Score=131.17  Aligned_cols=122  Identities=25%  Similarity=0.281  Sum_probs=95.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhc
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  101 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~  101 (174)
                      +|+++|.+|+|||||+|.|++...... ....+.|.........+ .+..+.++||||+...   .+.+...+.+....+
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v-~~~~g~t~d~~~~~~~~-~~~~~~liDTpG~~~~---~~~~~~~~~~~~~~~   75 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIV-SDTPGVTRDRKYGDAEW-GGREFILIDTGGIEED---DDGLDKQIREQAEIA   75 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCccee-cCCCCcccCceEEEEEE-CCeEEEEEECCCCCCc---chhHHHHHHHHHHHH
Confidence            489999999999999999999763222 23345666666666666 7788999999998642   244556666777777


Q ss_pred             cCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          102 KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       102 ~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      +..+|++++|+|+.++++..+..+.+.+++..     +|+++|+||+|+...
T Consensus        76 ~~~ad~vl~vvD~~~~~~~~d~~i~~~l~~~~-----~piilVvNK~D~~~~  122 (429)
T TIGR03594        76 IEEADVILFVVDGREGLTPEDEEIAKWLRKSG-----KPVILVANKIDGKKE  122 (429)
T ss_pred             HhhCCEEEEEEeCCCCCCHHHHHHHHHHHHhC-----CCEEEEEECccCCcc
Confidence            88899999999998788888888888777642     689999999998764

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.

>cd01895 EngA2 EngA2 subfamily

Probab=99.78  E-value=2e-17  Score=114.37  Aligned_cols=127  Identities=20%  Similarity=0.204  Sum_probs=80.6

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      ..+|+++|.+|+|||||+|+|++....... ...+.+.......... .+..+.+|||||+.+.................
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~   79 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVS-DIAGTTRDSIDVPFEY-DGKKYTLIDTAGIRRKGKVEEGIEKYSVLRTL   79 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceecc-CCCCCccCceeeEEEE-CCeeEEEEECCCCccccchhccHHHHHHHHHH
Confidence            368999999999999999999987532222 1222333332233333 56678999999998643211111111111122


Q ss_pred             hccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .....+|++++|+|+.++.+.....++..+...   .  .|+++++||+|+...
T Consensus        80 ~~~~~~d~vi~v~d~~~~~~~~~~~~~~~~~~~---~--~~~iiv~nK~Dl~~~  128 (174)
T cd01895          80 KAIERADVVLLVIDATEGITEQDLRIAGLILEE---G--KALVIVVNKWDLVEK  128 (174)
T ss_pred             HHHhhcCeEEEEEeCCCCcchhHHHHHHHHHhc---C--CCEEEEEeccccCCc
Confidence            345678999999999867666555554443332   2  689999999999765

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.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.78  E-value=2.4e-17  Score=127.62  Aligned_cols=125  Identities=19%  Similarity=0.208  Sum_probs=83.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhc
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  101 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~  101 (174)
                      .|+|+|.++||||||+|+|++..+ .. ...+..|.......+.+.+.+.+.++||||+.+.......+...+.+.    
T Consensus       161 dValVG~PNaGKSTLln~Lt~~k~-~v-s~~p~TT~~p~~Giv~~~~~~~i~~vDtPGi~~~a~~~~~Lg~~~l~~----  234 (390)
T PRK12298        161 DVGLLGLPNAGKSTFIRAVSAAKP-KV-ADYPFTTLVPNLGVVRVDDERSFVVADIPGLIEGASEGAGLGIRFLKH----  234 (390)
T ss_pred             cEEEEcCCCCCHHHHHHHHhCCcc-cc-cCCCCCccCcEEEEEEeCCCcEEEEEeCCCccccccchhhHHHHHHHH----
Confidence            599999999999999999998764 12 122344544455445553346799999999987554444455555554    


Q ss_pred             cCCceEEEEEEeCCCCC---C--HHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          102 KDGIHAVLVVFSVRSRF---S--QEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       102 ~~~~~~il~v~~~~~~~---~--~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..++|++++|+|++ ..   .  .....+++.+......-..+|.++|+||+|+...
T Consensus       235 i~radvlL~VVD~s-~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~  290 (390)
T PRK12298        235 LERCRVLLHLIDIA-PIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDE  290 (390)
T ss_pred             HHhCCEEEEEeccC-cccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCCh
Confidence            34569999999987 22   1  2224555555554222123689999999998754

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.77  E-value=4.2e-17  Score=124.01  Aligned_cols=126  Identities=18%  Similarity=0.168  Sum_probs=85.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhc
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  101 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~  101 (174)
                      .|+++|.++||||||+|+|++..+- .. ..+..|.......+.+.+...+.++|+||+.+.......+..++.+.+.  
T Consensus       160 dVglVG~PNaGKSTLln~ls~a~~~-va-~ypfTT~~p~~G~v~~~~~~~~~i~D~PGli~ga~~~~gLg~~flrhie--  235 (335)
T PRK12299        160 DVGLVGLPNAGKSTLISAVSAAKPK-IA-DYPFTTLHPNLGVVRVDDYKSFVIADIPGLIEGASEGAGLGHRFLKHIE--  235 (335)
T ss_pred             CEEEEcCCCCCHHHHHHHHHcCCCc-cC-CCCCceeCceEEEEEeCCCcEEEEEeCCCccCCCCccccHHHHHHHHhh--
Confidence            4899999999999999999986532 21 2234455555555555355789999999998755444445555555544  


Q ss_pred             cCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          102 KDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       102 ~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                        +++++++|+|+++.-+.++ ..+.+.+......-..+|+++|+||+|+...
T Consensus       236 --~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~  286 (335)
T PRK12299        236 --RTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDE  286 (335)
T ss_pred             --hcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCc
Confidence              5599999999984333333 4555556554322123699999999998754

>cd04163 Era Era subfamily

Probab=99.77  E-value=2.4e-17  Score=113.08  Aligned_cols=123  Identities=23%  Similarity=0.288  Sum_probs=80.9

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      ..+|+++|++|+|||||+|++++........ .. .+............+..+.++||||+.......   ...+.....
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~~~~~~~-~~-~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~---~~~~~~~~~   77 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKISIVSP-KP-QTTRNRIRGIYTDDDAQIIFVDTPGIHKPKKKL---GERMVKAAW   77 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCceEeccC-CC-CceeceEEEEEEcCCeEEEEEECCCCCcchHHH---HHHHHHHHH
Confidence            3789999999999999999999976432221 11 222222222222245678999999998643221   122333334


Q ss_pred             hccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      .....+|.+++|++.++........+.+.+...     ..|+++++||+|+..
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            456778999999999866555556665555543     158999999999974

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.

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

Probab=99.77  E-value=4.9e-17  Score=113.85  Aligned_cols=127  Identities=18%  Similarity=0.274  Sum_probs=81.6

Q ss_pred             CCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHH
Q 030630           17 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   96 (174)
Q Consensus        17 ~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~   96 (174)
                      .....+|+++|++|+|||||+|.|++...........+.|.......  .  +..+.++||||+......... ...+..
T Consensus        15 ~~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~--~--~~~~~liDtpG~~~~~~~~~~-~~~~~~   89 (179)
T TIGR03598        15 PDDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFE--V--NDGFRLVDLPGYGYAKVSKEE-KEKWQK   89 (179)
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEE--e--CCcEEEEeCCCCccccCChhH-HHHHHH
Confidence            34458999999999999999999998752111112233344333222  2  246899999998764332221 112221


Q ss_pred             HH---HhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           97 CI---GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        97 ~~---~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..   ......+|++++|+|.+++++..+...++.+...     ..|+++++||+|+..+
T Consensus        90 ~~~~~l~~~~~~~~ii~vvd~~~~~~~~~~~~~~~~~~~-----~~pviiv~nK~D~~~~  144 (179)
T TIGR03598        90 LIEEYLEKRENLKGVVLLMDIRHPLKELDLEMLEWLRER-----GIPVLIVLTKADKLKK  144 (179)
T ss_pred             HHHHHHHhChhhcEEEEEecCCCCCCHHHHHHHHHHHHc-----CCCEEEEEECcccCCH
Confidence            11   1123456899999999877888887766655442     2689999999999754

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.

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.76  E-value=2.2e-17  Score=121.85  Aligned_cols=126  Identities=18%  Similarity=0.193  Sum_probs=85.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChH-HHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSE-FVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~-~~~~~~~~~~~   99 (174)
                      +++++.|.+++|||||++.+++..+  .-.+.+..|....+..+++ +..++.+|||||+.+...... .+.++-.-+++
T Consensus       169 pTivVaG~PNVGKSSlv~~lT~Akp--EvA~YPFTTK~i~vGhfe~-~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL~  245 (346)
T COG1084         169 PTIVVAGYPNVGKSSLVRKLTTAKP--EVAPYPFTTKGIHVGHFER-GYLRIQVIDTPGLLDRPLEERNEIERQAILALR  245 (346)
T ss_pred             CeEEEecCCCCcHHHHHHHHhcCCC--ccCCCCccccceeEeeeec-CCceEEEecCCcccCCChHHhcHHHHHHHHHHH
Confidence            8999999999999999999999875  3334555666666666665 667999999999998443221 12222222222


Q ss_pred             hccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                         --.++|+|++|+++.+...-...+..+.+.. .....|+++|+||+|..+.
T Consensus       246 ---hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk-~~f~~p~v~V~nK~D~~~~  295 (346)
T COG1084         246 ---HLAGVILFLFDPSETCGYSLEEQISLLEEIK-ELFKAPIVVVINKIDIADE  295 (346)
T ss_pred             ---HhcCeEEEEEcCccccCCCHHHHHHHHHHHH-HhcCCCeEEEEecccccch
Confidence               2238899999998655555444444444442 2222689999999999855

>cd01898 Obg Obg subfamily

Probab=99.76  E-value=2.6e-17  Score=113.89  Aligned_cols=125  Identities=21%  Similarity=0.202  Sum_probs=76.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCc-EEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ-VVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .|+++|.+|||||||+|+|.+... ..+. ....|.........+ .+. .+.++||||+.+...........+.+.   
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~-~v~~-~~~~t~~~~~~~~~~-~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~---   75 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKP-KIAD-YPFTTLVPNLGVVRV-DDGRSFVVADIPGLIEGASEGKGLGHRFLRH---   75 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCc-cccC-CCccccCCcceEEEc-CCCCeEEEEecCcccCcccccCCchHHHHHH---
Confidence            589999999999999999998653 1111 122233333333334 444 899999999865322221222233322   


Q ss_pred             ccCCceEEEEEEeCCCC-CCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          101 AKDGIHAVLVVFSVRSR-FSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~-~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                       +..+|++++|+|+++. -.... ..+.+.+.+........|+++|+||+|+...
T Consensus        76 -~~~~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~  129 (170)
T cd01898          76 -IERTRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDE  129 (170)
T ss_pred             -HHhCCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCc
Confidence             2356999999999844 12222 4555555554221123689999999998765

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.76  E-value=6e-17  Score=128.83  Aligned_cols=124  Identities=25%  Similarity=0.229  Sum_probs=91.8

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .++|+++|.+|+|||||+|+|++....... ...+.|.........+ .+..+.++||||+...   ...+...+...+.
T Consensus        38 ~~~V~IvG~~nvGKSSL~nrl~~~~~~~v~-~~~gvT~d~~~~~~~~-~~~~~~l~DT~G~~~~---~~~~~~~~~~~~~  112 (472)
T PRK03003         38 LPVVAVVGRPNVGKSTLVNRILGRREAVVE-DVPGVTRDRVSYDAEW-NGRRFTVVDTGGWEPD---AKGLQASVAEQAE  112 (472)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCcCccccc-CCCCCCEeeEEEEEEE-CCcEEEEEeCCCcCCc---chhHHHHHHHHHH
Confidence            478999999999999999999987542222 3344555555555555 6778999999998742   1234455666666


Q ss_pred             hccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .++..+|++|+|+|++++.+..+..+.+.++..     ..|+++|+||+|+...
T Consensus       113 ~~~~~aD~il~VvD~~~~~s~~~~~i~~~l~~~-----~~piilV~NK~Dl~~~  161 (472)
T PRK03003        113 VAMRTADAVLFVVDATVGATATDEAVARVLRRS-----GKPVILAANKVDDERG  161 (472)
T ss_pred             HHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHc-----CCCEEEEEECccCCcc
Confidence            677888999999999878887777777766642     2699999999998653

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

Probab=99.76  E-value=3.5e-17  Score=113.01  Aligned_cols=115  Identities=16%  Similarity=0.153  Sum_probs=77.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe--CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK--DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .++++|++|+|||||+|+|++......  ...+.|...........  .+..+.++||||...           +.....
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~-----------~~~~~~   68 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKTNVAAG--EAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEA-----------FTNMRA   68 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhcccccc--cCCCeEEeeccEEEecccCCcceEEEEeCCCcHH-----------HHHHHH
Confidence            589999999999999999998764322  22233443333444431  256899999999764           222223


Q ss_pred             hccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      ..+..+|++++|+|+++.........+..+...     ..|+++|+||+|+....
T Consensus        69 ~~~~~~d~il~v~d~~~~~~~~~~~~~~~~~~~-----~~p~ivv~NK~Dl~~~~  118 (168)
T cd01887          69 RGASLTDIAILVVAADDGVMPQTIEAIKLAKAA-----NVPFIVALNKIDKPNAN  118 (168)
T ss_pred             HHHhhcCEEEEEEECCCCccHHHHHHHHHHHHc-----CCCEEEEEEceeccccc
Confidence            345678999999999866555555555554432     26899999999987543

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.

>cd04171 SelB SelB subfamily

Probab=99.76  E-value=3.5e-17  Score=112.43  Aligned_cols=117  Identities=22%  Similarity=0.331  Sum_probs=77.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccc-cccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFK-SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~-~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .|+++|.+|+|||||+|+|++..... ......+.|.........+..+..+.+|||||..+           +......
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~DtpG~~~-----------~~~~~~~   70 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPSGKRLGFIDVPGHEK-----------FIKNMLA   70 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecCCcEEEEEECCChHH-----------HHHHHHh
Confidence            68999999999999999999753110 11111233444444444442266899999999753           2233334


Q ss_pred             ccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .+..+|++++|+|+++.......+.+..+... +   .+|+++++||+|+...
T Consensus        71 ~~~~ad~ii~V~d~~~~~~~~~~~~~~~~~~~-~---~~~~ilv~NK~Dl~~~  119 (164)
T cd04171          71 GAGGIDLVLLVVAADEGIMPQTREHLEILELL-G---IKRGLVVLTKADLVDE  119 (164)
T ss_pred             hhhcCCEEEEEEECCCCccHhHHHHHHHHHHh-C---CCcEEEEEECccccCH
Confidence            56678999999999865555555555444332 1   1489999999999754

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

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.76  E-value=5.5e-17  Score=128.06  Aligned_cols=122  Identities=24%  Similarity=0.247  Sum_probs=92.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .+|+++|.+|+|||||+|.|++....... ...+.|.........+ .+..+.+|||||+.+..   +.....+......
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            57999999999999999999987643222 2344555555555666 67889999999998622   2244556666666


Q ss_pred             ccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      ++..+|++++|+|+.++++..+....++++..     ..|+++|+||+|+..
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            77888999999999878888887777777664     269999999999754

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

Probab=99.76  E-value=8.2e-17  Score=109.67  Aligned_cols=122  Identities=25%  Similarity=0.292  Sum_probs=80.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .+++++|++|+|||||+|++++....... ...+.+.........+ ....+.++||||+.+....   ...........
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~i~DtpG~~~~~~~---~~~~~~~~~~~   76 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDRAIVS-DIAGTTRDVIEESIDI-GGIPVRLIDTAGIRETEDE---IEKIGIERARE   76 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCceEecc-CCCCCccceEEEEEEe-CCEEEEEEECCCcCCCcch---HHHHHHHHHHH
Confidence            68999999999999999999987632222 1233333333334444 5668899999999875422   11222222233


Q ss_pred             ccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      ...++|++++|+|++++.+..+...+..   .  ..  .|+++|+||+|+....
T Consensus        77 ~~~~~~~~v~v~d~~~~~~~~~~~~~~~---~--~~--~~vi~v~nK~D~~~~~  123 (157)
T cd04164          77 AIEEADLVLFVIDASRGLDEEDLEILEL---P--AD--KPIIVVLNKSDLLPDS  123 (157)
T ss_pred             HHhhCCEEEEEEECCCCCCHHHHHHHHh---h--cC--CCEEEEEEchhcCCcc
Confidence            4567899999999986666655544432   1  12  6999999999998653

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.

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.75  E-value=1.1e-17  Score=118.40  Aligned_cols=118  Identities=18%  Similarity=0.218  Sum_probs=83.5

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccc--------------cccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCC
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFK--------------SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~--------------~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~   85 (174)
                      ..+++++|+.++|||||+++|++.....              ..+...+.|.......+.+ ++..+.++||||+.+   
T Consensus         2 ~~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~-~~~~i~~iDtPG~~~---   77 (195)
T cd01884           2 HVNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEYET-ANRHYAHVDCPGHAD---   77 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEecC-CCeEEEEEECcCHHH---
Confidence            3689999999999999999998642100              0111334555555555554 567889999999864   


Q ss_pred             ChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           86 GSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                              +..........+|++++|+|+..+....+.+.+..+.... .   +++++++||+|+...
T Consensus        78 --------~~~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~-~---~~iIvviNK~D~~~~  133 (195)
T cd01884          78 --------YIKNMITGAAQMDGAILVVSATDGPMPQTREHLLLARQVG-V---PYIVVFLNKADMVDD  133 (195)
T ss_pred             --------HHHHHHHHhhhCCEEEEEEECCCCCcHHHHHHHHHHHHcC-C---CcEEEEEeCCCCCCc
Confidence                    3444444566789999999998788888888877766542 1   247899999999743

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.75  E-value=9.1e-17  Score=126.82  Aligned_cols=128  Identities=21%  Similarity=0.188  Sum_probs=88.4

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      ...+++++|.+|+|||||+|+|++....... ...+.|.........+ ++..+.++||||+.......+..........
T Consensus       172 ~~~~v~ivG~~n~GKStlin~ll~~~~~~~~-~~~gtt~~~~~~~~~~-~~~~~~lvDT~G~~~~~~~~~~~e~~~~~~~  249 (435)
T PRK00093        172 EPIKIAIIGRPNVGKSSLINALLGEERVIVS-DIAGTTRDSIDTPFER-DGQKYTLIDTAGIRRKGKVTEGVEKYSVIRT  249 (435)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCceeec-CCCCceEEEEEEEEEE-CCeeEEEEECCCCCCCcchhhHHHHHHHHHH
Confidence            3589999999999999999999987643222 2334444444344444 6778999999998764433222222221222


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..++..+|++++|+|++++.+..+..++..+.+..     .|+++++||+|+...
T Consensus       250 ~~~~~~ad~~ilViD~~~~~~~~~~~i~~~~~~~~-----~~~ivv~NK~Dl~~~  299 (435)
T PRK00093        250 LKAIERADVVLLVIDATEGITEQDLRIAGLALEAG-----RALVIVVNKWDLVDE  299 (435)
T ss_pred             HHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHHcC-----CcEEEEEECccCCCH
Confidence            23456779999999999888888877766655432     689999999999743

>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=99.75  E-value=1.5e-17  Score=117.35  Aligned_cols=116  Identities=22%  Similarity=0.300  Sum_probs=85.4

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCccccc----------------ccCCCCcceeeEEEEEE--EeCCcEEEEEeCCCCC
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKS----------------RASSSGVTSTCEMQRTV--LKDGQVVNVIDTPGLF   81 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~----------------~~~~~~~t~~~~~~~~~--~~~~~~~~~iDtpG~~   81 (174)
                      .++|+++|+.++|||||+++|++......                .....+.|.........  . ..+.+.++||||..
T Consensus         3 ~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~~~~-~~~~i~~iDtPG~~   81 (188)
T PF00009_consen    3 IRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFEKNE-NNRKITLIDTPGHE   81 (188)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEEBTE-SSEEEEEEEESSSH
T ss_pred             EEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccccccccccc-cccceeeccccccc
Confidence            47899999999999999999986542100                01112445555555554  4 78899999999986


Q ss_pred             CCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630           82 DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      +           +..........+|++++|+|+.+++...+.+.+..+....     .|+++++||+|+..
T Consensus        82 ~-----------f~~~~~~~~~~~D~ailvVda~~g~~~~~~~~l~~~~~~~-----~p~ivvlNK~D~~~  136 (188)
T PF00009_consen   82 D-----------FIKEMIRGLRQADIAILVVDANDGIQPQTEEHLKILRELG-----IPIIVVLNKMDLIE  136 (188)
T ss_dssp             H-----------HHHHHHHHHTTSSEEEEEEETTTBSTHHHHHHHHHHHHTT------SEEEEEETCTSSH
T ss_pred             c-----------eeecccceecccccceeeeecccccccccccccccccccc-----cceEEeeeeccchh
Confidence            4           3333334466779999999998899998888888776653     57999999999983

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 ....

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.75  E-value=3.6e-17  Score=125.90  Aligned_cols=122  Identities=27%  Similarity=0.361  Sum_probs=97.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .+++++|++++|||||+|+|++....-.. ..++.|++.-...+.. ++.++.++||.|+-++   .+.+.+.-.+..+.
T Consensus       218 ~kvvIiG~PNvGKSSLLNaL~~~d~AIVT-dI~GTTRDviee~i~i-~G~pv~l~DTAGiRet---~d~VE~iGIeRs~~  292 (454)
T COG0486         218 LKVVIIGRPNVGKSSLLNALLGRDRAIVT-DIAGTTRDVIEEDINL-NGIPVRLVDTAGIRET---DDVVERIGIERAKK  292 (454)
T ss_pred             ceEEEECCCCCcHHHHHHHHhcCCceEec-CCCCCccceEEEEEEE-CCEEEEEEecCCcccC---ccHHHHHHHHHHHH
Confidence            78999999999999999999998864332 4556677776667777 8999999999999964   46666777777777


Q ss_pred             ccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...++|.+++|+|++.+++..+...++    .....  +|+++|.||.|+..+
T Consensus       293 ~i~~ADlvL~v~D~~~~~~~~d~~~~~----~~~~~--~~~i~v~NK~DL~~~  339 (454)
T COG0486         293 AIEEADLVLFVLDASQPLDKEDLALIE----LLPKK--KPIIVVLNKADLVSK  339 (454)
T ss_pred             HHHhCCEEEEEEeCCCCCchhhHHHHH----hcccC--CCEEEEEechhcccc
Confidence            888999999999999677777777766    21222  689999999999876

>cd01878 HflX HflX subfamily

Probab=99.74  E-value=9.2e-17  Score=114.63  Aligned_cols=126  Identities=25%  Similarity=0.225  Sum_probs=80.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .+|+++|++|||||||+|.+++.......  ....|.........+.....+.++||||+.+...  ......+...+ .
T Consensus        42 ~~I~iiG~~g~GKStLl~~l~~~~~~~~~--~~~~t~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~--~~~~~~~~~~~-~  116 (204)
T cd01878          42 PTVALVGYTNAGKSTLFNALTGADVYAED--QLFATLDPTTRRLRLPDGREVLLTDTVGFIRDLP--HQLVEAFRSTL-E  116 (204)
T ss_pred             CeEEEECCCCCCHHHHHHHHhcchhccCC--ccceeccceeEEEEecCCceEEEeCCCccccCCC--HHHHHHHHHHH-H
Confidence            79999999999999999999997632221  1223333333344443334899999999865321  22222233322 2


Q ss_pred             ccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .+..+|++++|+|++++..... ..+.+.+.......  .|+++|+||+|+...
T Consensus       117 ~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~--~~viiV~NK~Dl~~~  168 (204)
T cd01878         117 EVAEADLLLHVVDASDPDYEEQIETVEKVLKELGAED--IPMILVLNKIDLLDD  168 (204)
T ss_pred             HHhcCCeEEEEEECCCCChhhHHHHHHHHHHHcCcCC--CCEEEEEEccccCCh
Confidence            4567899999999985544443 34455555442222  689999999999765

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.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.74  E-value=1.8e-16  Score=123.55  Aligned_cols=135  Identities=20%  Similarity=0.172  Sum_probs=88.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhc
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  101 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~  101 (174)
                      .|+++|.++||||||+|+|++..+- .+ ..+..|.......+.+.+...+.++|+||+.........+..++.+.+.  
T Consensus       160 dVglVG~pNaGKSTLLn~Lt~ak~k-Ia-~ypfTTl~PnlG~v~~~~~~~~~laD~PGliega~~~~gLg~~fLrhie--  235 (424)
T PRK12297        160 DVGLVGFPNVGKSTLLSVVSNAKPK-IA-NYHFTTLVPNLGVVETDDGRSFVMADIPGLIEGASEGVGLGHQFLRHIE--  235 (424)
T ss_pred             cEEEEcCCCCCHHHHHHHHHcCCCc-cc-cCCcceeceEEEEEEEeCCceEEEEECCCCcccccccchHHHHHHHHHh--
Confidence            6999999999999999999987632 21 2334455555555555336789999999998754444445555555544  


Q ss_pred             cCCceEEEEEEeCCCC--CCHH--HHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhHHHHhc
Q 030630          102 KDGIHAVLVVFSVRSR--FSQE--EEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLG  163 (174)
Q Consensus       102 ~~~~~~il~v~~~~~~--~~~~--~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~  163 (174)
                        +++++++|+|+++.  -++.  ...+.+.|..+......+|.++|+||+|+... ...++++.+
T Consensus       236 --r~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~~-~e~l~~l~~  298 (424)
T PRK12297        236 --RTRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPEA-EENLEEFKE  298 (424)
T ss_pred             --hCCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcCC-HHHHHHHHH
Confidence              45999999999732  1222  24455556554322234799999999997433 233444443

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.74  E-value=1.3e-16  Score=125.77  Aligned_cols=125  Identities=20%  Similarity=0.185  Sum_probs=87.1

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      ..+++++|.+|+|||||+|+|++....... ...+.|.........+ ++..+.++||||+.+.....+.+.........
T Consensus       172 ~~~v~ivG~~~~GKSsLin~l~~~~~~~~~-~~~gtt~~~~~~~~~~-~~~~~~liDT~G~~~~~~~~~~~e~~~~~~~~  249 (429)
T TIGR03594       172 PIKIAIIGRPNVGKSTLVNALLGEERVIVS-DIAGTTRDSIDIPFER-NGKKYLLIDTAGIRRKGKVTEGVEKYSVLRTL  249 (429)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCCeeecC-CCCCceECcEeEEEEE-CCcEEEEEECCCccccccchhhHHHHHHHHHH
Confidence            478999999999999999999987633222 2234444443344444 66789999999998754333222222222223


Q ss_pred             hccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  151 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~  151 (174)
                      .++..+|++++|+|++++.+..+..++..+.+.   .  .|+++|+||+|+.
T Consensus       250 ~~~~~ad~~ilV~D~~~~~~~~~~~~~~~~~~~---~--~~iiiv~NK~Dl~  296 (429)
T TIGR03594       250 KAIERADVVLLVLDATEGITEQDLRIAGLILEA---G--KALVIVVNKWDLV  296 (429)
T ss_pred             HHHHhCCEEEEEEECCCCccHHHHHHHHHHHHc---C--CcEEEEEECcccC
Confidence            356778999999999988888887776655443   1  6899999999998

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.

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.74  E-value=7.8e-17  Score=111.04  Aligned_cols=118  Identities=19%  Similarity=0.176  Sum_probs=76.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      +|+++|++|+|||||++++++.......  ................ ....+.++||||...           +......
T Consensus         2 ki~~vG~~~vGKTsli~~l~~~~~~~~~--~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~-----------~~~~~~~   68 (168)
T cd04119           2 KVISMGNSGVGKSCIIKRYCEGRFVSKY--LPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPE-----------YLEVRNE   68 (168)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCC--CCccceeEEEEEEEECCeEEEEEEEECCccHH-----------HHHHHHH
Confidence            7899999999999999999987643221  1111111122222221 234678999999864           2233444


Q ss_pred             ccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhh---hhcCcEEEEEeCcCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGK---KIFDYMIVVFTGGDELE  152 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~---~~~~~~~iv~tk~D~~~  152 (174)
                      .+.++|++++|+|.+++-+... ..++..+......   ....|+++|.||+|+..
T Consensus        69 ~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  124 (168)
T cd04119          69 FYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTK  124 (168)
T ss_pred             HhccCCEEEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhccc
Confidence            5678899999999985433222 4566666665432   12368999999999873

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.

>cd01864 Rab19 Rab19 subfamily

Probab=99.73  E-value=7.7e-17  Score=111.23  Aligned_cols=119  Identities=12%  Similarity=0.142  Sum_probs=78.3

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      ..+|+++|++|+|||||++++.+.......  ....+.........+ ++  ..+.++||||...           +...
T Consensus         3 ~~kv~vvG~~~~GKTsli~~l~~~~~~~~~--~~t~~~~~~~~~~~~-~~~~~~l~i~D~~G~~~-----------~~~~   68 (165)
T cd01864           3 LFKIILIGDSNVGKTCVVQRFKSGTFSERQ--GNTIGVDFTMKTLEI-EGKRVKLQIWDTAGQER-----------FRTI   68 (165)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhhCCCcccC--CCccceEEEEEEEEE-CCEEEEEEEEECCChHH-----------HHHH
Confidence            378999999999999999999875532221  111222233333444 33  3678999999653           3334


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      ....+..+|++++++|.++.-+... ..++..+......  ..|+++|.||+|+...+
T Consensus        69 ~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~i~~~~~~--~~p~ivv~nK~Dl~~~~  124 (165)
T cd01864          69 TQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGAS--NVVLLLIGNKCDLEEQR  124 (165)
T ss_pred             HHHHhccCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCC--CCcEEEEEECccccccc
Confidence            4455678899999999985433333 4666666554222  25899999999997553

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.

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.73  E-value=2.3e-16  Score=119.89  Aligned_cols=127  Identities=20%  Similarity=0.189  Sum_probs=82.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      -.|+++|.++||||||+|+|++..+. .. ..+..|.......+.+.+...+.++||||+.+.......+...+.+.+. 
T Consensus       158 adV~lvG~pnaGKSTLl~~lt~~~~~-va-~y~fTT~~p~ig~v~~~~~~~~~i~D~PGli~~a~~~~gLg~~flrhie-  234 (329)
T TIGR02729       158 ADVGLVGLPNAGKSTLISAVSAAKPK-IA-DYPFTTLVPNLGVVRVDDGRSFVIADIPGLIEGASEGAGLGHRFLKHIE-  234 (329)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhcCCcc-cc-CCCCCccCCEEEEEEeCCceEEEEEeCCCcccCCcccccHHHHHHHHHH-
Confidence            35899999999999999999986531 11 2223444444445555233789999999998754443345555555543 


Q ss_pred             ccCCceEEEEEEeCCCC-C-CHH-H-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          101 AKDGIHAVLVVFSVRSR-F-SQE-E-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~-~-~~~-~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                         +++++++|+|+++. . +.. + ..+.+.+..+......+|+++|+||+|+...
T Consensus       235 ---rad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~  288 (329)
T TIGR02729       235 ---RTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDE  288 (329)
T ss_pred             ---hhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCCh
Confidence               45999999999732 1 122 2 3444555544222234699999999999765

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.

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

Probab=99.73  E-value=1.1e-16  Score=113.36  Aligned_cols=116  Identities=17%  Similarity=0.252  Sum_probs=77.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCc-ccccc-------------cCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCC
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRR-AFKSR-------------ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAG   86 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~-~~~~~-------------~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~   86 (174)
                      ++|+++|.+|+|||||++++++.. .+...             ....+.+.........+ +...+.++||||..+    
T Consensus         3 r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~-~~~~~~l~DtpG~~~----   77 (194)
T cd01891           3 RNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTY-KDTKINIVDTPGHAD----   77 (194)
T ss_pred             cEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEE-CCEEEEEEECCCcHH----
Confidence            689999999999999999998621 11111             01122333333344445 677899999999875    


Q ss_pred             hHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           87 SEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                             +......++..+|++++|+|+++........++..+..   ..  .|+++++||+|+...
T Consensus        78 -------~~~~~~~~~~~~d~~ilV~d~~~~~~~~~~~~~~~~~~---~~--~p~iiv~NK~Dl~~~  132 (194)
T cd01891          78 -------FGGEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALE---LG--LKPIVVINKIDRPDA  132 (194)
T ss_pred             -------HHHHHHHHHHhcCEEEEEEECCCCccHHHHHHHHHHHH---cC--CCEEEEEECCCCCCC
Confidence                   33344445677899999999986554544444443322   22  589999999999754

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

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=99.73  E-value=1.1e-16  Score=118.69  Aligned_cols=116  Identities=17%  Similarity=0.228  Sum_probs=84.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcc--ccc--------------ccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCC
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRA--FKS--------------RASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~--~~~--------------~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~   85 (174)
                      .|+++|+.|+|||||+++|+....  ...              .....+.|.........| ++..+.++||||..+   
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            379999999999999999963211  000              112335667777777777 788899999999875   


Q ss_pred             ChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630           86 GSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                              +...+..++..+|++++|+|+.++....+...++.+....     .|+++++||+|+.+.+
T Consensus        77 --------f~~~~~~~l~~aD~ailVVDa~~g~~~~t~~~~~~~~~~~-----~p~ivviNK~D~~~a~  132 (270)
T cd01886          77 --------FTIEVERSLRVLDGAVAVFDAVAGVEPQTETVWRQADRYN-----VPRIAFVNKMDRTGAD  132 (270)
T ss_pred             --------HHHHHHHHHHHcCEEEEEEECCCCCCHHHHHHHHHHHHcC-----CCEEEEEECCCCCCCC
Confidence                    2223334555669999999998788888777776665432     5889999999997653

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

>cd01865 Rab3 Rab3 subfamily

Probab=99.73  E-value=1.2e-16  Score=110.31  Aligned_cols=118  Identities=12%  Similarity=0.073  Sum_probs=75.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .+++++|+.|+|||||++.+++........  ...+........... ....+.+|||||..+           +.....
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~--~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~~-----------~~~~~~   68 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFV--STVGIDFKVKTVFRNDKRVKLQIWDTAGQER-----------YRTITT   68 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCC--CceeeEEEEEEEEECCEEEEEEEEECCChHH-----------HHHHHH
Confidence            589999999999999999999876422211  111112222222221 124688999999764           333345


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..+..+|++++|+|.++.-+... ..|++.+......  ..|+++|.||+|+...
T Consensus        69 ~~~~~~~~~l~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~piivv~nK~Dl~~~  121 (165)
T cd01865          69 AYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWD--NAQVILVGNKCDMEDE  121 (165)
T ss_pred             HHccCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCC--CCCEEEEEECcccCcc
Confidence            56788999999999974422222 4555555443222  2689999999999754

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

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.73  E-value=1.7e-16  Score=121.54  Aligned_cols=126  Identities=25%  Similarity=0.206  Sum_probs=83.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .+|+++|.+|+|||||+|+|++......  ...+.|.......+.+..+..+.++||||+.+.  ..+.....+...+ .
T Consensus       190 ~~ValvG~~NvGKSSLln~L~~~~~~v~--~~~~tT~d~~~~~i~~~~~~~i~l~DT~G~~~~--l~~~lie~f~~tl-e  264 (351)
T TIGR03156       190 PTVALVGYTNAGKSTLFNALTGADVYAA--DQLFATLDPTTRRLDLPDGGEVLLTDTVGFIRD--LPHELVAAFRATL-E  264 (351)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCceeec--cCCccccCCEEEEEEeCCCceEEEEecCccccc--CCHHHHHHHHHHH-H
Confidence            7899999999999999999999763211  223444444445555545678999999999542  1233333343333 3


Q ss_pred             ccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .+..+|++++|+|++++..... ..+.+.+.+. +. ...|+++|+||+|+...
T Consensus       265 ~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~l-~~-~~~piIlV~NK~Dl~~~  316 (351)
T TIGR03156       265 EVREADLLLHVVDASDPDREEQIEAVEKVLEEL-GA-EDIPQLLVYNKIDLLDE  316 (351)
T ss_pred             HHHhCCEEEEEEECCCCchHHHHHHHHHHHHHh-cc-CCCCEEEEEEeecCCCh
Confidence            4678899999999985554443 2334444443 21 12689999999999754

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).

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.73  E-value=3.3e-16  Score=129.99  Aligned_cols=124  Identities=23%  Similarity=0.232  Sum_probs=92.9

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      ..+|+++|.+|+|||||+|.|++....... ...+.|.........+ .+..+.+|||||+....   +.+...+.....
T Consensus       275 ~~~V~IvG~~nvGKSSL~n~l~~~~~~iv~-~~pGvT~d~~~~~~~~-~~~~~~liDT~G~~~~~---~~~~~~~~~~~~  349 (712)
T PRK09518        275 VGVVAIVGRPNVGKSTLVNRILGRREAVVE-DTPGVTRDRVSYDAEW-AGTDFKLVDTGGWEADV---EGIDSAIASQAQ  349 (712)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCceeec-CCCCeeEEEEEEEEEE-CCEEEEEEeCCCcCCCC---ccHHHHHHHHHH
Confidence            478999999999999999999987532222 2344555554445555 67789999999987422   234555666666


Q ss_pred             hccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .++..+|++++|+|++++++..+..+.+.++..     ..|+++|+||+|+...
T Consensus       350 ~~~~~aD~iL~VvDa~~~~~~~d~~i~~~Lr~~-----~~pvIlV~NK~D~~~~  398 (712)
T PRK09518        350 IAVSLADAVVFVVDGQVGLTSTDERIVRMLRRA-----GKPVVLAVNKIDDQAS  398 (712)
T ss_pred             HHHHhCCEEEEEEECCCCCCHHHHHHHHHHHhc-----CCCEEEEEECcccccc
Confidence            677888999999999878888888887777642     2699999999998654

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.72  E-value=1.6e-16  Score=109.64  Aligned_cols=119  Identities=14%  Similarity=0.054  Sum_probs=75.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCccccccc--CCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRA--SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      +|+++|++|+|||||++.|++......+.  .....|.........+ .+..+.++||||..+           +...+.
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            47899999999999999998754321111  1123344444445555 577899999999875           333444


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..+.++|++++|+|.++.-.... ..++..+.+... ....|+++++||+|+...
T Consensus        69 ~~~~~~~~~v~vvd~~~~~~~~~~~~~~~~~~~~~~-~~~~p~ilv~NK~D~~~~  122 (167)
T cd04160          69 KYYAECHAIIYVIDSTDRERFEESKSALEKVLRNEA-LEGVPLLILANKQDLPDA  122 (167)
T ss_pred             HHhCCCCEEEEEEECchHHHHHHHHHHHHHHHhChh-hcCCCEEEEEEccccccC
Confidence            56778899999999874322111 222222222111 123699999999998654

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.

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.72  E-value=1.6e-16  Score=109.97  Aligned_cols=117  Identities=18%  Similarity=0.150  Sum_probs=75.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+|+++|++|+|||||++.+++........  ...........+.+ .+  ..+.++||||...           +....
T Consensus         4 ~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~--~t~~~~~~~~~~~~-~~~~~~l~l~D~~g~~~-----------~~~~~   69 (167)
T cd01867           4 FKLLLIGDSGVGKSCLLLRFSEDSFNPSFI--STIGIDFKIRTIEL-DGKKIKLQIWDTAGQER-----------FRTIT   69 (167)
T ss_pred             eEEEEECCCCCCHHHHHHHHhhCcCCcccc--cCccceEEEEEEEE-CCEEEEEEEEeCCchHH-----------HHHHH
Confidence            789999999999999999999876322211  11112222223333 22  3578999999654           22233


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...+..+|++++|+|.+++.+... ..++..+......  ..|++++.||+|+.+.
T Consensus        70 ~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~p~iiv~nK~Dl~~~  123 (167)
T cd01867          70 TAYYRGAMGIILVYDITDEKSFENIRNWMRNIEEHASE--DVERMLVGNKCDMEEK  123 (167)
T ss_pred             HHHhCCCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCC--CCcEEEEEECcccccc
Confidence            445678899999999985433332 4455555543222  2589999999999754

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

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

Probab=99.72  E-value=2.6e-16  Score=108.73  Aligned_cols=124  Identities=23%  Similarity=0.188  Sum_probs=75.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChH-HHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSE-FVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~-~~~~~~~~~~~   99 (174)
                      ++|+++|.+|+|||||+|++++.... .. .....|.........+ ++..+.++||||+.+...... ........   
T Consensus         1 ~~i~~~G~~~~GKssli~~l~~~~~~-~~-~~~~~t~~~~~~~~~~-~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~---   74 (168)
T cd01897           1 PTLVIAGYPNVGKSSLVNKLTRAKPE-VA-PYPFTTKSLFVGHFDY-KYLRWQVIDTPGLLDRPLEERNTIEMQAIT---   74 (168)
T ss_pred             CeEEEEcCCCCCHHHHHHHHhcCCCc-cC-CCCCcccceeEEEEcc-CceEEEEEECCCcCCccccCCchHHHHHHH---
Confidence            47899999999999999999997642 11 1122344344434434 567899999999865321111 11111111   


Q ss_pred             hccCCceEEEEEEeCCCCCC--HH-HHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFS--QE-EEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~--~~-~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ......|++++|+|+++...  .. ...+++.+....   ...|+++|+||+|+...
T Consensus        75 ~~~~~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~---~~~pvilv~NK~Dl~~~  128 (168)
T cd01897          75 ALAHLRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLF---KNKPVIVVLNKIDLLTF  128 (168)
T ss_pred             HHHhccCcEEEEEeCCcccccchHHHHHHHHHHHhhc---CcCCeEEEEEccccCch
Confidence            11123588999999975432  12 244555555432   13699999999999765

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.

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.72  E-value=1.5e-16  Score=111.66  Aligned_cols=115  Identities=18%  Similarity=0.169  Sum_probs=79.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccC--------------CCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCCh
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRAS--------------SSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGS   87 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~--------------~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~   87 (174)
                      +|+++|.+|+|||||+|+|++.........              ..+.+.........+ ....+.++||||+.+     
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~liDtpG~~~-----   74 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEW-PDRRVNFIDTPGHED-----   74 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEee-CCEEEEEEeCCCcHH-----
Confidence            489999999999999999998764322100              112333333344444 466789999999764     


Q ss_pred             HHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           88 EFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                            +...+..++..+|++++|+|..+.......+.+..+...     ..|+++++||+|+..+
T Consensus        75 ------~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~-----~~~i~iv~nK~D~~~~  129 (189)
T cd00881          75 ------FSSEVIRGLSVSDGAILVVDANEGVQPQTREHLRIAREG-----GLPIIVAINKIDRVGE  129 (189)
T ss_pred             ------HHHHHHHHHHhcCEEEEEEECCCCCcHHHHHHHHHHHHC-----CCCeEEEEECCCCcch
Confidence                  222333344577999999999877766666666555441     2699999999999863

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.

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.72  E-value=1.7e-17  Score=119.91  Aligned_cols=126  Identities=25%  Similarity=0.235  Sum_probs=84.6

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+..++++|.+|+|||||+|+|.+......  ...+.++....+.........+.+|||||+.++..    ..++.+..+
T Consensus        38 ~pvnvLi~G~TG~GKSSliNALF~~~~~~v--~~vg~~t~~~~~~~~~~~~~~l~lwDtPG~gdg~~----~D~~~r~~~  111 (296)
T COG3596          38 EPVNVLLMGATGAGKSSLINALFQGEVKEV--SKVGVGTDITTRLRLSYDGENLVLWDTPGLGDGKD----KDAEHRQLY  111 (296)
T ss_pred             CceeEEEecCCCCcHHHHHHHHHhccCcee--eecccCCCchhhHHhhccccceEEecCCCcccchh----hhHHHHHHH
Confidence            347888999999999999999996442211  11111121111112222567899999999998543    333455555


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...+++.|.+++++++.++.-..+.++++.+.-.. .+  +++++++|++|...+
T Consensus       112 ~d~l~~~DLvL~l~~~~draL~~d~~f~~dVi~~~-~~--~~~i~~VtQ~D~a~p  163 (296)
T COG3596         112 RDYLPKLDLVLWLIKADDRALGTDEDFLRDVIILG-LD--KRVLFVVTQADRAEP  163 (296)
T ss_pred             HHHhhhccEEEEeccCCCccccCCHHHHHHHHHhc-cC--ceeEEEEehhhhhcc
Confidence            55666779999999998776666666655555542 22  589999999999876

>cd04122 Rab14 Rab14 subfamily

Probab=99.72  E-value=1.9e-16  Score=109.38  Aligned_cols=116  Identities=15%  Similarity=0.153  Sum_probs=74.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEE--EEEEEeC-CcEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM--QRTVLKD-GQVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~--~~~~~~~-~~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      .+|+++|+.|+|||||++.+.+.......    ..|....+  ....... ...+.++||||...           +...
T Consensus         3 ~ki~iiG~~~vGKTsli~~~~~~~~~~~~----~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~-----------~~~~   67 (166)
T cd04122           3 FKYIIIGDMGVGKSCLLHQFTEKKFMADC----PHTIGVEFGTRIIEVNGQKIKLQIWDTAGQER-----------FRAV   67 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCC----CcccceeEEEEEEEECCEEEEEEEEECCCcHH-----------HHHH
Confidence            58999999999999999999976532221    12222221  1222211 23578999999764           3334


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ....+.++|++++|+|.+++-+... ..+++.+......  ..|+++|.||+|+...
T Consensus        68 ~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~--~~~iiiv~nK~Dl~~~  122 (166)
T cd04122          68 TRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNP--NTVIFLIGNKADLEAQ  122 (166)
T ss_pred             HHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCC--CCeEEEEEECcccccc
Confidence            4456778899999999985433332 4555544443222  2589999999998654

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

>cd01861 Rab6 Rab6 subfamily

Probab=99.72  E-value=1.9e-16  Score=108.66  Aligned_cols=116  Identities=14%  Similarity=0.127  Sum_probs=75.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      +|+++|++|+|||||++++++......  .....+.........+ .+  ..+.+|||||...           +.....
T Consensus         2 ki~liG~~~~GKSsli~~l~~~~~~~~--~~~~~~~~~~~~~~~~-~~~~~~l~~~D~~G~~~-----------~~~~~~   67 (161)
T cd01861           2 KLVFLGDQSVGKTSIITRFMYDTFDNQ--YQATIGIDFLSKTMYL-EDKTVRLQLWDTAGQER-----------FRSLIP   67 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCcc--CCCceeeeEEEEEEEE-CCEEEEEEEEECCCcHH-----------HHHHHH
Confidence            789999999999999999998764322  1222222222233333 22  3588999999654           333344


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..+..+|++++|+|.+++-+... ..++..+....+.  ..|+++++||+|+...
T Consensus        68 ~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~~iilv~nK~D~~~~  120 (161)
T cd01861          68 SYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGN--DVIIVLVGNKTDLSDK  120 (161)
T ss_pred             HHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCC--CCEEEEEEEChhcccc
Confidence            45678899999999985433333 3455544443222  2689999999999543

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

>cd01866 Rab2 Rab2 subfamily

Probab=99.72  E-value=2.1e-16  Score=109.50  Aligned_cols=118  Identities=14%  Similarity=0.118  Sum_probs=74.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .+|+++|++|+|||||++.+++...........+  ........... ....+.++||||...           +.....
T Consensus         5 ~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~--~~~~~~~~~~~~~~~~~~i~Dt~G~~~-----------~~~~~~   71 (168)
T cd01866           5 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIG--VEFGARMITIDGKQIKLQIWDTAGQES-----------FRSITR   71 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccc--eeEEEEEEEECCEEEEEEEEECCCcHH-----------HHHHHH
Confidence            6899999999999999999998764322211111  21111222221 124678999999653           333344


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .....+|++++|+|.+++-+... ..|+..++.....  ..|+++|.||.|+...
T Consensus        72 ~~~~~~d~il~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~pvivv~nK~Dl~~~  124 (168)
T cd01866          72 SYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNS--NMTIMLIGNKCDLESR  124 (168)
T ss_pred             HHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCC--CCcEEEEEECcccccc
Confidence            55678899999999984332222 3444444443211  2589999999999743

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

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.72  E-value=3.5e-16  Score=123.05  Aligned_cols=122  Identities=20%  Similarity=0.242  Sum_probs=82.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .+++++|++|+|||||+|+|++....... ...+.|.......+.+ ++..+.++||||+.+..   +...+........
T Consensus       204 ~kVvIvG~~nvGKSSLiN~L~~~~~aivs-~~pgtTrd~~~~~i~~-~g~~v~l~DTaG~~~~~---~~ie~~gi~~~~~  278 (442)
T TIGR00450       204 FKLAIVGSPNVGKSSLLNALLKQDRAIVS-DIKGTTRDVVEGDFEL-NGILIKLLDTAGIREHA---DFVERLGIEKSFK  278 (442)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCCCcccC-CCCCcEEEEEEEEEEE-CCEEEEEeeCCCcccch---hHHHHHHHHHHHH
Confidence            78999999999999999999987532222 2344455544445555 67788999999997632   2222222223334


Q ss_pred             ccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .+..+|++++|+|.+++.+..+. ++..+..   ..  .|+++|+||+|+...
T Consensus       279 ~~~~aD~il~V~D~s~~~s~~~~-~l~~~~~---~~--~piIlV~NK~Dl~~~  325 (442)
T TIGR00450       279 AIKQADLVIYVLDASQPLTKDDF-LIIDLNK---SK--KPFILVLNKIDLKIN  325 (442)
T ss_pred             HHhhCCEEEEEEECCCCCChhHH-HHHHHhh---CC--CCEEEEEECccCCCc
Confidence            56788999999999866655544 4433322   12  689999999998654

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.

>cd04113 Rab4 Rab4 subfamily

Probab=99.72  E-value=1.5e-16  Score=109.26  Aligned_cols=117  Identities=16%  Similarity=0.186  Sum_probs=75.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeC-CcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD-GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      +++++|++|+|||||++.+++........  ...+............ ...+.++||||...           +......
T Consensus         2 ki~v~G~~~vGKTsli~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~-----------~~~~~~~   68 (161)
T cd04113           2 KFIIIGSSGTGKSCLLHRFVENKFKEDSQ--HTIGVEFGSKIIRVGGKRVKLQIWDTAGQER-----------FRSVTRS   68 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCCC--CceeeeEEEEEEEECCEEEEEEEEECcchHH-----------HHHhHHH
Confidence            78999999999999999999876432211  1112222222222211 24678999999764           2333344


Q ss_pred             ccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .+..+|++++|+|.++..+... ..++..++......  .|++++.||+|+...
T Consensus        69 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~~iivv~nK~D~~~~  120 (161)
T cd04113          69 YYRGAAGALLVYDITNRTSFEALPTWLSDARALASPN--IVVILVGNKSDLADQ  120 (161)
T ss_pred             HhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCC--CeEEEEEEchhcchh
Confidence            5678899999999985444333 45555555443223  589999999998753

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

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.72  E-value=3.8e-16  Score=123.32  Aligned_cols=126  Identities=17%  Similarity=0.126  Sum_probs=82.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      -.|+|+|.++||||||+|+|++..+. . ...+..|.......+.+ .+..+.++||||+.+.......+..++.+.+  
T Consensus       160 adV~LVG~PNAGKSTLln~Ls~akpk-I-adypfTTl~P~lGvv~~-~~~~f~laDtPGliegas~g~gLg~~fLrhi--  234 (500)
T PRK12296        160 ADVGLVGFPSAGKSSLISALSAAKPK-I-ADYPFTTLVPNLGVVQA-GDTRFTVADVPGLIPGASEGKGLGLDFLRHI--  234 (500)
T ss_pred             ceEEEEEcCCCCHHHHHHHHhcCCcc-c-cccCcccccceEEEEEE-CCeEEEEEECCCCccccchhhHHHHHHHHHH--
Confidence            45999999999999999999987532 2 12344555555555555 6678999999999875444444555555544  


Q ss_pred             ccCCceEEEEEEeCCCCC---CH-HH-HHHHHHHHHHHh---------hhhcCcEEEEEeCcCCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRF---SQ-EE-EAALHSLQTLFG---------KKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~---~~-~~-~~~l~~l~~~~~---------~~~~~~~~iv~tk~D~~~~  153 (174)
                        .++|++++|+|+++..   ++ .+ ..+.+.|..+..         ....+|.++|+||+|+...
T Consensus       235 --eradvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da  299 (500)
T PRK12296        235 --ERCAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDA  299 (500)
T ss_pred             --HhcCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhh
Confidence              4459999999997311   11 11 233334444332         1123699999999999754

>cd01868 Rab11_like Rab11-like

Probab=99.72  E-value=2.1e-16  Score=108.97  Aligned_cols=117  Identities=20%  Similarity=0.171  Sum_probs=75.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+++++|++|+|||||++.+++......  ..+..+.......... .+  ..+.++||||...           +....
T Consensus         4 ~ki~vvG~~~~GKSsli~~l~~~~~~~~--~~~t~~~~~~~~~~~~-~~~~~~~~l~D~~g~~~-----------~~~~~   69 (165)
T cd01868           4 FKIVLIGDSGVGKSNLLSRFTRNEFNLD--SKSTIGVEFATRSIQI-DGKTIKAQIWDTAGQER-----------YRAIT   69 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCC--CCCccceEEEEEEEEE-CCEEEEEEEEeCCChHH-----------HHHHH
Confidence            6899999999999999999998763211  1122222222222333 22  3578999999754           33333


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...+..++++++|+|.++..+... .+++..+.+....  ..|+++|.||+|+...
T Consensus        70 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~pi~vv~nK~Dl~~~  123 (165)
T cd01868          70 SAYYRGAVGALLVYDITKKQTFENVERWLKELRDHADS--NIVIMLVGNKSDLRHL  123 (165)
T ss_pred             HHHHCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCC--CCeEEEEEECcccccc
Confidence            445677899999999984433333 3455555554322  2589999999998654

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

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.72  E-value=1.7e-16  Score=113.69  Aligned_cols=116  Identities=15%  Similarity=0.149  Sum_probs=77.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCccccc-----------------------------ccCCCCcceeeEEEEEEEeCCcEE
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKS-----------------------------RASSSGVTSTCEMQRTVLKDGQVV   72 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~-----------------------------~~~~~~~t~~~~~~~~~~~~~~~~   72 (174)
                      +|+++|+.|+|||||+++|+.......                             .....+.|.........+ ++..+
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            589999999999999999975432111                             001134455555555556 67789


Q ss_pred             EEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630           73 NVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus        73 ~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      .++||||+.+           +...+...+..+|++++|+|++++....+......+... +   .+++++|+||+|+..
T Consensus        80 ~liDTpG~~~-----------~~~~~~~~~~~ad~~llVvD~~~~~~~~~~~~~~~~~~~-~---~~~iIvviNK~D~~~  144 (208)
T cd04166          80 IIADTPGHEQ-----------YTRNMVTGASTADLAILLVDARKGVLEQTRRHSYILSLL-G---IRHVVVAVNKMDLVD  144 (208)
T ss_pred             EEEECCcHHH-----------HHHHHHHhhhhCCEEEEEEECCCCccHhHHHHHHHHHHc-C---CCcEEEEEEchhccc
Confidence            9999999754           222222345678999999999877666665554444332 1   136788999999975


Q ss_pred             C
Q 030630          153 D  153 (174)
Q Consensus       153 ~  153 (174)
                      .
T Consensus       145 ~  145 (208)
T cd04166         145 Y  145 (208)
T ss_pred             C
Confidence            4

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.

>cd00154 Rab Rab family

Probab=99.71  E-value=1.9e-16  Score=107.81  Aligned_cols=113  Identities=19%  Similarity=0.182  Sum_probs=74.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEE--EEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ--RTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~--~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      +|+++|++|+|||||+|.+.+.......    ..|......  ..... ....+.++|+||...           +....
T Consensus         2 ~i~~~G~~~~GKStl~~~l~~~~~~~~~----~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~-----------~~~~~   66 (159)
T cd00154           2 KIVLIGDSGVGKTSLLLRFVDGKFDENY----KSTIGVDFKSKTIEIDGKTVKLQIWDTAGQER-----------FRSIT   66 (159)
T ss_pred             eEEEECCCCCCHHHHHHHHHhCcCCCcc----CCceeeeeEEEEEEECCEEEEEEEEecCChHH-----------HHHHH
Confidence            7899999999999999999987754331    122222222  22221 235678999999854           33345


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDEL  151 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~  151 (174)
                      ..++..+|++++++|.+++-+... ..++..+......  ..|+++++||+|+.
T Consensus        67 ~~~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~--~~p~ivv~nK~D~~  118 (159)
T cd00154          67 PSYYRGAHGAILVYDITNRESFENLDKWLKELKEYAPE--NIPIILVGNKIDLE  118 (159)
T ss_pred             HHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCC--CCcEEEEEEccccc
Confidence            556677899999999984322222 3455555554322  26999999999996

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

>cd04124 RabL2 RabL2 subfamily

Probab=99.71  E-value=1.6e-16  Score=109.40  Aligned_cols=115  Identities=19%  Similarity=0.148  Sum_probs=74.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      +|+++|.+|+|||||++.+++.............+.  ........ ....+.+|||||...           +......
T Consensus         2 ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~i~Dt~G~~~-----------~~~~~~~   68 (161)
T cd04124           2 KIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTL--YKHNAKFEGKTILVDFWDTAGQER-----------FQTMHAS   68 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEE--EEEEEEECCEEEEEEEEeCCCchh-----------hhhhhHH
Confidence            689999999999999999987653222111111111  11112221 223578999999765           3344455


Q ss_pred             ccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      .+.++|++++|+|.+++.+..+ ..+++.+.+.. ..  .|++++.||+|+..
T Consensus        69 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~--~p~ivv~nK~Dl~~  118 (161)
T cd04124          69 YYHKAHACILVFDVTRKITYKNLSKWYEELREYR-PE--IPCIVVANKIDLDP  118 (161)
T ss_pred             HhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhC-CC--CcEEEEEECccCch
Confidence            6788899999999985544333 45666665532 12  59999999999853

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

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.71  E-value=1.9e-15  Score=107.03  Aligned_cols=125  Identities=18%  Similarity=0.266  Sum_probs=77.7

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      ..++|+++|.+|+|||||+|+|++...........+.|.......    .+..+.++||||+........ ....+....
T Consensus        23 ~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~----~~~~l~l~DtpG~~~~~~~~~-~~~~~~~~~   97 (196)
T PRK00454         23 DGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFE----VNDKLRLVDLPGYGYAKVSKE-EKEKWQKLI   97 (196)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEe----cCCeEEEeCCCCCCCcCCCch-HHHHHHHHH
Confidence            448899999999999999999998642112112223333332221    246789999999875432221 111222222


Q ss_pred             ---HhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 ---GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ---~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                         ......++++++++|.+.+....+....+.+...     ..+++++.||+|+...
T Consensus        98 ~~~~~~~~~~~~~~~v~d~~~~~~~~~~~i~~~l~~~-----~~~~iiv~nK~Dl~~~  150 (196)
T PRK00454         98 EEYLRTRENLKGVVLLIDSRHPLKELDLQMIEWLKEY-----GIPVLIVLTKADKLKK  150 (196)
T ss_pred             HHHHHhCccceEEEEEEecCCCCCHHHHHHHHHHHHc-----CCcEEEEEECcccCCH
Confidence               1233456788888988766666665555555332     2578999999999764

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.71  E-value=4.4e-16  Score=123.90  Aligned_cols=126  Identities=21%  Similarity=0.290  Sum_probs=85.7

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      ...+++++|.+|+|||||+|+|++....... ...+.|.......+.+ ++..+.++||||+.......  ...+.....
T Consensus       210 ~~~kI~iiG~~nvGKSSLin~l~~~~~~~~s-~~~gtT~d~~~~~~~~-~~~~~~l~DTaG~~~~~~~~--~~~e~~~~~  285 (472)
T PRK03003        210 GPRRVALVGKPNVGKSSLLNKLAGEERSVVD-DVAGTTVDPVDSLIEL-GGKTWRFVDTAGLRRRVKQA--SGHEYYASL  285 (472)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCccccc-CCCCccCCcceEEEEE-CCEEEEEEECCCcccccccc--chHHHHHHH
Confidence            3489999999999999999999987632121 2334444443344445 66778999999986532211  111222222


Q ss_pred             --HhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 --GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 --~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                        ..++..+|++++|+|++++.+..+..++..+.+.   .  .|+++|+||+|+...
T Consensus       286 ~~~~~i~~ad~vilV~Da~~~~s~~~~~~~~~~~~~---~--~piIiV~NK~Dl~~~  337 (472)
T PRK03003        286 RTHAAIEAAEVAVVLIDASEPISEQDQRVLSMVIEA---G--RALVLAFNKWDLVDE  337 (472)
T ss_pred             HHHHHHhcCCEEEEEEeCCCCCCHHHHHHHHHHHHc---C--CCEEEEEECcccCCh
Confidence              2245788999999999988888777666555432   2  699999999999754

>cd04149 Arf6 Arf6 subfamily

Probab=99.71  E-value=5.2e-16  Score=107.59  Aligned_cols=114  Identities=16%  Similarity=0.151  Sum_probs=74.8

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      ..+|+++|.+|+|||||++.+...... ..    .+|.......... .+..+.++||||...           +...+.
T Consensus         9 ~~kv~i~G~~~~GKTsli~~l~~~~~~-~~----~~t~g~~~~~~~~-~~~~~~l~Dt~G~~~-----------~~~~~~   71 (168)
T cd04149           9 EMRILMLGLDAAGKTTILYKLKLGQSV-TT----IPTVGFNVETVTY-KNVKFNVWDVGGQDK-----------IRPLWR   71 (168)
T ss_pred             ccEEEEECcCCCCHHHHHHHHccCCCc-cc----cCCcccceEEEEE-CCEEEEEEECCCCHH-----------HHHHHH
Confidence            379999999999999999999865432 11    1222222333334 567899999999865           334445


Q ss_pred             hccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhh--hcCcEEEEEeCcCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELE  152 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~--~~~~~~iv~tk~D~~~  152 (174)
                      .++.++|++++|+|++++.....  ..+.+.+.....  ...|+++|.||+|+.+
T Consensus        72 ~~~~~a~~ii~v~D~t~~~s~~~--~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  124 (168)
T cd04149          72 HYYTGTQGLIFVVDSADRDRIDE--ARQELHRIINDREMRDALLLVFANKQDLPD  124 (168)
T ss_pred             HHhccCCEEEEEEeCCchhhHHH--HHHHHHHHhcCHhhcCCcEEEEEECcCCcc
Confidence            56788999999999985432222  222233332211  1258999999999864

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.71  E-value=3.6e-16  Score=107.90  Aligned_cols=118  Identities=17%  Similarity=0.171  Sum_probs=74.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .+++++|++|+|||||++.+++......  .....+........... ....+.++||||...           +.....
T Consensus         3 ~ki~i~G~~~vGKSsli~~~~~~~~~~~--~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-----------~~~~~~   69 (166)
T cd01869           3 FKLLLIGDSGVGKSCLLLRFADDTYTES--YISTIGVDFKIRTIELDGKTIKLQIWDTAGQER-----------FRTITS   69 (166)
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCCC--CCCccceeEEEEEEEECCEEEEEEEEECCCcHh-----------HHHHHH
Confidence            6899999999999999999997653221  11222222222223331 123578999999664           333334


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..+..+|++++|+|.++.-+... ..++..+......  ..|++++.||+|+...
T Consensus        70 ~~~~~~~~ii~v~d~~~~~s~~~l~~~~~~~~~~~~~--~~~~iiv~nK~Dl~~~  122 (166)
T cd01869          70 SYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASE--NVNKLLVGNKCDLTDK  122 (166)
T ss_pred             HHhCcCCEEEEEEECcCHHHHHhHHHHHHHHHHhCCC--CCcEEEEEEChhcccc
Confidence            45678899999999985332222 3455555444212  2589999999998654

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

>cd04154 Arl2 Arl2 subfamily

Probab=99.71  E-value=4.1e-16  Score=108.50  Aligned_cols=117  Identities=15%  Similarity=0.162  Sum_probs=75.8

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      ...+++++|++|+|||||++++.+.... .    ...|.........+ +...+.++||||...           +...+
T Consensus        13 ~~~kv~ivG~~~~GKTsL~~~l~~~~~~-~----~~~t~g~~~~~~~~-~~~~l~l~D~~G~~~-----------~~~~~   75 (173)
T cd04154          13 REMRILILGLDNAGKTTILKKLLGEDID-T----ISPTLGFQIKTLEY-EGYKLNIWDVGGQKT-----------LRPYW   75 (173)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCCC-C----cCCccccceEEEEE-CCEEEEEEECCCCHH-----------HHHHH
Confidence            3478999999999999999999987431 1    11222223333444 567789999999764           23334


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...+..+|++++|+|.+++-.... ..++..+.... .....|+++|+||+|+...
T Consensus        76 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~p~iiv~nK~Dl~~~  130 (173)
T cd04154          76 RNYFESTDALIWVVDSSDRLRLDDCKRELKELLQEE-RLAGATLLILANKQDLPGA  130 (173)
T ss_pred             HHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHhCh-hhcCCCEEEEEECcccccC
Confidence            455678899999999985422222 23333332211 1123699999999998754

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.

>cd04157 Arl6 Arl6 subfamily

Probab=99.71  E-value=5.1e-16  Score=106.52  Aligned_cols=117  Identities=14%  Similarity=0.053  Sum_probs=74.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhc
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  101 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~  101 (174)
                      +|+++|++|+|||||++.+++...+...   ..+|.........+ .+..+.++||||..+           +...+..+
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~---~~~t~g~~~~~~~~-~~~~~~l~Dt~G~~~-----------~~~~~~~~   65 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQI---IVPTVGFNVESFEK-GNLSFTAFDMSGQGK-----------YRGLWEHY   65 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcce---ecCccccceEEEEE-CCEEEEEEECCCCHh-----------hHHHHHHH
Confidence            4789999999999999999986432121   11222222223333 567889999999875           33344455


Q ss_pred             cCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHh-hhhcCcEEEEEeCcCCCCC
Q 030630          102 KDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFG-KKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       102 ~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~-~~~~~~~~iv~tk~D~~~~  153 (174)
                      +..+|++++|+|.+++.+... ..+++.+.+... .....|+++++||+|+...
T Consensus        66 ~~~~d~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~  119 (162)
T cd04157          66 YKNIQGIIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDA  119 (162)
T ss_pred             HccCCEEEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCC
Confidence            678899999999985443222 334443333110 0123699999999999754

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

>cd01850 CDC_Septin CDC/Septin

Probab=99.70  E-value=8e-16  Score=114.39  Aligned_cols=129  Identities=20%  Similarity=0.271  Sum_probs=82.4

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccccccC------CCCcceeeEEEEEEEe-CC--cEEEEEeCCCCCCCCCChHH
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRAS------SSGVTSTCEMQRTVLK-DG--QVVNVIDTPGLFDFSAGSEF   89 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~------~~~~t~~~~~~~~~~~-~~--~~~~~iDtpG~~~~~~~~~~   89 (174)
                      -..+|+++|++|+|||||+|+|++.........      ....|........... ++  ..+.++||||+.++......
T Consensus         3 ~~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~~~~~~   82 (276)
T cd01850           3 FQFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDNINNSDC   82 (276)
T ss_pred             cEEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCccccccchhh
Confidence            347899999999999999999998775433211      1223332222222221 23  36899999999986532221


Q ss_pred             H-------HHHHHHHH-------H---hccCCceEEEEEEeCCC-CCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCC
Q 030630           90 V-------GKEIVKCI-------G---MAKDGIHAVLVVFSVRS-RFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  151 (174)
Q Consensus        90 ~-------~~~~~~~~-------~---~~~~~~~~il~v~~~~~-~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~  151 (174)
                      +       ..++..++       +   ..-.++|+++|+++.+. ++...+.+.++.+...      .++++|+||+|++
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 WKPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGHGLKPLDIEFMKRLSKR------VNIIPVIAKADTL  156 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCCCCCHHHHHHHHHHhcc------CCEEEEEECCCcC
Confidence            1       11111111       1   11236899999998863 6777777777777652      5899999999997


Q ss_pred             CC
Q 030630          152 ED  153 (174)
Q Consensus       152 ~~  153 (174)
                      ..
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.

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.70  E-value=4.1e-16  Score=107.17  Aligned_cols=117  Identities=21%  Similarity=0.154  Sum_probs=74.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .+++++|++|+|||||+|++++...........+.+..  .....+. ....+.+||+||..+           +.....
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~--~~~v~~~~~~~~~~i~D~~G~~~-----------~~~~~~   68 (163)
T cd01860           2 FKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFL--TQTVNLDDTTVKFEIWDTAGQER-----------YRSLAP   68 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEE--EEEEEECCEEEEEEEEeCCchHH-----------HHHHHH
Confidence            58999999999999999999987743311111111111  1222221 234678999999653           233334


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      ..+..+|++++|+|+++.-+... ..++..+......  ..|++++.||+|+..
T Consensus        69 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~~iivv~nK~D~~~  120 (163)
T cd01860          69 MYYRGAAAAIVVYDITSEESFEKAKSWVKELQRNASP--NIIIALVGNKADLES  120 (163)
T ss_pred             HHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCC--CCeEEEEEECccccc
Confidence            45677899999999984322222 4555555554322  258999999999874

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

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.70  E-value=7.6e-16  Score=107.30  Aligned_cols=116  Identities=16%  Similarity=0.093  Sum_probs=75.7

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      ..+|+++|++|+|||||++.+++......     .+|.........+ ++..+.++||||...           +...+.
T Consensus        15 ~~kv~~~G~~~~GKTsl~~~l~~~~~~~~-----~~t~~~~~~~~~~-~~~~~~l~D~~G~~~-----------~~~~~~   77 (174)
T cd04153          15 EYKVIIVGLDNAGKTTILYQFLLGEVVHT-----SPTIGSNVEEIVY-KNIRFLMWDIGGQES-----------LRSSWN   77 (174)
T ss_pred             ccEEEEECCCCCCHHHHHHHHccCCCCCc-----CCccccceEEEEE-CCeEEEEEECCCCHH-----------HHHHHH
Confidence            47899999999999999999987653211     2233333344445 567899999999865           334444


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..+.++|++++|+|.++.-.... ...+..+.+... ....|+++++||+|+...
T Consensus        78 ~~~~~~d~vi~V~D~s~~~~~~~~~~~l~~~~~~~~-~~~~p~viv~NK~Dl~~~  131 (174)
T cd04153          78 TYYTNTDAVILVIDSTDRERLPLTKEELYKMLAHED-LRKAVLLVLANKQDLKGA  131 (174)
T ss_pred             HHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHhchh-hcCCCEEEEEECCCCCCC
Confidence            55678899999999984322211 222222221111 112699999999998653

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.

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.70  E-value=8.4e-16  Score=105.59  Aligned_cols=113  Identities=15%  Similarity=0.097  Sum_probs=73.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhc
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  101 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~  101 (174)
                      +|+++|..|+|||||++.+...... .    ..+|.........+ ....+.++||||..+           +...+..+
T Consensus         2 kv~~~G~~~~GKTsli~~l~~~~~~-~----~~pt~g~~~~~~~~-~~~~~~l~D~~G~~~-----------~~~~~~~~   64 (159)
T cd04150           2 RILMVGLDAAGKTTILYKLKLGEIV-T----TIPTIGFNVETVEY-KNISFTVWDVGGQDK-----------IRPLWRHY   64 (159)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCc-c----cCCCCCcceEEEEE-CCEEEEEEECCCCHh-----------HHHHHHHH
Confidence            7899999999999999999654432 1    11222222333444 567899999999865           44445556


Q ss_pred             cCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhh--hcCcEEEEEeCcCCCCC
Q 030630          102 KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELED  153 (174)
Q Consensus       102 ~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~--~~~~~~iv~tk~D~~~~  153 (174)
                      +.++|++++|+|.++..+...  ..+.+.+.....  ...|++++.||.|+.+.
T Consensus        65 ~~~ad~~i~v~D~~~~~s~~~--~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~  116 (159)
T cd04150          65 FQNTQGLIFVVDSNDRERIGE--AREELQRMLNEDELRDAVLLVFANKQDLPNA  116 (159)
T ss_pred             hcCCCEEEEEEeCCCHHHHHH--HHHHHHHHHhcHHhcCCCEEEEEECCCCCCC
Confidence            788999999999984322222  122222222111  12689999999998643

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

>PRK11058 GTPase HflX; Provisional

Probab=99.70  E-value=7.6e-16  Score=120.54  Aligned_cols=126  Identities=23%  Similarity=0.144  Sum_probs=82.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      ++|+++|.+|||||||+|+|++.... . ....+.|.........+.....+.++||||+.+.  ..+.....+... ..
T Consensus       198 p~ValVG~~NaGKSSLlN~Lt~~~~~-v-~~~~~tTld~~~~~i~l~~~~~~~l~DTaG~~r~--lp~~lve~f~~t-l~  272 (426)
T PRK11058        198 PTVSLVGYTNAGKSTLFNRITEARVY-A-ADQLFATLDPTLRRIDVADVGETVLADTVGFIRH--LPHDLVAAFKAT-LQ  272 (426)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCcee-e-ccCCCCCcCCceEEEEeCCCCeEEEEecCccccc--CCHHHHHHHHHH-HH
Confidence            57999999999999999999987643 1 1223445544444555533347899999999652  123333334433 33


Q ss_pred             ccCCceEEEEEEeCCCCCCHHHH-HHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEE-AALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~~-~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ....+|++++|+|++++...... .+.+.+.+.....  .|+++|+||+|+...
T Consensus       273 ~~~~ADlIL~VvDaS~~~~~e~l~~v~~iL~el~~~~--~pvIiV~NKiDL~~~  324 (426)
T PRK11058        273 ETRQATLLLHVVDAADVRVQENIEAVNTVLEEIDAHE--IPTLLVMNKIDMLDD  324 (426)
T ss_pred             HhhcCCEEEEEEeCCCccHHHHHHHHHHHHHHhccCC--CCEEEEEEcccCCCc
Confidence            56789999999999865443433 2334444432222  689999999999754

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.70  E-value=8e-16  Score=106.52  Aligned_cols=114  Identities=17%  Similarity=0.115  Sum_probs=74.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhc
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  101 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~  101 (174)
                      +|+++|++|||||||++.+.+...  ..   ..+|.......... .+..+.++|+||...           +...+...
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~~~--~~---~~~t~g~~~~~~~~-~~~~~~i~D~~G~~~-----------~~~~~~~~   63 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGEIP--KK---VAPTVGFTPTKLRL-DKYEVCIFDLGGGAN-----------FRGIWVNY   63 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCC--cc---ccCcccceEEEEEE-CCEEEEEEECCCcHH-----------HHHHHHHH
Confidence            478999999999999999998621  11   11222222334444 567889999999754           34444556


Q ss_pred             cCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          102 KDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       102 ~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      +..+|++++|+|.++.-.... ..++..+.... .....|+++|.||.|+...
T Consensus        64 ~~~a~~ii~V~D~s~~~s~~~~~~~l~~l~~~~-~~~~~piliv~NK~Dl~~~  115 (167)
T cd04161          64 YAEAHGLVFVVDSSDDDRVQEVKEILRELLQHP-RVSGKPILVLANKQDKKNA  115 (167)
T ss_pred             HcCCCEEEEEEECCchhHHHHHHHHHHHHHcCc-cccCCcEEEEEeCCCCcCC
Confidence            788899999999985432222 33444333321 1123699999999998765

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.

>cd04140 ARHI_like ARHI subfamily

Probab=99.70  E-value=4.9e-16  Score=107.24  Aligned_cols=119  Identities=21%  Similarity=0.176  Sum_probs=76.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .+|+++|.+|+|||||++.+++............ ........... ....+.++||||..+.           ......
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~-~~~~~~~~~~~-~~~~l~i~Dt~G~~~~-----------~~~~~~   68 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIE-DTYRQVISCSK-NICTLQITDTTGSHQF-----------PAMQRL   68 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcch-heEEEEEEECC-EEEEEEEEECCCCCcc-----------hHHHHH
Confidence            6899999999999999999998764222111111 11111111111 2345789999998762           222233


Q ss_pred             ccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhh-hcCcEEEEEeCcCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKK-IFDYMIVVFTGGDELE  152 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~-~~~~~~iv~tk~D~~~  152 (174)
                      .+..+|++++|+|.++.-+... ..+++.+.+..+.. ...|+++|.||+|+..
T Consensus        69 ~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~  122 (165)
T cd04140          69 SISKGHAFILVYSVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESH  122 (165)
T ss_pred             HhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccc
Confidence            4567899999999985544433 55666666654322 2369999999999965

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.70  E-value=3.8e-16  Score=107.30  Aligned_cols=117  Identities=19%  Similarity=0.213  Sum_probs=75.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+|+++|++|+|||||++.+++......  .....+.......... .+  ..+.++|+||...           +....
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~--~~~~~~~~~~~~~~~~-~~~~~~~~l~D~~G~~~-----------~~~~~   66 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFSEQ--YKSTIGVDFKTKTIEV-DGKRVKLQIWDTAGQER-----------FRSIT   66 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCC--CCCceeeEEEEEEEEE-CCEEEEEEEEECCChHH-----------HHHHH
Confidence            3789999999999999999998764211  1122222222233333 23  4678999999653           22334


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...+..+|++++|+|.++..+... ..|+..+......  ..|+++++||+|+...
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            445677899999999985433333 3355544444322  2699999999998753

Rab GTPases are implicated in vesicle trafficking.

>cd04158 ARD1 ARD1 subfamily

Probab=99.70  E-value=7.4e-16  Score=106.87  Aligned_cols=114  Identities=16%  Similarity=0.067  Sum_probs=74.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhc
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  101 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~  101 (174)
                      +++++|..|+|||||++++.+.... .    ..+|.........+ .+..+.++||||...           ....+...
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~-~----~~~T~~~~~~~~~~-~~~~i~l~Dt~G~~~-----------~~~~~~~~   63 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFM-Q----PIPTIGFNVETVEY-KNLKFTIWDVGGKHK-----------LRPLWKHY   63 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCC-C----cCCcCceeEEEEEE-CCEEEEEEECCCChh-----------cchHHHHH
Confidence            5789999999999999999986421 1    22333334444445 667899999999875           23334445


Q ss_pred             cCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          102 KDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       102 ~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      +..+|++++|+|.+++-...+ ..++..+.+... ....|++++.||+|+.+.
T Consensus        64 ~~~ad~ii~V~D~s~~~s~~~~~~~~~~~~~~~~-~~~~piilv~NK~Dl~~~  115 (169)
T cd04158          64 YLNTQAVVFVVDSSHRDRVSEAHSELAKLLTEKE-LRDALLLIFANKQDVAGA  115 (169)
T ss_pred             hccCCEEEEEEeCCcHHHHHHHHHHHHHHhcChh-hCCCCEEEEEeCcCcccC
Confidence            677899999999985422222 333333332111 112589999999998643

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

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.70  E-value=5.4e-16  Score=112.99  Aligned_cols=116  Identities=19%  Similarity=0.254  Sum_probs=80.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCccc--ccc--------------cCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCC
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAF--KSR--------------ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~--~~~--------------~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~   85 (174)
                      .|+++|+.|+|||||+++|+.....  ..|              ....+.+.........+ ++..+.++||||+.++  
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            3789999999999999999754211  001              01123344445555666 7788999999999862  


Q ss_pred             ChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630           86 GSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                               ...+..++..+|++++|+|+.++.......+++.+...   .  .|+++++||+|+...+
T Consensus        78 ---------~~~~~~~l~~aD~~IlVvd~~~g~~~~~~~~~~~~~~~---~--~P~iivvNK~D~~~a~  132 (237)
T cd04168          78 ---------IAEVERSLSVLDGAILVISAVEGVQAQTRILWRLLRKL---N--IPTIIFVNKIDRAGAD  132 (237)
T ss_pred             ---------HHHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHc---C--CCEEEEEECccccCCC
Confidence                     22223344566999999999878777667776666543   1  5889999999998653

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.

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

Probab=99.70  E-value=1.3e-15  Score=106.33  Aligned_cols=116  Identities=15%  Similarity=0.088  Sum_probs=75.4

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      ..+|+++|..|+|||||++.+...... .    ..+|.........+ ++..+.++||||...           +...+.
T Consensus        13 ~~ki~l~G~~~~GKTsL~~~~~~~~~~-~----~~~t~~~~~~~~~~-~~~~l~l~D~~G~~~-----------~~~~~~   75 (175)
T smart00177       13 EMRILMVGLDAAGKTTILYKLKLGESV-T----TIPTIGFNVETVTY-KNISFTVWDVGGQDK-----------IRPLWR   75 (175)
T ss_pred             ccEEEEEcCCCCCHHHHHHHHhcCCCC-C----cCCccccceEEEEE-CCEEEEEEECCCChh-----------hHHHHH
Confidence            379999999999999999999644321 1    12233333334444 567899999999875           444455


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .++.++|++++|+|.+++-+... .+++..+..... ....|++++.||.|+.+.
T Consensus        76 ~~~~~ad~ii~v~D~t~~~s~~~~~~~l~~~~~~~~-~~~~piilv~NK~Dl~~~  129 (175)
T smart00177       76 HYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDE-LRDAVILVFANKQDLPDA  129 (175)
T ss_pred             HHhCCCCEEEEEEECCCHHHHHHHHHHHHHHhhCHh-hcCCcEEEEEeCcCcccC
Confidence            56788999999999985422222 233322221100 112589999999998653

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).

>cd04155 Arl3 Arl3 subfamily

Probab=99.70  E-value=1.2e-15  Score=105.87  Aligned_cols=117  Identities=17%  Similarity=0.095  Sum_probs=74.6

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      +..+++++|++|+|||||++++.+......     ..|.........+ .+..+.++|+||...           +...+
T Consensus        13 ~~~~v~i~G~~g~GKStLl~~l~~~~~~~~-----~~t~g~~~~~i~~-~~~~~~~~D~~G~~~-----------~~~~~   75 (173)
T cd04155          13 EEPRILILGLDNAGKTTILKQLASEDISHI-----TPTQGFNIKTVQS-DGFKLNVWDIGGQRA-----------IRPYW   75 (173)
T ss_pred             CccEEEEEccCCCCHHHHHHHHhcCCCccc-----CCCCCcceEEEEE-CCEEEEEEECCCCHH-----------HHHHH
Confidence            358999999999999999999998753211     1222223334444 567789999999754           33334


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...+..+|++++|+|.++.-.... ..++..+..... ....|+++++||+|+.+.
T Consensus        76 ~~~~~~~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~  130 (173)
T cd04155          76 RNYFENTDCLIYVIDSADKKRLEEAGAELVELLEEEK-LAGVPVLVFANKQDLATA  130 (173)
T ss_pred             HHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhChh-hcCCCEEEEEECCCCccC
Confidence            445678899999999984321111 222222222111 122689999999998764

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.

>cd04151 Arl1 Arl1 subfamily

Probab=99.69  E-value=6e-16  Score=106.06  Aligned_cols=113  Identities=13%  Similarity=0.039  Sum_probs=73.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhc
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  101 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~  101 (174)
                      +++++|++|+|||||++.+........     .+|.........+ .+..+.++||||..+           +...+..+
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~~~-----~~t~~~~~~~~~~-~~~~~~i~Dt~G~~~-----------~~~~~~~~   63 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVVTT-----IPTIGFNVETVTY-KNLKFQVWDLGGQTS-----------IRPYWRCY   63 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCcCc-----CCccCcCeEEEEE-CCEEEEEEECCCCHH-----------HHHHHHHH
Confidence            579999999999999999976553211     1232233334444 567899999999875           33444556


Q ss_pred             cCCceEEEEEEeCCCCCCHH--HHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          102 KDGIHAVLVVFSVRSRFSQE--EEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       102 ~~~~~~il~v~~~~~~~~~~--~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      +..+|++++|+|+++.....  ...+...+++..  ....|+++++||+|+.+.
T Consensus        64 ~~~~~~ii~v~d~~~~~~~~~~~~~~~~~~~~~~--~~~~piiiv~nK~Dl~~~  115 (158)
T cd04151          64 YSNTDAIIYVVDSTDRDRLGTAKEELHAMLEEEE--LKGAVLLVFANKQDMPGA  115 (158)
T ss_pred             hcCCCEEEEEEECCCHHHHHHHHHHHHHHHhchh--hcCCcEEEEEeCCCCCCC
Confidence            67899999999998432221  122222222211  123699999999998754

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.

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.69  E-value=7.1e-16  Score=109.57  Aligned_cols=120  Identities=20%  Similarity=0.208  Sum_probs=77.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcc-eeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVT-STCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t-~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .+|+++|++|+|||||+|+|++...+..+....+.. .......+.......+.++||||+.+.....+    ++.+.  
T Consensus         2 ~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~l~l~DtpG~~~~~~~~~----~~l~~--   75 (197)
T cd04104           2 LNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPHPKFPNVTLWDLPGIGSTAFPPD----DYLEE--   75 (197)
T ss_pred             eEEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCceeeecCCCCCceEEeCCCCCcccCCHH----HHHHH--
Confidence            579999999999999999999976543332222210 01111111111234689999999986433322    22222  


Q ss_pred             hccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..+.++|+++++.+  ++++..+..+++.+++..     .++++|+||+|+..+
T Consensus        76 ~~~~~~d~~l~v~~--~~~~~~d~~~~~~l~~~~-----~~~ilV~nK~D~~~~  122 (197)
T cd04104          76 MKFSEYDFFIIISS--TRFSSNDVKLAKAIQCMG-----KKFYFVRTKVDRDLS  122 (197)
T ss_pred             hCccCcCEEEEEeC--CCCCHHHHHHHHHHHHhC-----CCEEEEEecccchhh
Confidence            23567788888743  378888888888887752     589999999999643

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

>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=5.4e-16  Score=107.74  Aligned_cols=122  Identities=19%  Similarity=0.136  Sum_probs=73.8

Q ss_pred             EEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeC-CcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccC
Q 030630           25 LVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD-GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKD  103 (174)
Q Consensus        25 i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~  103 (174)
                      ++|++|||||||+|+|++.... .+ .....|.........+ + ...+.++||||+.+.....+.....+..    .+.
T Consensus         1 iiG~~~~GKStll~~l~~~~~~-~~-~~~~~t~~~~~~~~~~-~~~~~~~i~DtpG~~~~~~~~~~~~~~~~~----~~~   73 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPK-VA-NYPFTTLEPNLGVVEV-PDGARIQVADIPGLIEGASEGRGLGNQFLA----HIR   73 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCcc-cc-CCCceeecCcceEEEc-CCCCeEEEEeccccchhhhcCCCccHHHHH----HHh
Confidence            5899999999999999997641 11 1223333333334444 4 7789999999986532222222222222    344


Q ss_pred             CceEEEEEEeCCCCC-----CHH-H-HHHHHHHHHHHhh-----hhcCcEEEEEeCcCCCCC
Q 030630          104 GIHAVLVVFSVRSRF-----SQE-E-EAALHSLQTLFGK-----KIFDYMIVVFTGGDELED  153 (174)
Q Consensus       104 ~~~~il~v~~~~~~~-----~~~-~-~~~l~~l~~~~~~-----~~~~~~~iv~tk~D~~~~  153 (174)
                      .+|++++|+|+.+..     ... + ..+...+......     ....|+++|+||+|+...
T Consensus        74 ~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~  135 (176)
T cd01881          74 RADAILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDA  135 (176)
T ss_pred             ccCEEEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCch
Confidence            579999999998442     222 2 2233333322111     123699999999999765

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

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

Probab=99.69  E-value=9.2e-16  Score=107.86  Aligned_cols=118  Identities=10%  Similarity=0.037  Sum_probs=74.8

Q ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      .+..+++++|.+|+|||||++.+.+.... ..    .+|.......... .+..+.++|+||...           ....
T Consensus        15 ~~~~~i~ivG~~~~GKTsli~~l~~~~~~-~~----~~t~~~~~~~~~~-~~~~~~~~D~~G~~~-----------~~~~   77 (184)
T smart00178       15 NKHAKILFLGLDNAGKTTLLHMLKNDRLA-QH----QPTQHPTSEELAI-GNIKFTTFDLGGHQQ-----------ARRL   77 (184)
T ss_pred             cccCEEEEECCCCCCHHHHHHHHhcCCCc-cc----CCccccceEEEEE-CCEEEEEEECCCCHH-----------HHHH
Confidence            34489999999999999999999986431 11    1222222233333 567889999999864           3334


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      +..++..+|++++|+|+++.-.... ...+..+.+.. .....|+++++||+|+...
T Consensus        78 ~~~~~~~ad~ii~vvD~~~~~~~~~~~~~l~~l~~~~-~~~~~piliv~NK~Dl~~~  133 (184)
T smart00178       78 WKDYFPEVNGIVYLVDAYDKERFAESKRELDALLSDE-ELATVPFLILGNKIDAPYA  133 (184)
T ss_pred             HHHHhCCCCEEEEEEECCcHHHHHHHHHHHHHHHcCh-hhcCCCEEEEEeCccccCC
Confidence            4456778999999999984311111 22222222211 1123699999999998643

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

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.69  E-value=1.2e-15  Score=104.51  Aligned_cols=114  Identities=13%  Similarity=0.046  Sum_probs=72.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhc
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  101 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~  101 (174)
                      +|+++|++|+|||||++.+.+......     .+|............+..+.++||||...           +...+...
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~~-----~~t~~~~~~~~~~~~~~~l~i~D~~G~~~-----------~~~~~~~~   64 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVTT-----IPTVGFNVEMLQLEKHLSLTVWDVGGQEK-----------MRTVWKCY   64 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCcccc-----cCccCcceEEEEeCCceEEEEEECCCCHh-----------HHHHHHHH
Confidence            479999999999999999998764321     12222223333332456799999999764           33334445


Q ss_pred             cCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630          102 KDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus       102 ~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      +..+|++++|+|.++..+... ..++..+..... ....|+++|+||+|+..
T Consensus        65 ~~~~~~iv~v~D~~~~~~~~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~  115 (160)
T cd04156          65 LENTDGLVYVVDSSDEARLDESQKELKHILKNEH-IKGVPVVLLANKQDLPG  115 (160)
T ss_pred             hccCCEEEEEEECCcHHHHHHHHHHHHHHHhchh-hcCCCEEEEEECccccc
Confidence            677899999999985432222 222222222111 12369999999999864

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.69  E-value=7.2e-16  Score=106.96  Aligned_cols=119  Identities=15%  Similarity=0.094  Sum_probs=75.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeC-CcEEEEEeCCCCCCCCCChHHHHHHHH-HHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD-GQVVNVIDTPGLFDFSAGSEFVGKEIV-KCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~iDtpG~~~~~~~~~~~~~~~~-~~~   98 (174)
                      .+|+++|++|+|||||++++++.......  ..............+.. ...+.+|||||..+           +. ...
T Consensus         3 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~--~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~-----------~~~~~~   69 (170)
T cd04115           3 FKIIVIGDSNVGKTCLTYRFCAGRFPERT--EATIGVDFRERTVEIDGERIKVQLWDTAGQER-----------FRKSMV   69 (170)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCcc--ccceeEEEEEEEEEECCeEEEEEEEeCCChHH-----------HHHhhH
Confidence            68999999999999999999876532221  11111112222233311 24688999999764           22 123


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...+..+|++++|+|.+++-+... ..|++.+...... ...|+++|.||+|+...
T Consensus        70 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~~p~iiv~nK~Dl~~~  124 (170)
T cd04115          70 QHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLP-NEVPRILVGNKCDLREQ  124 (170)
T ss_pred             HHhhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcCC-CCCCEEEEEECccchhh
Confidence            445678899999999985444433 4555555544221 23699999999998654

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

>cd04123 Rab21 Rab21 subfamily

Probab=99.69  E-value=8e-16  Score=105.36  Aligned_cols=117  Identities=14%  Similarity=0.098  Sum_probs=74.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      +++++|+.|+|||||+|++++.......  ....+.........+. ....+.++|+||...           +......
T Consensus         2 ki~i~G~~~~GKStli~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~-----------~~~~~~~   68 (162)
T cd04123           2 KVVLLGEGRVGKTSLVLRYVENKFNEKH--ESTTQASFFQKTVNIGGKRIDLAIWDTAGQER-----------YHALGPI   68 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCc--CCccceeEEEEEEEECCEEEEEEEEECCchHH-----------HHHhhHH
Confidence            7899999999999999999987643221  1111111222222221 123688999999653           2223334


Q ss_pred             ccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .+..+|++++|+|.+++-.... ..+++.+......  ..|+++++||+|+...
T Consensus        69 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~piiiv~nK~D~~~~  120 (162)
T cd04123          69 YYRDADGAILVYDITDADSFQKVKKWIKELKQMRGN--NISLVIVGNKIDLERQ  120 (162)
T ss_pred             HhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCC--CCeEEEEEECcccccc
Confidence            4567899999999975433332 3455555555433  3689999999998753

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

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.69  E-value=1.1e-15  Score=108.86  Aligned_cols=115  Identities=13%  Similarity=0.037  Sum_probs=75.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeE--EEEEEEe--CCcEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCE--MQRTVLK--DGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~--~~~~~~~--~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      +|+++|++|+|||||++.+++......    ...|....  ...+.+.  ....+.+|||||...           +...
T Consensus         2 KivivG~~~vGKTsli~~l~~~~~~~~----~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~-----------~~~~   66 (201)
T cd04107           2 KVLVIGDLGVGKTSIIKRYVHGIFSQH----YKATIGVDFALKVIEWDPNTVVRLQLWDIAGQER-----------FGGM   66 (201)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCC----CCCceeEEEEEEEEEECCCCEEEEEEEECCCchh-----------hhhh
Confidence            789999999999999999998653211    12232222  2233332  234578999999864           3334


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhh--hhcCcEEEEEeCcCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGK--KIFDYMIVVFTGGDEL  151 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~--~~~~~~~iv~tk~D~~  151 (174)
                      ....+..+|++++|+|.+++-+... ..|...+......  ....|+++|.||+|+.
T Consensus        67 ~~~~~~~a~~~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~  123 (201)
T cd04107          67 TRVYYRGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLK  123 (201)
T ss_pred             HHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcc
Confidence            4556788899999999985433333 3455555543211  1235899999999996

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.

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

Probab=99.69  E-value=1.3e-15  Score=104.66  Aligned_cols=117  Identities=24%  Similarity=0.209  Sum_probs=73.4

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCccee-eEEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTST-CEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVK   96 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~   96 (174)
                      ..+++++|++|+|||||++++++.......    ..|.. ........ .+  ..+.++||||..+.           ..
T Consensus         2 ~~ki~i~G~~~~GKtsl~~~~~~~~~~~~~----~~t~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~-----------~~   65 (164)
T cd04145           2 TYKLVVVGGGGVGKSALTIQFIQSYFVTDY----DPTIEDSYTKQCEI-DGQWAILDILDTAGQEEF-----------SA   65 (164)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCccc----CCCccceEEEEEEE-CCEEEEEEEEECCCCcch-----------hH
Confidence            368999999999999999999876532221    11111 11112222 33  35788999998752           22


Q ss_pred             HHHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           97 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        97 ~~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .....+..+|++++|+|.++.-+... ..+...+.+... ....|+++++||+|+...
T Consensus        66 ~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~piiiv~NK~Dl~~~  122 (164)
T cd04145          66 MREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKD-RDEFPMILVGNKADLEHQ  122 (164)
T ss_pred             HHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCCEEEEeeCcccccc
Confidence            23334566799999999985433222 344444444322 123699999999998654

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

>cd01890 LepA LepA subfamily

Probab=99.69  E-value=8.1e-16  Score=107.37  Aligned_cols=117  Identities=18%  Similarity=0.220  Sum_probs=72.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCccc------cccc-------CCCCcceeeEEEEEEE----eCCcEEEEEeCCCCCCC
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAF------KSRA-------SSSGVTSTCEMQRTVL----KDGQVVNVIDTPGLFDF   83 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~------~~~~-------~~~~~t~~~~~~~~~~----~~~~~~~~iDtpG~~~~   83 (174)
                      +.|+++|++|+|||||++++++....      ....       ...+.+.........+    ..+..+.+|||||+.+ 
T Consensus         1 rni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~-   79 (179)
T cd01890           1 RNFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVD-   79 (179)
T ss_pred             CcEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChh-
Confidence            46899999999999999999874210      0000       0012222222222222    1245678999999976 


Q ss_pred             CCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           84 SAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                                +...+..++..+|++++|+|++++.+..+...+..+..   ..  .|+++|+||+|+...
T Consensus        80 ----------~~~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~~---~~--~~iiiv~NK~Dl~~~  134 (179)
T cd01890          80 ----------FSYEVSRSLAACEGALLLVDATQGVEAQTLANFYLALE---NN--LEIIPVINKIDLPSA  134 (179)
T ss_pred             ----------hHHHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHHH---cC--CCEEEEEECCCCCcC
Confidence                      22233344567899999999986666555444333222   22  589999999998643

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.

>cd04169 RF3 RF3 subfamily

Probab=99.69  E-value=1.4e-15  Score=112.54  Aligned_cols=117  Identities=17%  Similarity=0.227  Sum_probs=78.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcc--cccccC------------------CCCcceeeEEEEEEEeCCcEEEEEeCCCC
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRA--FKSRAS------------------SSGVTSTCEMQRTVLKDGQVVNVIDTPGL   80 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~--~~~~~~------------------~~~~t~~~~~~~~~~~~~~~~~~iDtpG~   80 (174)
                      +.|+++|+.|+|||||+++|+....  ...|..                  ..+.+.......+.+ ++..+.++||||.
T Consensus         3 Rni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~~-~~~~i~liDTPG~   81 (267)
T cd04169           3 RTFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEY-RDCVINLLDTPGH   81 (267)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEee-CCEEEEEEECCCc
Confidence            7899999999999999999974321  111100                  112334444556666 7788999999998


Q ss_pred             CCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630           81 FDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      .++.       .+..    ..+..+|++++|+|++++.......+++.....     ..|+++++||+|....+
T Consensus        82 ~df~-------~~~~----~~l~~aD~~IlVvda~~g~~~~~~~i~~~~~~~-----~~P~iivvNK~D~~~a~  139 (267)
T cd04169          82 EDFS-------EDTY----RTLTAVDSAVMVIDAAKGVEPQTRKLFEVCRLR-----GIPIITFINKLDREGRD  139 (267)
T ss_pred             hHHH-------HHHH----HHHHHCCEEEEEEECCCCccHHHHHHHHHHHhc-----CCCEEEEEECCccCCCC
Confidence            7521       1222    234466999999999877766665555443332     26899999999987654

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.

>cd01863 Rab18 Rab18 subfamily

Probab=99.68  E-value=8.1e-16  Score=105.55  Aligned_cols=118  Identities=18%  Similarity=0.146  Sum_probs=74.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      +++++|++|+|||||++++++........  ...+.........+. ....+.++||||...           +......
T Consensus         2 ki~v~G~~~~GKSsli~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~-----------~~~~~~~   68 (161)
T cd01863           2 KILLIGDSGVGKSSLLLRFTDDTFDPDLA--ATIGVDFKVKTLTVDGKKVKLAIWDTAGQER-----------FRTLTSS   68 (161)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCcccC--CcccceEEEEEEEECCEEEEEEEEECCCchh-----------hhhhhHH
Confidence            78999999999999999999876432211  112222222222231 224689999999764           2333344


Q ss_pred             ccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .+..+|++++|+|.++.-+... ..+++.+...... ...|++++.||+|+...
T Consensus        69 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~~~~~~iv~nK~D~~~~  121 (161)
T cd01863          69 YYRGAQGVILVYDVTRRDTFTNLETWLNELETYSTN-NDIVKMLVGNKIDKENR  121 (161)
T ss_pred             HhCCCCEEEEEEECCCHHHHHhHHHHHHHHHHhCCC-CCCcEEEEEECCccccc
Confidence            5678899999999985433333 3455555554322 23689999999999733

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.68  E-value=9.5e-16  Score=105.25  Aligned_cols=116  Identities=22%  Similarity=0.160  Sum_probs=73.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe---CCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK---DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~---~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      +|+++|.+|+|||||++.+++......  ...............+.   ....+.++||||..+           +....
T Consensus         2 kv~~vG~~~~GKTsl~~~~~~~~~~~~--~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-----------~~~~~   68 (162)
T cd04106           2 KVIVVGNGNVGKSSMIQRFVKGIFTKD--YKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEE-----------FDAIT   68 (162)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCC--CCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHH-----------HHHhH
Confidence            689999999999999999998653211  11111122112222231   234689999999654           33334


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..++..+|++++|++.+++-+... ..++..+....   ...|+++|+||+|+...
T Consensus        69 ~~~~~~~~~~v~v~d~~~~~s~~~l~~~~~~~~~~~---~~~p~iiv~nK~Dl~~~  121 (162)
T cd04106          69 KAYYRGAQACILVFSTTDRESFEAIESWKEKVEAEC---GDIPMVLVQTKIDLLDQ  121 (162)
T ss_pred             HHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhC---CCCCEEEEEEChhcccc
Confidence            456678899999999984332222 34444444322   23599999999998754

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

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=99.68  E-value=5.5e-16  Score=110.63  Aligned_cols=117  Identities=15%  Similarity=0.188  Sum_probs=76.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCc-ccccccCCCCcceeeEEEEEEEe--------------------------------C
Q 030630           22 TVVLVGRTGNGKSATGNSILGRR-AFKSRASSSGVTSTCEMQRTVLK--------------------------------D   68 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~-~~~~~~~~~~~t~~~~~~~~~~~--------------------------------~   68 (174)
                      +++++|++|+|||||+++|++.. ....+....+.+..+.+....+.                                .
T Consensus         2 ~i~~~g~~~~GKttL~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (203)
T cd01888           2 NIGTIGHVAHGKSTLVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETKL   81 (203)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCcccc
Confidence            68999999999999999998873 22233233334444443333321                                1


Q ss_pred             CcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCC-CCHHHHHHHHHHHHHHhhhhcCcEEEEEeC
Q 030630           69 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSR-FSQEEEAALHSLQTLFGKKIFDYMIVVFTG  147 (174)
Q Consensus        69 ~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~-~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk  147 (174)
                      ...+.+|||||..+           +...+......+|++++|+|++++ ....+...+..+... +   .+|+++++||
T Consensus        82 ~~~i~~iDtPG~~~-----------~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~-~---~~~iiivvNK  146 (203)
T cd01888          82 VRHVSFVDCPGHEI-----------LMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIM-G---LKHIIIVQNK  146 (203)
T ss_pred             ccEEEEEECCChHH-----------HHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHc-C---CCcEEEEEEc
Confidence            16789999999643           444444455677999999999853 344445555444332 1   1478999999


Q ss_pred             cCCCCC
Q 030630          148 GDELED  153 (174)
Q Consensus       148 ~D~~~~  153 (174)
                      +|+...
T Consensus       147 ~Dl~~~  152 (203)
T cd01888         147 IDLVKE  152 (203)
T ss_pred             hhccCH
Confidence            999764

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

>cd04120 Rab12 Rab12 subfamily

Probab=99.68  E-value=1.1e-15  Score=108.91  Aligned_cols=116  Identities=15%  Similarity=0.219  Sum_probs=78.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .|+++|..|+|||||++.+...... .. .....+.......+.+ ++  ..+.+|||+|...           +...+.
T Consensus         2 ~vvvlG~~gVGKTSli~r~~~~~f~-~~-~~~Ti~~~~~~~~i~~-~~~~v~l~iwDtaGqe~-----------~~~l~~   67 (202)
T cd04120           2 QVIIIGSRGVGKTSLMRRFTDDTFC-EA-CKSGVGVDFKIKTVEL-RGKKIRLQIWDTAGQER-----------FNSITS   67 (202)
T ss_pred             EEEEECcCCCCHHHHHHHHHhCCCC-Cc-CCCcceeEEEEEEEEE-CCEEEEEEEEeCCCchh-----------hHHHHH
Confidence            5889999999999999999876532 21 1111222222233344 33  5678999999875           444555


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .++.++|++++|+|.+++-+... ..|++.+.+.....  .|+++|.||+|+...
T Consensus        68 ~y~~~ad~iIlVfDvtd~~Sf~~l~~w~~~i~~~~~~~--~piilVgNK~DL~~~  120 (202)
T cd04120          68 AYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASED--AELLLVGNKLDCETD  120 (202)
T ss_pred             HHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCC--CcEEEEEECcccccc
Confidence            67788999999999986544444 45666665543222  689999999998643

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

>cd04136 Rap_like Rap-like subfamily

Probab=99.68  E-value=1e-15  Score=105.16  Aligned_cols=116  Identities=19%  Similarity=0.195  Sum_probs=73.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCccee-eEEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTST-CEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      .+|+++|++|+|||||++.+++.......    .+|.. ........ ++  ..+.++||||..+.           ...
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~~----~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~-----------~~~   65 (163)
T cd04136           2 YKVVVLGSGGVGKSALTVQFVQGIFVEKY----DPTIEDSYRKQIEV-DGQQCMLEILDTAGTEQF-----------TAM   65 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCccc----CCchhhhEEEEEEE-CCEEEEEEEEECCCcccc-----------chH
Confidence            58999999999999999999876532111    11111 11122222 33  35678999998762           223


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ....+..+|++++|+|.++.-+... ..+.+.+.+.... ...|++++.||+|+...
T Consensus        66 ~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~-~~~piilv~nK~Dl~~~  121 (163)
T cd04136          66 RDLYIKNGQGFVLVYSITSQSSFNDLQDLREQILRVKDT-ENVPMVLVGNKCDLEDE  121 (163)
T ss_pred             HHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCCEEEEEECcccccc
Confidence            3345677899999999985433332 4455555544221 23689999999998653

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.

>cd04109 Rab28 Rab28 subfamily

Probab=99.68  E-value=1.1e-15  Score=109.99  Aligned_cols=117  Identities=21%  Similarity=0.168  Sum_probs=76.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeE--EEEEEEeC--CcEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCE--MQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~--~~~~~~~~--~~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      +++++|.+|+|||||++.+++......    ..+|....  .....+..  ...+.+|||||...           ....
T Consensus         2 Ki~ivG~~~vGKSsLi~~l~~~~~~~~----~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~-----------~~~l   66 (215)
T cd04109           2 KIVVLGDGAVGKTSLCRRFAKEGFGKS----YKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSI-----------GGKM   66 (215)
T ss_pred             EEEEECcCCCCHHHHHHHHhcCCCCCC----CCCceeEEEEEEEEEeCCCCEEEEEEEECCCcHH-----------HHHH
Confidence            689999999999999999997653211    12232222  22333322  34678999999653           2233


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhh-hhcCcEEEEEeCcCCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGK-KIFDYMIVVFTGGDELED  153 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~-~~~~~~~iv~tk~D~~~~  153 (174)
                      ...++..+|++++|+|.++.-+... ..|++.+.+.... ....|+++|.||+|+...
T Consensus        67 ~~~~~~~ad~iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~  124 (215)
T cd04109          67 LDKYIYGAHAVFLVYDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHN  124 (215)
T ss_pred             HHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccccc
Confidence            3445678899999999985433333 4566667665432 122478999999999643

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

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

Probab=99.68  E-value=1.2e-15  Score=104.45  Aligned_cols=114  Identities=15%  Similarity=0.088  Sum_probs=74.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhc
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  101 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~  101 (174)
                      +++++|..|+|||||++++++.... .    ...|.........+ .+..+.++|+||...           +......+
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~~-~----~~~t~~~~~~~~~~-~~~~~~i~D~~G~~~-----------~~~~~~~~   63 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEVV-T----TIPTIGFNVETVEY-KNVSFTVWDVGGQDK-----------IRPLWKHY   63 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCCC-C----CCCCcCcceEEEEE-CCEEEEEEECCCChh-----------hHHHHHHH
Confidence            5799999999999999999988621 2    12233333344444 567899999999875           23334445


Q ss_pred             cCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          102 KDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       102 ~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      +..+|++++|+|++++-.... ..++..+..... ....|+++++||+|+...
T Consensus        64 ~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~-~~~~piiiv~nK~D~~~~  115 (158)
T cd00878          64 YENTNGIIFVVDSSDRERIEEAKEELHKLLNEEE-LKGVPLLIFANKQDLPGA  115 (158)
T ss_pred             hccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcc-cCCCcEEEEeeccCCccc
Confidence            667899999999984322221 233333333211 122699999999999765

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

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.68  E-value=2.1e-15  Score=104.19  Aligned_cols=112  Identities=15%  Similarity=0.155  Sum_probs=73.4

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhcc
Q 030630           23 VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAK  102 (174)
Q Consensus        23 i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~  102 (174)
                      |+++|+.|+|||||++.+.+.......    .+|.......... .+..+.+|||||...           +...+...+
T Consensus         2 i~ivG~~~vGKTsli~~~~~~~~~~~~----~pt~g~~~~~i~~-~~~~l~i~Dt~G~~~-----------~~~~~~~~~   65 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSERSLESV----VPTTGFNSVAIPT-QDAIMELLEIGGSQN-----------LRKYWKRYL   65 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCcccc----cccCCcceEEEee-CCeEEEEEECCCCcc-----------hhHHHHHHH
Confidence            789999999999999999987532221    1222222233334 567899999999875           333334456


Q ss_pred             CCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          103 DGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       103 ~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .++|++++|+|.+++..... +.++..+..   .....|+++|.||.|+...
T Consensus        66 ~~ad~ii~V~D~t~~~s~~~~~~~l~~~~~---~~~~~piilv~NK~Dl~~~  114 (164)
T cd04162          66 SGSQGLIFVVDSADSERLPLARQELHQLLQ---HPPDLPLVVLANKQDLPAA  114 (164)
T ss_pred             hhCCEEEEEEECCCHHHHHHHHHHHHHHHh---CCCCCcEEEEEeCcCCcCC
Confidence            77899999999985432222 333333322   1223699999999998654

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.

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

Probab=99.68  E-value=9.5e-16  Score=104.71  Aligned_cols=116  Identities=23%  Similarity=0.283  Sum_probs=73.6

Q ss_pred             EEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCC
Q 030630           25 LVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDG  104 (174)
Q Consensus        25 i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~  104 (174)
                      ++|.+|+|||||+|++++.... .+ ...+.|.......+.+ ++..+.++||||+.+......  ...+....... ..
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~-~~-~~~~~t~~~~~~~~~~-~~~~~~liDtpG~~~~~~~~~--~~~~~~~~~~~-~~   74 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQK-VG-NWPGVTVEKKEGRFKL-GGKEIEIVDLPGTYSLSPYSE--DEKVARDFLLG-EK   74 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCccc-cc-CCCCcccccceEEEee-CCeEEEEEECCCccccCCCCh--hHHHHHHHhcC-CC
Confidence            5799999999999999997632 22 2234455554555555 567899999999976432211  11122221111 58


Q ss_pred             ceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          105 IHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       105 ~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      +|++++|+|+.+ ... ...+...+.+.     ..|+++|+||+|+.+.
T Consensus        75 ~d~vi~v~d~~~-~~~-~~~~~~~~~~~-----~~~~iiv~NK~Dl~~~  116 (158)
T cd01879          75 PDLIVNVVDATN-LER-NLYLTLQLLEL-----GLPVVVALNMIDEAEK  116 (158)
T ss_pred             CcEEEEEeeCCc-chh-HHHHHHHHHHc-----CCCEEEEEehhhhccc
Confidence            899999999984 322 22333333321     2699999999999765

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.

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.68  E-value=1.7e-15  Score=103.07  Aligned_cols=114  Identities=20%  Similarity=0.147  Sum_probs=72.3

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhcc
Q 030630           23 VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAK  102 (174)
Q Consensus        23 i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~  102 (174)
                      |+++|++|+|||||+|.|.+.......    .+|.......... ....+.++|+||...           +...+..++
T Consensus         2 i~i~G~~~~GKssl~~~l~~~~~~~~~----~~t~~~~~~~~~~-~~~~~~~~D~~g~~~-----------~~~~~~~~~   65 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGGQFSEDT----IPTVGFNMRKVTK-GNVTLKVWDLGGQPR-----------FRSMWERYC   65 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccCCCCcCc----cCCCCcceEEEEE-CCEEEEEEECCCCHh-----------HHHHHHHHH
Confidence            789999999999999999997643221    1222233333333 456789999999764           334444556


Q ss_pred             CCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          103 DGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       103 ~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..+|++++|+|.++...... ..++..+..... ....|+++|+||+|+...
T Consensus        66 ~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~~p~iiv~nK~D~~~~  116 (159)
T cd04159          66 RGVNAIVYVVDAADRTALEAAKNELHDLLEKPS-LEGIPLLVLGNKNDLPGA  116 (159)
T ss_pred             hcCCEEEEEEECCCHHHHHHHHHHHHHHHcChh-hcCCCEEEEEeCccccCC
Confidence            77899999999984322111 222222222111 122589999999998765

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.

>cd04125 RabA_like RabA-like subfamily

Probab=99.68  E-value=1.1e-15  Score=107.71  Aligned_cols=118  Identities=18%  Similarity=0.195  Sum_probs=75.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeC-CcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD-GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .+|+++|+.|+|||||++.+++........  ...+.......+.... ...+.++||||...           +.....
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~--~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~~~-----------~~~~~~   67 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTK--STIGVDFKIKTVYIENKIIKLQIWDTNGQER-----------FRSLNN   67 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCC--CceeeEEEEEEEEECCEEEEEEEEECCCcHH-----------HHhhHH
Confidence            378999999999999999999876422111  1112222222333311 23568999999654           333445


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..+.++|++++|+|.+++-+... ..|+..+.......  .|++++.||.|+...
T Consensus        68 ~~~~~~d~iilv~d~~~~~s~~~i~~~~~~i~~~~~~~--~~~ivv~nK~Dl~~~  120 (188)
T cd04125          68 SYYRGAHGYLLVYDVTDQESFENLKFWINEINRYAREN--VIKVIVANKSDLVNN  120 (188)
T ss_pred             HHccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCC--CeEEEEEECCCCccc
Confidence            56788999999999985433332 34555555543222  589999999998743

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.

>cd04112 Rab26 Rab26 subfamily

Probab=99.68  E-value=1.2e-15  Score=107.78  Aligned_cols=118  Identities=14%  Similarity=0.140  Sum_probs=74.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .+|+++|++|+|||||++.+.+....... ................. ....+.+|||||...           +.....
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~-----------~~~~~~   68 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGN-FIATVGIDFRNKVVTVDGVKVKLQIWDTAGQER-----------FRSVTH   68 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccC-cCCcccceeEEEEEEECCEEEEEEEEeCCCcHH-----------HHHhhH
Confidence            37899999999999999999876532111 11111111111112221 124578999999653           333334


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      ..+..+|++++|+|.++..+... ..++..+.+.....  .|+++|.||+|+..
T Consensus        69 ~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~~--~piiiv~NK~Dl~~  120 (191)
T cd04112          69 AYYRDAHALLLLYDITNKASFDNIRAWLTEIKEYAQED--VVIMLLGNKADMSG  120 (191)
T ss_pred             HHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCCC--CcEEEEEEcccchh
Confidence            45678899999999985433332 55666666653322  58999999999864

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.68  E-value=2.9e-15  Score=124.44  Aligned_cols=125  Identities=22%  Similarity=0.241  Sum_probs=85.8

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHH-
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI-   98 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~-   98 (174)
                      ..+|+++|.+|+|||||+|+|++....... ...+.|.........+ ++..+.++||||+.+.....  ...+....+ 
T Consensus       450 ~~kI~ivG~~nvGKSSLin~l~~~~~~~v~-~~~gtT~d~~~~~~~~-~~~~~~liDTaG~~~~~~~~--~~~e~~~~~r  525 (712)
T PRK09518        450 LRRVALVGRPNVGKSSLLNQLTHEERAVVN-DLAGTTRDPVDEIVEI-DGEDWLFIDTAGIKRRQHKL--TGAEYYSSLR  525 (712)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCccccccC-CCCCCCcCcceeEEEE-CCCEEEEEECCCcccCcccc--hhHHHHHHHH
Confidence            479999999999999999999987632111 2233444443334445 67788899999987532221  112222222 


Q ss_pred             -HhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 -GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 -~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                       ..++..+|++++|+|++++.+..+..++..+.+.   .  .|+++|+||+|+...
T Consensus       526 ~~~~i~~advvilViDat~~~s~~~~~i~~~~~~~---~--~piIiV~NK~DL~~~  576 (712)
T PRK09518        526 TQAAIERSELALFLFDASQPISEQDLKVMSMAVDA---G--RALVLVFNKWDLMDE  576 (712)
T ss_pred             HHHHhhcCCEEEEEEECCCCCCHHHHHHHHHHHHc---C--CCEEEEEEchhcCCh
Confidence             2346788999999999988888887766555432   2  699999999999764

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.68  E-value=2.8e-15  Score=105.27  Aligned_cols=115  Identities=12%  Similarity=0.090  Sum_probs=75.3

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      ..+|+++|++|+|||||++.+...... .    ..+|.......... .+..+.++||||...           +...+.
T Consensus        17 ~~kv~lvG~~~vGKTsli~~~~~~~~~-~----~~~T~~~~~~~~~~-~~~~~~l~D~~G~~~-----------~~~~~~   79 (182)
T PTZ00133         17 EVRILMVGLDAAGKTTILYKLKLGEVV-T----TIPTIGFNVETVEY-KNLKFTMWDVGGQDK-----------LRPLWR   79 (182)
T ss_pred             ccEEEEEcCCCCCHHHHHHHHhcCCcc-c----cCCccccceEEEEE-CCEEEEEEECCCCHh-----------HHHHHH
Confidence            378999999999999999999754432 1    11233333333444 567899999999864           444455


Q ss_pred             hccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhh--hcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~--~~~~~~iv~tk~D~~~~  153 (174)
                      .++.++|++|+|+|.++.-+..+  ..+.+.+.....  ...|+++|.||.|+.+.
T Consensus        80 ~~~~~ad~iI~v~D~t~~~s~~~--~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~  133 (182)
T PTZ00133         80 HYYQNTNGLIFVVDSNDRERIGD--AREELERMLSEDELRDAVLLVFANKQDLPNA  133 (182)
T ss_pred             HHhcCCCEEEEEEeCCCHHHHHH--HHHHHHHHHhCHhhcCCCEEEEEeCCCCCCC
Confidence            56788999999999984322221  122233332221  23689999999998653

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.68  E-value=7.7e-16  Score=112.67  Aligned_cols=131  Identities=19%  Similarity=0.206  Sum_probs=102.2

Q ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCC-hHHHHHHHHH
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAG-SEFVGKEIVK   96 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~-~~~~~~~~~~   96 (174)
                      .+...++++|.+++|||||.|.+.|...+..  +....|+..+...+-...+..+.|+||||+...... .+..+..+..
T Consensus        70 ~k~L~vavIG~PNvGKStLtN~mig~kv~~v--S~K~~TTr~~ilgi~ts~eTQlvf~DTPGlvs~~~~r~~~l~~s~lq  147 (379)
T KOG1423|consen   70 QKSLYVAVIGAPNVGKSTLTNQMIGQKVSAV--SRKVHTTRHRILGIITSGETQLVFYDTPGLVSKKMHRRHHLMMSVLQ  147 (379)
T ss_pred             ceEEEEEEEcCCCcchhhhhhHhhCCccccc--cccccceeeeeeEEEecCceEEEEecCCcccccchhhhHHHHHHhhh
Confidence            3457899999999999999999999987544  566677777777776667788999999999986553 3444555555


Q ss_pred             HHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630           97 CIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        97 ~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      -.+.++..+|++++++|+++.-.......+..+..+..    .|.++|+||.|..+..
T Consensus       148 ~~~~a~q~AD~vvVv~Das~tr~~l~p~vl~~l~~ys~----ips~lvmnkid~~k~k  201 (379)
T KOG1423|consen  148 NPRDAAQNADCVVVVVDASATRTPLHPRVLHMLEEYSK----IPSILVMNKIDKLKQK  201 (379)
T ss_pred             CHHHHHhhCCEEEEEEeccCCcCccChHHHHHHHHHhc----CCceeeccchhcchhh
Confidence            56667888999999999986445555777888888752    4789999999998763

>cd00880 Era_like Era (E

Probab=99.68  E-value=4.1e-15  Score=100.96  Aligned_cols=119  Identities=25%  Similarity=0.212  Sum_probs=76.4

Q ss_pred             EEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCC
Q 030630           25 LVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDG  104 (174)
Q Consensus        25 i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~  104 (174)
                      ++|+.|+|||||+|+|++......+ ...+.+...............+.++||||+.+............    ......
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~Dt~g~~~~~~~~~~~~~~~----~~~~~~   75 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVS-PVPGTTTDPVEYVWELGPLGPVVLIDTPGIDEAGGLGREREELA----RRVLER   75 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccC-CCCCcEECCeEEEEEecCCCcEEEEECCCCCccccchhhHHHHH----HHHHHh
Confidence            5899999999999999987644222 12223333333333332266899999999998654333322222    234456


Q ss_pred             ceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          105 IHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       105 ~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      +|.+++++++.+........+......     ...|+++|+||+|+...
T Consensus        76 ~d~il~v~~~~~~~~~~~~~~~~~~~~-----~~~~~ivv~nK~D~~~~  119 (163)
T cd00880          76 ADLILFVVDADLRADEEEEKLLELLRE-----RGKPVLLVLNKIDLLPE  119 (163)
T ss_pred             CCEEEEEEeCCCCCCHHHHHHHHHHHh-----cCCeEEEEEEccccCCh
Confidence            799999999985555555542222222     12689999999999876

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

>CHL00071 tufA elongation factor Tu

Probab=99.68  E-value=4e-16  Score=122.07  Aligned_cols=119  Identities=16%  Similarity=0.196  Sum_probs=83.9

Q ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCcccc--------------cccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCC
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRRAFK--------------SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   83 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~~~~--------------~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~   83 (174)
                      .+..+++++|+.++|||||+++|++.....              ..+...+.|.......+.+ ++..+.++||||+.+ 
T Consensus        10 ~~~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~-~~~~~~~iDtPGh~~-   87 (409)
T CHL00071         10 KPHVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYET-ENRHYAHVDCPGHAD-   87 (409)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEcc-CCeEEEEEECCChHH-
Confidence            345889999999999999999999752110              0111234555544444444 566789999999653 


Q ss_pred             CCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCc-EEEEEeCcCCCCC
Q 030630           84 SAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDY-MIVVFTGGDELED  153 (174)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~-~~iv~tk~D~~~~  153 (174)
                                +...+...+..+|++++|+|+..++...+.+.+..+....     .| +++++||+|+...
T Consensus        88 ----------~~~~~~~~~~~~D~~ilVvda~~g~~~qt~~~~~~~~~~g-----~~~iIvvvNK~D~~~~  143 (409)
T CHL00071         88 ----------YVKNMITGAAQMDGAILVVSAADGPMPQTKEHILLAKQVG-----VPNIVVFLNKEDQVDD  143 (409)
T ss_pred             ----------HHHHHHHHHHhCCEEEEEEECCCCCcHHHHHHHHHHHHcC-----CCEEEEEEEccCCCCH
Confidence                      3333334456779999999998788888888887666542     35 7789999999864

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.68  E-value=1.7e-15  Score=119.71  Aligned_cols=121  Identities=26%  Similarity=0.311  Sum_probs=80.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .+++++|.+|+|||||+|+|++....... ...+.|.......+.+ .+..+.++||||+.++.   +.......+....
T Consensus       216 ~kV~ivG~~nvGKSSLln~L~~~~~a~v~-~~~gtT~d~~~~~i~~-~g~~i~l~DT~G~~~~~---~~ie~~gi~~~~~  290 (449)
T PRK05291        216 LKVVIAGRPNVGKSSLLNALLGEERAIVT-DIAGTTRDVIEEHINL-DGIPLRLIDTAGIRETD---DEVEKIGIERSRE  290 (449)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCcccC-CCCCcccccEEEEEEE-CCeEEEEEeCCCCCCCc---cHHHHHHHHHHHH
Confidence            78999999999999999999987632121 2234454444444555 67789999999987532   2222222222333


Q ss_pred             ccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .+..+|++++|+|++++.+..+...+   ..  ..  ..|+++|+||+|+...
T Consensus       291 ~~~~aD~il~VvD~s~~~s~~~~~~l---~~--~~--~~piiiV~NK~DL~~~  336 (449)
T PRK05291        291 AIEEADLVLLVLDASEPLTEEDDEIL---EE--LK--DKPVIVVLNKADLTGE  336 (449)
T ss_pred             HHHhCCEEEEEecCCCCCChhHHHHH---Hh--cC--CCCcEEEEEhhhcccc
Confidence            56778999999999866655543333   22  11  2589999999999754

>cd04127 Rab27A Rab27a subfamily

Probab=99.67  E-value=1.7e-15  Score=105.85  Aligned_cols=119  Identities=14%  Similarity=0.054  Sum_probs=75.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe-----------CCcEEEEEeCCCCCCCCCChHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-----------DGQVVNVIDTPGLFDFSAGSEF   89 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-----------~~~~~~~iDtpG~~~~~~~~~~   89 (174)
                      .+|+++|++|+|||||++.+.+......  ...............+.           ....+.+|||||...       
T Consensus         5 ~ki~ivG~~~vGKTsli~~~~~~~~~~~--~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~-------   75 (180)
T cd04127           5 IKFLALGDSGVGKTSFLYQYTDNKFNPK--FITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQER-------   75 (180)
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCcc--CCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHH-------
Confidence            7899999999999999999988653211  11111111111122221           124678999999653       


Q ss_pred             HHHHHHHHHHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           90 VGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                          +.......+..+|++++|+|.++.-+... ..|+..+..... ....|+++|.||+|+...
T Consensus        76 ----~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~~piiiv~nK~Dl~~~  135 (180)
T cd04127          76 ----FRSLTTAFFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAY-CENPDIVLCGNKADLEDQ  135 (180)
T ss_pred             ----HHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCcEEEEEeCccchhc
Confidence                44445556778999999999985433333 455555544321 112589999999998653

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

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.67  E-value=2.6e-15  Score=121.52  Aligned_cols=126  Identities=19%  Similarity=0.268  Sum_probs=86.7

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      +.++|+++|+.++|||||+++|.+......  ...+.|.......+.+.....+.+|||||+.++           ....
T Consensus        86 r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~--e~~GIT~~ig~~~v~~~~~~~i~~iDTPGhe~F-----------~~~r  152 (587)
T TIGR00487        86 RPPVVTIMGHVDHGKTSLLDSIRKTKVAQG--EAGGITQHIGAYHVENEDGKMITFLDTPGHEAF-----------TSMR  152 (587)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhCCcccc--cCCceeecceEEEEEECCCcEEEEEECCCCcch-----------hhHH
Confidence            457999999999999999999998764322  223455554455555523348999999998863           2222


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhHHHHh
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYL  162 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~  162 (174)
                      ...+..+|++++|++++++....+.+.+..+...   .  .|+++++||+|+...+...+.+.+
T Consensus       153 ~rga~~aDiaILVVda~dgv~~qT~e~i~~~~~~---~--vPiIVviNKiDl~~~~~e~v~~~L  211 (587)
T TIGR00487       153 ARGAKVTDIVVLVVAADDGVMPQTIEAISHAKAA---N--VPIIVAINKIDKPEANPDRVKQEL  211 (587)
T ss_pred             HhhhccCCEEEEEEECCCCCCHhHHHHHHHHHHc---C--CCEEEEEECcccccCCHHHHHHHH
Confidence            3456778999999999877777776665443332   2  589999999999754333344443

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.

>cd00879 Sar1 Sar1 subfamily

Probab=99.67  E-value=2.2e-15  Score=106.27  Aligned_cols=126  Identities=13%  Similarity=0.065  Sum_probs=77.9

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      ..+++++|++|||||||++++.+.... ..    .+|.......+.+ .+..+.++|+||...           ....+.
T Consensus        19 ~~ki~ilG~~~~GKStLi~~l~~~~~~-~~----~~T~~~~~~~i~~-~~~~~~l~D~~G~~~-----------~~~~~~   81 (190)
T cd00879          19 EAKILFLGLDNAGKTTLLHMLKDDRLA-QH----VPTLHPTSEELTI-GNIKFKTFDLGGHEQ-----------ARRLWK   81 (190)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCc-cc----CCccCcceEEEEE-CCEEEEEEECCCCHH-----------HHHHHH
Confidence            378999999999999999999986532 11    1122222233444 567889999999654           233344


Q ss_pred             hccCCceEEEEEEeCCCCCCHH-HHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC-ChhhHHHHhc
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQE-EEAALHSLQTLFGKKIFDYMIVVFTGGDELED-NDETLEDYLG  163 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~-~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~-~~~~~~~~~~  163 (174)
                      .++.++|++++|+|.++.-... ...++..+.+.. .....|+++++||+|+.+. ....++++++
T Consensus        82 ~~~~~ad~iilV~D~~~~~s~~~~~~~~~~i~~~~-~~~~~pvivv~NK~Dl~~~~~~~~~~~~~~  146 (190)
T cd00879          82 DYFPEVDGIVFLVDAADPERFQESKEELDSLLSDE-ELANVPFLILGNKIDLPGAVSEEELRQALG  146 (190)
T ss_pred             HHhccCCEEEEEEECCcHHHHHHHHHHHHHHHcCc-cccCCCEEEEEeCCCCCCCcCHHHHHHHhC
Confidence            5567889999999997432111 123333332211 1123699999999998643 2233444443

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.

>cd04110 Rab35 Rab35 subfamily

Probab=99.67  E-value=2.1e-15  Score=107.34  Aligned_cols=118  Identities=17%  Similarity=0.145  Sum_probs=74.8

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeC-CcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD-GQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      ..+|+++|++|+|||||++.+.+.......  ............+.... ...+.+|||||...           +....
T Consensus         6 ~~kivvvG~~~vGKTsli~~l~~~~~~~~~--~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~~-----------~~~~~   72 (199)
T cd04110           6 LFKLLIIGDSGVGKSSLLLRFADNTFSGSY--ITTIGVDFKIRTVEINGERVKLQIWDTAGQER-----------FRTIT   72 (199)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCc--CccccceeEEEEEEECCEEEEEEEEeCCCchh-----------HHHHH
Confidence            378999999999999999999986532111  11111112222222211 23578999999764           23333


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...+..+|++++|+|.+++-+... ..+++.+....   ...|+++|.||+|+...
T Consensus        73 ~~~~~~a~~iilv~D~~~~~s~~~~~~~~~~i~~~~---~~~piivVgNK~Dl~~~  125 (199)
T cd04110          73 STYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNC---DDVCKVLVGNKNDDPER  125 (199)
T ss_pred             HHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhC---CCCCEEEEEECcccccc
Confidence            445677899999999985433332 44555554432   22589999999998754

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

>PRK04213 GTP-binding protein; Provisional

Probab=99.67  E-value=6.3e-15  Score=104.89  Aligned_cols=125  Identities=22%  Similarity=0.214  Sum_probs=73.9

Q ss_pred             CCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHH
Q 030630           17 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   96 (174)
Q Consensus        17 ~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~   96 (174)
                      .....+|+++|.+|+|||||+|+|++.... .+ ...+.|...  ....+   ..+.+|||||+.......+.....++.
T Consensus         6 ~~~~~~i~i~G~~~~GKSsLin~l~~~~~~-~~-~~~~~t~~~--~~~~~---~~~~l~Dt~G~~~~~~~~~~~~~~~~~   78 (201)
T PRK04213          6 PDRKPEIVFVGRSNVGKSTLVRELTGKKVR-VG-KRPGVTRKP--NHYDW---GDFILTDLPGFGFMSGVPKEVQEKIKD   78 (201)
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCCc-cC-CCCceeeCc--eEEee---cceEEEeCCccccccccCHHHHHHHHH
Confidence            344579999999999999999999987632 22 122333322  22222   258999999975432222211222222


Q ss_pred             ----HHHhccCCceEEEEEEeCCCCCC-----------HHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           97 ----CIGMAKDGIHAVLVVFSVRSRFS-----------QEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        97 ----~~~~~~~~~~~il~v~~~~~~~~-----------~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                          ++......++++++|+|.++...           ..+.+....+...     ..|+++|+||+|+...
T Consensus        79 ~~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~p~iiv~NK~Dl~~~  145 (201)
T PRK04213         79 EIVRYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLREL-----GIPPIVAVNKMDKIKN  145 (201)
T ss_pred             HHHHHHHhhhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHHHc-----CCCeEEEEECccccCc
Confidence                23334456789999999863211           1122333333321     2689999999998654

>cd01889 SelB_euk SelB subfamily

Probab=99.67  E-value=1.2e-15  Score=107.87  Aligned_cols=116  Identities=16%  Similarity=0.282  Sum_probs=73.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcc---cc--cccCCCCcceeeEEEEEEEe-------------CCcEEEEEeCCCCCCC
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRA---FK--SRASSSGVTSTCEMQRTVLK-------------DGQVVNVIDTPGLFDF   83 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~---~~--~~~~~~~~t~~~~~~~~~~~-------------~~~~~~~iDtpG~~~~   83 (174)
                      +|+++|+.|+|||||++++++...   +.  ......+.|.........+.             ....+.++||||+.. 
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            689999999999999999987310   00  00111234444444444331             256789999999842 


Q ss_pred             CCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           84 SAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                                +.+........+|++++|+|+.+.....+.+.+..... .    ..|+++++||+|+...
T Consensus        81 ----------~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~~~~~-~----~~~~iiv~NK~Dl~~~  135 (192)
T cd01889          81 ----------LIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLVIGEI-L----CKKLIVVLNKIDLIPE  135 (192)
T ss_pred             ----------HHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHHHHHH-c----CCCEEEEEECcccCCH
Confidence                      22222233456799999999986666665544433222 1    2589999999999754

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

>cd04142 RRP22 RRP22 subfamily

Probab=99.67  E-value=2.4e-15  Score=106.90  Aligned_cols=126  Identities=17%  Similarity=0.148  Sum_probs=75.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      +|+++|.+|+|||||++.+++......  ..+..+.......+.+ ++  ..+.++||||.......   ...++.....
T Consensus         2 kI~ivG~~~vGKTsLi~~~~~~~f~~~--~~pt~~~~~~~~~i~~-~~~~~~l~i~Dt~G~~~~~~~---~~~e~~~~~~   75 (198)
T cd04142           2 RVAVLGAPGVGKTAIVRQFLAQEFPEE--YIPTEHRRLYRPAVVL-SGRVYDLHILDVPNMQRYPGT---AGQEWMDPRF   75 (198)
T ss_pred             EEEEECCCCCcHHHHHHHHHcCCCCcc--cCCccccccceeEEEE-CCEEEEEEEEeCCCcccCCcc---chhHHHHHHH
Confidence            789999999999999999998653221  1111111111122333 33  35789999998753321   1112222223


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHh-hhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFG-KKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~-~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..+..+|++++|+|.+++-+... ..+.+.+.+... .....|+++|.||+|+...
T Consensus        76 ~~~~~ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~  131 (198)
T cd04142          76 RGLRNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRH  131 (198)
T ss_pred             hhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECcccccc
Confidence            34577899999999985433332 344444544321 1123699999999999653

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.

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.67  E-value=4e-15  Score=104.39  Aligned_cols=115  Identities=14%  Similarity=0.078  Sum_probs=76.7

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      ..+|+++|..|+|||||++.+.......     ..+|.......... .+..+.++|+||...           +...+.
T Consensus        17 ~~ki~ivG~~~~GKTsl~~~l~~~~~~~-----~~pt~g~~~~~~~~-~~~~~~i~D~~Gq~~-----------~~~~~~   79 (181)
T PLN00223         17 EMRILMVGLDAAGKTTILYKLKLGEIVT-----TIPTIGFNVETVEY-KNISFTVWDVGGQDK-----------IRPLWR   79 (181)
T ss_pred             ccEEEEECCCCCCHHHHHHHHccCCCcc-----ccCCcceeEEEEEE-CCEEEEEEECCCCHH-----------HHHHHH
Confidence            3799999999999999999998654321     12232333334444 567899999999754           444555


Q ss_pred             hccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhh--hcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~--~~~~~~iv~tk~D~~~~  153 (174)
                      ..+.++|++++|+|.+++-...  ...+.+.+.+...  ...|++++.||.|+.+.
T Consensus        80 ~~~~~a~~iI~V~D~s~~~s~~--~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~  133 (181)
T PLN00223         80 HYFQNTQGLIFVVDSNDRDRVV--EARDELHRMLNEDELRDAVLLVFANKQDLPNA  133 (181)
T ss_pred             HHhccCCEEEEEEeCCcHHHHH--HHHHHHHHHhcCHhhCCCCEEEEEECCCCCCC
Confidence            5678899999999998432222  2222333333221  13689999999998654

>cd01893 Miro1 Miro1 subfamily

Probab=99.67  E-value=1.5e-15  Score=104.90  Aligned_cols=114  Identities=17%  Similarity=0.098  Sum_probs=73.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEE-eCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      +++++|..|+|||||++++.+...... ..   .+.........+ .....+.+|||||....           ...+..
T Consensus         2 kv~ivG~~~vGKTsl~~~l~~~~~~~~-~~---~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~-----------~~~~~~   66 (166)
T cd01893           2 RIVLIGDEGVGKSSLIMSLVSEEFPEN-VP---RVLPEITIPADVTPERVPTTIVDTSSRPQD-----------RANLAA   66 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCcCCcc-CC---CcccceEeeeeecCCeEEEEEEeCCCchhh-----------hHHHhh
Confidence            789999999999999999998764322 11   111111111111 13456789999997651           122233


Q ss_pred             ccCCceEEEEEEeCCCCCCHHH--HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~--~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .+..+|++++|+|.+++-+...  ..|++.+.... .  ..|+++|+||+|+...
T Consensus        67 ~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~i~~~~-~--~~pviiv~nK~Dl~~~  118 (166)
T cd01893          67 EIRKANVICLVYSVDRPSTLERIRTKWLPLIRRLG-V--KVPIILVGNKSDLRDG  118 (166)
T ss_pred             hcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-C--CCCEEEEEEchhcccc
Confidence            4577899999999985444333  34556565542 2  3699999999999764

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.

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

Probab=99.66  E-value=1.3e-15  Score=104.73  Aligned_cols=120  Identities=16%  Similarity=0.177  Sum_probs=90.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .+|+++|.+|+|||.|+..+.+.........+.+  .+......++. +...+.+|||.|..+           ++....
T Consensus        10 FKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIG--VDf~~rt~e~~gk~iKlQIWDTAGQER-----------Frtit~   76 (205)
T KOG0084|consen   10 FKIILIGDSGVGKTCLLLRFKDDTFTESYISTIG--VDFKIRTVELDGKTIKLQIWDTAGQER-----------FRTITS   76 (205)
T ss_pred             EEEEEECCCCcChhhhhhhhccCCcchhhcceee--eEEEEEEeeecceEEEEEeeeccccHH-----------HhhhhH
Confidence            7899999999999999999998876544333333  33333344431 234789999999987           667778


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCCh
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDND  155 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~  155 (174)
                      ..++++|+||+|+|.+..-+... ..|+..+.......  .+.++|.||+|+.+...
T Consensus        77 syYR~ahGii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~--v~~lLVGNK~Dl~~~~~  131 (205)
T KOG0084|consen   77 SYYRGAHGIIFVYDITKQESFNNVKRWIQEIDRYASEN--VPKLLVGNKCDLTEKRV  131 (205)
T ss_pred             hhccCCCeEEEEEEcccHHHhhhHHHHHHHhhhhccCC--CCeEEEeeccccHhhee
Confidence            88999999999999986555554 67888888876555  48999999999987543

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.66  E-value=1.5e-15  Score=105.55  Aligned_cols=116  Identities=19%  Similarity=0.101  Sum_probs=73.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEE--EEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM--QRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~--~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      +|+++|..|+|||||++.+++......    ..+|....+  ...... ....+.+|||||...           +....
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~----~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~-----------~~~~~   66 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKN----YKATIGVDFEMERFEILGVPFSLQLWDTAGQER-----------FKCIA   66 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCC----CCCceeeEEEEEEEEECCEEEEEEEEeCCChHH-----------HHhhH
Confidence            689999999999999999998754222    122222222  222221 124689999999865           33333


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...+.++|++++|+|.+++-+... ..|++.+.+.... ...|+++|.||+|+...
T Consensus        67 ~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~-~~~~iilVgnK~Dl~~~  121 (170)
T cd04108          67 STYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDP-SSVLLFLVGTKKDLSSP  121 (170)
T ss_pred             HHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCC-CCCeEEEEEEChhcCcc
Confidence            456778999999999974322222 4555554433211 12478999999998643

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.66  E-value=2.4e-15  Score=105.68  Aligned_cols=118  Identities=14%  Similarity=0.126  Sum_probs=73.1

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEE--eCCcEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL--KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      ..+|+++|.+|+|||||++.++..... ......+.+.  .......  .....+.++||||...           +...
T Consensus         3 ~~kv~~vG~~~~GKTsli~~~~~~~~~-~~~~t~~~~~--~~~~~~~~~~~~~~l~l~Dt~G~~~-----------~~~~   68 (183)
T cd04152           3 SLHIVMLGLDSAGKTTVLYRLKFNEFV-NTVPTKGFNT--EKIKVSLGNSKGITFHFWDVGGQEK-----------LRPL   68 (183)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCcC-CcCCccccce--eEEEeeccCCCceEEEEEECCCcHh-----------HHHH
Confidence            368999999999999999999876532 1111111111  1111111  1345789999999754           3334


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      +..++..+|++++|+|+++.-+... ..++..+...... ...|+++++||+|+..
T Consensus        69 ~~~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~i~~~~~~-~~~p~iiv~NK~D~~~  123 (183)
T cd04152          69 WKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITRFSEN-QGVPVLVLANKQDLPN  123 (183)
T ss_pred             HHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhhhhc-CCCcEEEEEECcCccc
Confidence            4455678899999999984322222 2334334433221 2369999999999864

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.

>cd04114 Rab30 Rab30 subfamily

Probab=99.66  E-value=1.9e-15  Score=104.55  Aligned_cols=118  Identities=15%  Similarity=0.128  Sum_probs=74.8

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      ..+++++|++|+|||||++.+++.......  ....+.........+ .+  ..+.++|+||...           +...
T Consensus         7 ~~~v~v~G~~~~GKSsli~~l~~~~~~~~~--~~t~~~~~~~~~~~~-~~~~~~~~~~D~~g~~~-----------~~~~   72 (169)
T cd04114           7 LFKIVLIGNAGVGKTCLVRRFTQGLFPPGQ--GATIGVDFMIKTVEI-KGEKIKLQIWDTAGQER-----------FRSI   72 (169)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCCCCCCC--CCceeeEEEEEEEEE-CCEEEEEEEEECCCcHH-----------HHHH
Confidence            389999999999999999999865432121  111111222222333 33  3578899999764           3333


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...++..+|++++|+|.++..+... ..++..+.......  .|++++.||+|+...
T Consensus        73 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~~--~~~i~v~NK~D~~~~  127 (169)
T cd04114          73 TQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNK--VITILVGNKIDLAER  127 (169)
T ss_pred             HHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCC--CeEEEEEECcccccc
Confidence            3445678899999999874432222 35555555543323  588999999998654

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.

>cd04117 Rab15 Rab15 subfamily

Probab=99.66  E-value=2.8e-15  Score=103.17  Aligned_cols=114  Identities=17%  Similarity=0.164  Sum_probs=73.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceee--EEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTC--EMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~--~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      +|+++|++|+|||||++.+++.......    ..|...  ....... .+  ..+.++||||...           ....
T Consensus         2 ki~vvG~~~~GKTsli~~~~~~~~~~~~----~~t~~~~~~~~~~~~-~~~~~~l~i~D~~g~~~-----------~~~~   65 (161)
T cd04117           2 RLLLIGDSGVGKTCLLCRFTDNEFHSSH----ISTIGVDFKMKTIEV-DGIKVRIQIWDTAGQER-----------YQTI   65 (161)
T ss_pred             EEEEECcCCCCHHHHHHHHhcCCCCCCC----CCceeeEEEEEEEEE-CCEEEEEEEEeCCCcHh-----------HHhh
Confidence            6899999999999999999876543221    122222  2222333 22  3578999999765           2233


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .......+|++++|+|.+++-+... ..+++.+......  ..|+++|.||.|+...
T Consensus        66 ~~~~~~~~~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~~--~~~iilvgnK~Dl~~~  120 (161)
T cd04117          66 TKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPE--GVQKILIGNKADEEQK  120 (161)
T ss_pred             HHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCCC--CCeEEEEEECcccccc
Confidence            3445678899999999985433333 4555555544222  2589999999998654

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.66  E-value=2.5e-15  Score=108.47  Aligned_cols=117  Identities=15%  Similarity=0.048  Sum_probs=77.6

Q ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEE--EEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHH
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ--RTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEI   94 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~--~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~   94 (174)
                      ....+|+++|..|+|||||++.++........    ..|....+.  ..... ....+.+|||||...           +
T Consensus        11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~----~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~-----------~   75 (219)
T PLN03071         11 YPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKY----EPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEK-----------F   75 (219)
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhhCCCCCcc----CCccceeEEEEEEEECCeEEEEEEEECCCchh-----------h
Confidence            44589999999999999999998765432111    122222222  22221 235789999999876           2


Q ss_pred             HHHHHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630           95 VKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus        95 ~~~~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      .......+..+|++|+|+|.+++.+... ..|++.+.+.. .  ..|+++|.||+|+..
T Consensus        76 ~~~~~~~~~~~~~~ilvfD~~~~~s~~~i~~w~~~i~~~~-~--~~piilvgNK~Dl~~  131 (219)
T PLN03071         76 GGLRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVC-E--NIPIVLCGNKVDVKN  131 (219)
T ss_pred             hhhhHHHcccccEEEEEEeCCCHHHHHHHHHHHHHHHHhC-C--CCcEEEEEEchhhhh
Confidence            2333445678899999999986544443 46666666543 2  269999999999854

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=99.66  E-value=2.1e-15  Score=112.05  Aligned_cols=116  Identities=22%  Similarity=0.255  Sum_probs=77.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCccc--ccccCC--------------CCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCC
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAF--KSRASS--------------SGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~--~~~~~~--------------~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~   85 (174)
                      +|+++|++|+|||||+++|+.....  ..+...              ...+.........+ ++..+.++||||..+   
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            4799999999999999999753211  111100              12233334445556 677899999999875   


Q ss_pred             ChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630           86 GSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                              +...+..++..+|.+++|+|+++.........++.+...     ..|.++++||+|.....
T Consensus        77 --------f~~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~~~~~~~-----~~p~iivvNK~D~~~~~  132 (268)
T cd04170          77 --------FVGETRAALRAADAALVVVSAQSGVEVGTEKLWEFADEA-----GIPRIIFINKMDRERAD  132 (268)
T ss_pred             --------HHHHHHHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHHc-----CCCEEEEEECCccCCCC
Confidence                    222233344566999999999877666666665544432     25889999999998653

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

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

Probab=99.66  E-value=1.4e-15  Score=105.17  Aligned_cols=114  Identities=22%  Similarity=0.165  Sum_probs=73.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe---CCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK---DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~---~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      +|+++|++|+|||||++.++.......    ...|.........+.   ....+.++||||......           ..
T Consensus         2 ki~vvG~~~vGKTsli~~~~~~~~~~~----~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~-----------~~   66 (166)
T cd00877           2 KLVLVGDGGTGKTTFVKRHLTGEFEKK----YVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGG-----------LR   66 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCC----CCCceeeEEEEEEEEECCEEEEEEEEECCCChhhcc-----------cc
Confidence            789999999999999999986543211    122332233222221   234678999999865321           11


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...+..+|++++|+|.+++-+... ..++..+.....   ..|+++|.||+|+...
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            224567899999999985433333 456666665543   3699999999998643

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

>cd01862 Rab7 Rab7 subfamily

Probab=99.66  E-value=3.5e-15  Score=103.36  Aligned_cols=117  Identities=15%  Similarity=0.128  Sum_probs=71.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      +|+++|++|+|||||++++.+.......  ..............+ .+  ..+.++|+||...           +.....
T Consensus         2 ki~viG~~~~GKSsl~~~l~~~~~~~~~--~~t~~~~~~~~~~~~-~~~~~~~~~~D~~g~~~-----------~~~~~~   67 (172)
T cd01862           2 KVIILGDSGVGKTSLMNQYVNKKFSNQY--KATIGADFLTKEVTV-DDKLVTLQIWDTAGQER-----------FQSLGV   67 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCcCc--CCccceEEEEEEEEE-CCEEEEEEEEeCCChHH-----------HHhHHH
Confidence            7899999999999999999987632111  111111111222333 22  3467999999754           223334


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhh--hhcCcEEEEEeCcCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGK--KIFDYMIVVFTGGDELE  152 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~--~~~~~~~iv~tk~D~~~  152 (174)
                      ..+.++|++++++|..++.+... ..+.+.+......  ....|+++|+||+|+..
T Consensus        68 ~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~  123 (172)
T cd01862          68 AFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEE  123 (172)
T ss_pred             HHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECccccc
Confidence            55678899999999975433222 2333333332221  11368999999999984

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-

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

Probab=99.66  E-value=3.3e-15  Score=102.27  Aligned_cols=116  Identities=22%  Similarity=0.193  Sum_probs=72.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceee-EEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTC-EMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~-~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      .+|+++|++|+|||||+|++++.......    .+|... ....... .+  ..+.+|||||...           +...
T Consensus         2 ~ki~iiG~~~vGKTsl~~~~~~~~~~~~~----~~t~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~-----------~~~l   65 (162)
T cd04138           2 YKLVVVGAGGVGKSALTIQLIQNHFVDEY----DPTIEDSYRKQVVI-DGETCLLDILDTAGQEE-----------YSAM   65 (162)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCcCCc----CCcchheEEEEEEE-CCEEEEEEEEECCCCcc-----------hHHH
Confidence            58999999999999999999986532211    111111 1122222 22  3467899999765           2333


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ....+..+|++++|++.++.-+... ..+...+.+.... ...|+++|.||+|+...
T Consensus        66 ~~~~~~~~~~~i~v~~~~~~~s~~~~~~~~~~i~~~~~~-~~~piivv~nK~Dl~~~  121 (162)
T cd04138          66 RDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDS-DDVPMVLVGNKCDLAAR  121 (162)
T ss_pred             HHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCCEEEEEECcccccc
Confidence            3345567799999999884332222 3444455544221 22689999999998753

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.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.66  E-value=3e-15  Score=102.98  Aligned_cols=116  Identities=19%  Similarity=0.199  Sum_probs=71.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      +|+++|++|+|||||++++.+........  . .+.......... +.  ..+.++||||..+.           .....
T Consensus         2 ki~v~G~~~~GKTsli~~~~~~~~~~~~~--~-t~~~~~~~~~~~-~~~~~~l~i~Dt~g~~~~-----------~~~~~   66 (164)
T smart00173        2 KLVVLGSGGVGKSALTIQFVQGHFVDDYD--P-TIEDSYRKQIEI-DGEVCLLDILDTAGQEEF-----------SAMRD   66 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCcCCcccC--C-chhhhEEEEEEE-CCEEEEEEEEECCCcccc-----------hHHHH
Confidence            78999999999999999999865322211  1 111111122222 22  35778999998762           22223


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..+..+|++++|+|.++.-+... ..+.+.+.+.... ...|++++.||+|+...
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            34556799999999984332222 3444444443222 12689999999998653

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

>PLN03110 Rab GTPase; Provisional

Probab=99.66  E-value=3.2e-15  Score=107.65  Aligned_cols=117  Identities=16%  Similarity=0.132  Sum_probs=77.3

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEE--EEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM--QRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVK   96 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~--~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~   96 (174)
                      ..+|+++|++|+|||||++.+++.......    ..|....+  ..+... ....+.+|||||..+           +..
T Consensus        12 ~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~----~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~-----------~~~   76 (216)
T PLN03110         12 LFKIVLIGDSGVGKSNILSRFTRNEFCLES----KSTIGVEFATRTLQVEGKTVKAQIWDTAGQER-----------YRA   76 (216)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCC----CCceeEEEEEEEEEECCEEEEEEEEECCCcHH-----------HHH
Confidence            379999999999999999999987643221    12222222  222221 123678999999664           334


Q ss_pred             HHHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           97 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        97 ~~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .....+..++++++|+|.++.-+... ..|+..+.......  .|++++.||+|+...
T Consensus        77 ~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~--~piiiv~nK~Dl~~~  132 (216)
T PLN03110         77 ITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSN--IVIMMAGNKSDLNHL  132 (216)
T ss_pred             HHHHHhCCCCEEEEEEECCChHHHHHHHHHHHHHHHhCCCC--CeEEEEEEChhcccc
Confidence            44556678899999999985433333 45666666543222  589999999998543

>smart00053 DYNc Dynamin, GTPase

Probab=99.66  E-value=1.6e-14  Score=104.89  Aligned_cols=138  Identities=16%  Similarity=0.148  Sum_probs=85.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCccccc--ccCCCCcce-----------------------------------------
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKS--RASSSGVTS-----------------------------------------   57 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~--~~~~~~~t~-----------------------------------------   57 (174)
                      +.++++|++|+||||++++|+|...+..  |..+..++.                                         
T Consensus        27 p~i~vvG~~~~GKSt~l~~i~g~~~~~~~~g~~t~~p~~i~l~~~~~~~~~~~~~~~~~~~~~~~v~~~i~~~~~~~~~~  106 (240)
T smart00053       27 PQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLILQLINSSTEYAEFLHCKGKKFTDFDEVRNEIEAETDRVTGT  106 (240)
T ss_pred             CeEEEEcCCCccHHHHHHHHhCCCccccCCCcccccceEEEccCCCCcceEEEecCCcccCCHHHHHHHHHHHHHHhcCC
Confidence            6899999999999999999999752222  111100000                                         


Q ss_pred             ------eeEEEEEEEeCCcEEEEEeCCCCCCCCC--ChHHHHHHHHHHHHhccC-CceEEEEEEeCCCCCCHHH-HHHHH
Q 030630           58 ------TCEMQRTVLKDGQVVNVIDTPGLFDFSA--GSEFVGKEIVKCIGMAKD-GIHAVLVVFSVRSRFSQEE-EAALH  127 (174)
Q Consensus        58 ------~~~~~~~~~~~~~~~~~iDtpG~~~~~~--~~~~~~~~~~~~~~~~~~-~~~~il~v~~~~~~~~~~~-~~~l~  127 (174)
                            ..-...+..+....+.++||||+.....  ........+.+.+..+.. ..+.+++|+++...+...+ .++.+
T Consensus       107 ~~~~s~~~i~l~i~~p~~~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~  186 (240)
T smart00053      107 NKGISPVPINLRVYSPHVLNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAK  186 (240)
T ss_pred             CCcccCcceEEEEeCCCCCceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHH
Confidence                  0001111112235689999999975421  124455556666666655 3458889999876666655 35544


Q ss_pred             HHHHHHhhhhcCcEEEEEeCcCCCCCChhhHHHHhcc
Q 030630          128 SLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGR  164 (174)
Q Consensus       128 ~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~  164 (174)
                      .+...     ..++++|+||+|..++. ..+.+.++.
T Consensus       187 ~ld~~-----~~rti~ViTK~D~~~~~-~~~~~~~~~  217 (240)
T smart00053      187 EVDPQ-----GERTIGVITKLDLMDEG-TDARDILEN  217 (240)
T ss_pred             HHHHc-----CCcEEEEEECCCCCCcc-HHHHHHHhC
Confidence            44433     26999999999998764 335555555

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.66  E-value=2.2e-15  Score=103.71  Aligned_cols=115  Identities=15%  Similarity=0.152  Sum_probs=72.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCc-ccccccCCCCcceeeEE--EEEEE--eCCcEEEEEeCCCCCCCCCChHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRR-AFKSRASSSGVTSTCEM--QRTVL--KDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   96 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~-~~~~~~~~~~~t~~~~~--~~~~~--~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~   96 (174)
                      +|+++|++|+|||||++++.... .+...   ...|.....  .....  .....+.+|||||...           ...
T Consensus         2 ki~vvG~~~~GKtsl~~~l~~~~~~~~~~---~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~-----------~~~   67 (164)
T cd04101           2 RCAVVGDPAVGKTAFVQMFHSNGAVFPKN---YLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQEL-----------YSD   67 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCcCcc---CCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHH-----------HHH
Confidence            78999999999999999998642 12111   112222111  12222  1235789999999643           223


Q ss_pred             HHHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           97 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        97 ~~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .......++|++++|+|.++.-+... ..|++.+....   ...|+++|.||+|+...
T Consensus        68 ~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~---~~~p~ilv~nK~Dl~~~  122 (164)
T cd04101          68 MVSNYWESPSVFILVYDVSNKASFENCSRWVNKVRTAS---KHMPGVLVGNKMDLADK  122 (164)
T ss_pred             HHHHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC---CCCCEEEEEECcccccc
Confidence            33445678899999999985432222 44555444432   22689999999998654

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.

>cd04111 Rab39 Rab39 subfamily

Probab=99.65  E-value=4e-15  Score=106.77  Aligned_cols=118  Identities=18%  Similarity=0.120  Sum_probs=75.5

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEE--EEEEEeC--CcEEEEEeCCCCCCCCCChHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM--QRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGKEIV   95 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~--~~~~~~~--~~~~~~iDtpG~~~~~~~~~~~~~~~~   95 (174)
                      ..+|+++|++|+|||||++.+++......    ...|.....  ..+....  ...+.++||||...           +.
T Consensus         2 ~~KIvvvG~~~vGKTsLi~~l~~~~~~~~----~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~-----------~~   66 (211)
T cd04111           2 QFRLIVIGDSTVGKSSLLKRFTEGRFAEV----SDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQER-----------FR   66 (211)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCC----CCceeceEEEEEEEEECCCCEEEEEEEeCCcchh-----------HH
Confidence            37899999999999999999998663222    112222222  2222212  24678999999764           33


Q ss_pred             HHHHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           96 KCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        96 ~~~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ......+..+|++++|+|.+++-+... ..+++.+.+.... ...+++++.||+|+...
T Consensus        67 ~~~~~~~~~~d~iilv~D~~~~~Sf~~l~~~~~~i~~~~~~-~~~~iilvgNK~Dl~~~  124 (211)
T cd04111          67 SITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQP-HRPVFILVGHKCDLESQ  124 (211)
T ss_pred             HHHHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCeEEEEEEccccccc
Confidence            333456678899999999985433333 4555555544322 12467899999998753

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.

>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=99.65  E-value=2.4e-15  Score=110.59  Aligned_cols=145  Identities=20%  Similarity=0.170  Sum_probs=101.4

Q ss_pred             cccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHH
Q 030630           11 WELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFV   90 (174)
Q Consensus        11 ~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~   90 (174)
                      +.++...-  ..++++|-++||||||+|+|....+ ..+ .....|....+..+.+.+...+.+-|.||+.+....+.-+
T Consensus       189 ~~lELKsi--advGLVG~PNAGKSTLL~als~AKp-kVa-~YaFTTL~P~iG~v~yddf~q~tVADiPGiI~GAh~nkGl  264 (366)
T KOG1489|consen  189 IELELKSI--ADVGLVGFPNAGKSTLLNALSRAKP-KVA-HYAFTTLRPHIGTVNYDDFSQITVADIPGIIEGAHMNKGL  264 (366)
T ss_pred             EEEEeeee--cccceecCCCCcHHHHHHHhhccCC-ccc-ccceeeeccccceeeccccceeEeccCccccccccccCcc
Confidence            33444443  5589999999999999999998775 232 3344555555556666455569999999999999899999


Q ss_pred             HHHHHHHHHhccCCceEEEEEEeCCCC--CCHHH--HHHHHHHHHHHhhh-hcCcEEEEEeCcCCCCCChhhHHHHhcc
Q 030630           91 GKEIVKCIGMAKDGIHAVLVVFSVRSR--FSQEE--EAALHSLQTLFGKK-IFDYMIVVFTGGDELEDNDETLEDYLGR  164 (174)
Q Consensus        91 ~~~~~~~~~~~~~~~~~il~v~~~~~~--~~~~~--~~~l~~l~~~~~~~-~~~~~~iv~tk~D~~~~~~~~~~~~~~~  164 (174)
                      ..++++.+..+    +.++||+|++..  .++.+  +.....+..+ .+. ..+|.++|.||+|..+.+...+.++.+.
T Consensus       265 G~~FLrHiER~----~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~y-ek~L~~rp~liVaNKiD~~eae~~~l~~L~~~  338 (366)
T KOG1489|consen  265 GYKFLRHIERC----KGLLFVVDLSGKQLRNPWQQLQLLIEELELY-EKGLADRPALIVANKIDLPEAEKNLLSSLAKR  338 (366)
T ss_pred             cHHHHHHHHhh----ceEEEEEECCCcccCCHHHHHHHHHHHHHHH-hhhhccCceEEEEeccCchhHHHHHHHHHHHH
Confidence            99999998877    999999999843  14443  2223333332 222 3468999999999976553444555554

>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=99.65  E-value=3.4e-16  Score=102.29  Aligned_cols=116  Identities=20%  Similarity=0.173  Sum_probs=68.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccc--cccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFK--SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~--~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      +|+++|+.|+|||||+++|++.....  ........+.......... ....+.++|++|.....           ....
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~d~~g~~~~~-----------~~~~   68 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDG-DRQSLQFWDFGGQEEFY-----------SQHQ   68 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETT-EEEEEEEEEESSSHCHH-----------CTSH
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecC-CceEEEEEecCccceec-----------cccc
Confidence            68999999999999999999877541  1111222233222222211 22357899999986521           1111


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGD  149 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D  149 (174)
                      .....+|++++|+|.+++-+... ..++.++..........|+++|.||.|
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            12344599999999984432333 344555555543333469999999998

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.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.65  E-value=4.5e-15  Score=123.06  Aligned_cols=117  Identities=16%  Similarity=0.210  Sum_probs=84.8

Q ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      .+.++|+++|+.++|||||+++|.+......  ...+.|.......+.+ .+..+.||||||+.++.           ..
T Consensus       288 ~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~--e~~GIT~~iga~~v~~-~~~~ItfiDTPGhe~F~-----------~m  353 (787)
T PRK05306        288 PRPPVVTIMGHVDHGKTSLLDAIRKTNVAAG--EAGGITQHIGAYQVET-NGGKITFLDTPGHEAFT-----------AM  353 (787)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhCCcccc--ccCceeeeccEEEEEE-CCEEEEEEECCCCccch-----------hH
Confidence            3458999999999999999999987654322  2234555555556666 56789999999988732           22


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ....+..+|++++|++++++....+.+.+..+...   .  .|+++++||+|+...
T Consensus       354 ~~rga~~aDiaILVVdAddGv~~qT~e~i~~a~~~---~--vPiIVviNKiDl~~a  404 (787)
T PRK05306        354 RARGAQVTDIVVLVVAADDGVMPQTIEAINHAKAA---G--VPIIVAINKIDKPGA  404 (787)
T ss_pred             HHhhhhhCCEEEEEEECCCCCCHhHHHHHHHHHhc---C--CcEEEEEECcccccc
Confidence            22345667999999999878777777666544432   2  589999999999654

>cd04121 Rab40 Rab40 subfamily

Probab=99.65  E-value=4.7e-15  Score=104.61  Aligned_cols=115  Identities=17%  Similarity=0.148  Sum_probs=78.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+|+++|..|+|||||+..+...... .. .....+.......+.. ++  ..+.+|||+|...           +....
T Consensus         7 ~KivviG~~~vGKTsll~~~~~~~~~-~~-~~~t~~~~~~~~~i~~-~~~~~~l~iwDt~G~~~-----------~~~l~   72 (189)
T cd04121           7 LKFLLVGDSDVGKGEILASLQDGSTE-SP-YGYNMGIDYKTTTILL-DGRRVKLQLWDTSGQGR-----------FCTIF   72 (189)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCC-CC-CCCcceeEEEEEEEEE-CCEEEEEEEEeCCCcHH-----------HHHHH
Confidence            78999999999999999999875421 11 1111222222223333 33  4678999999875           33444


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      ...+..+|++++|+|.+++.+... ..|++.+.+.. .  ..|+++|.||.|+..
T Consensus        73 ~~~~~~ad~illVfD~t~~~Sf~~~~~w~~~i~~~~-~--~~piilVGNK~DL~~  124 (189)
T cd04121          73 RSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHA-P--GVPKILVGNRLHLAF  124 (189)
T ss_pred             HHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-C--CCCEEEEEECccchh
Confidence            456788999999999986555544 56777775543 2  369999999999864

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

>PLN03108 Rab family protein; Provisional

Probab=99.65  E-value=5.1e-15  Score=106.18  Aligned_cols=117  Identities=15%  Similarity=0.139  Sum_probs=73.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+|+++|++|+|||||++.+++...........+  .......... .+  ..+.+|||||...           +....
T Consensus         7 ~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~--~~~~~~~i~~-~~~~i~l~l~Dt~G~~~-----------~~~~~   72 (210)
T PLN03108          7 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIG--VEFGARMITI-DNKPIKLQIWDTAGQES-----------FRSIT   72 (210)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCcc--ceEEEEEEEE-CCEEEEEEEEeCCCcHH-----------HHHHH
Confidence            7899999999999999999998653222111111  1111112222 22  3578999999764           22333


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...+..+|++++|+|.++.-+... ..++..+......  ..|++++.||+|+...
T Consensus        73 ~~~~~~ad~~vlv~D~~~~~s~~~l~~~~~~~~~~~~~--~~piiiv~nK~Dl~~~  126 (210)
T PLN03108         73 RSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANA--NMTIMLIGNKCDLAHR  126 (210)
T ss_pred             HHHhccCCEEEEEEECCcHHHHHHHHHHHHHHHHhcCC--CCcEEEEEECccCccc
Confidence            445667899999999984332222 3455544443222  2689999999998654

>PLN03118 Rab family protein; Provisional

Probab=99.65  E-value=9.5e-15  Score=104.82  Aligned_cols=119  Identities=13%  Similarity=0.113  Sum_probs=73.1

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeC-CcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD-GQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      ..+|+++|++|+|||||++++++.... .  .....+.......+.... ...+.++||||...           +....
T Consensus        14 ~~kv~ivG~~~vGKTsli~~l~~~~~~-~--~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~-----------~~~~~   79 (211)
T PLN03118         14 SFKILLIGDSGVGKSSLLVSFISSSVE-D--LAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQER-----------FRTLT   79 (211)
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCCCC-C--cCCCceeEEEEEEEEECCEEEEEEEEECCCchh-----------hHHHH
Confidence            379999999999999999999986531 1  111111222222333311 24678999999876           22233


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHHH--HHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEEE--AALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~~--~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..++..+|++++|+|.++.-+....  .+...+... ......++++|.||+|+...
T Consensus        80 ~~~~~~~d~~vlv~D~~~~~sf~~~~~~~~~~~~~~-~~~~~~~~ilv~NK~Dl~~~  135 (211)
T PLN03118         80 SSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELY-STNQDCVKMLVGNKVDRESE  135 (211)
T ss_pred             HHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHh-cCCCCCCEEEEEECcccccc
Confidence            3456778999999999854333322  233333322 11122578999999998654

>cd04176 Rap2 Rap2 subgroup

Probab=99.65  E-value=3.9e-15  Score=102.42  Aligned_cols=116  Identities=19%  Similarity=0.196  Sum_probs=73.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcce-eeEEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTS-TCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~-~~~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      .+|+++|.+|+|||||++.++.........    .|. ......... ++  ..+.++||||.....           ..
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~----~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~~~-----------~~   65 (163)
T cd04176           2 YKVVVLGSGGVGKSALTVQFVSGTFIEKYD----PTIEDFYRKEIEV-DSSPSVLEILDTAGTEQFA-----------SM   65 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCC----CchhheEEEEEEE-CCEEEEEEEEECCCccccc-----------ch
Confidence            589999999999999999988765432211    111 111222222 22  357789999987632           22


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ....+.++|++++|+|.++.-+... ..+...+.+... ....|+++|.||+|+...
T Consensus        66 ~~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~piviv~nK~Dl~~~  121 (163)
T cd04176          66 RDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKG-YEKVPIILVGNKVDLESE  121 (163)
T ss_pred             HHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEECccchhc
Confidence            2234567899999999985433232 455555555422 123689999999998643

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

>PTZ00369 Ras-like protein; Provisional

Probab=99.64  E-value=5.7e-15  Score=104.25  Aligned_cols=119  Identities=22%  Similarity=0.185  Sum_probs=74.6

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      ..+++++|.+|+|||||++.+.+.........+.+.+.   ....... ....+.+|||||..+           +....
T Consensus         5 ~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~---~~~~~~~~~~~~l~i~Dt~G~~~-----------~~~l~   70 (189)
T PTZ00369          5 EYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSY---RKQCVIDEETCLLDILDTAGQEE-----------YSAMR   70 (189)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEE---EEEEEECCEEEEEEEEeCCCCcc-----------chhhH
Confidence            47999999999999999999997653222111111111   1122221 123567899999876           22233


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..++..+|++++|+|.+++-+... ..+.+.+.+.... ...|++++.||+|+...
T Consensus        71 ~~~~~~~d~iilv~D~s~~~s~~~~~~~~~~i~~~~~~-~~~piiiv~nK~Dl~~~  125 (189)
T PTZ00369         71 DQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDK-DRVPMILVGNKCDLDSE  125 (189)
T ss_pred             HHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCCEEEEEECcccccc
Confidence            345667899999999985433222 4555555554322 13589999999998543

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.64  E-value=1.9e-14  Score=98.90  Aligned_cols=121  Identities=19%  Similarity=0.236  Sum_probs=73.9

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHH---HHHH
Q 030630           23 VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIV---KCIG   99 (174)
Q Consensus        23 i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~---~~~~   99 (174)
                      |+++|++|+|||||+|.|++...........+.|.....  ..  ....+.++||||+....... .....+.   ....
T Consensus         2 i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~--~~--~~~~~~~~D~~g~~~~~~~~-~~~~~~~~~~~~~~   76 (170)
T cd01876           2 IAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINF--FN--VNDKFRLVDLPGYGYAKVSK-EVKEKWGKLIEEYL   76 (170)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEE--EE--ccCeEEEecCCCccccccCH-HHHHHHHHHHHHHH
Confidence            789999999999999999943322111122222332222  22  23488999999987643311 1111122   1122


Q ss_pred             hccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ......+.+++++|............++.+....     .|+++++||+|+..+
T Consensus        77 ~~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~~~~-----~~vi~v~nK~D~~~~  125 (170)
T cd01876          77 ENRENLKGVVLLIDSRHGPTEIDLEMLDWLEELG-----IPFLVVLTKADKLKK  125 (170)
T ss_pred             HhChhhhEEEEEEEcCcCCCHhHHHHHHHHHHcC-----CCEEEEEEchhcCCh
Confidence            2334568899999987555555566666655531     589999999999754

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.

>cd04175 Rap1 Rap1 subgroup

Probab=99.64  E-value=4.2e-15  Score=102.38  Aligned_cols=117  Identities=15%  Similarity=0.134  Sum_probs=72.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeE-EEEEEEeC-CcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCE-MQRTVLKD-GQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~-~~~~~~~~-~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+|+++|.+|+|||||+++++.......    ..+|.... ........ ...+.++||||...           +....
T Consensus         2 ~ki~~~G~~~~GKTsli~~~~~~~~~~~----~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~-----------~~~~~   66 (164)
T cd04175           2 YKLVVLGSGGVGKSALTVQFVQGIFVEK----YDPTIEDSYRKQVEVDGQQCMLEILDTAGTEQ-----------FTAMR   66 (164)
T ss_pred             cEEEEECCCCCCHHHHHHHHHhCCCCcc----cCCcchheEEEEEEECCEEEEEEEEECCCccc-----------chhHH
Confidence            5899999999999999999886542111    11122111 12233311 23567999999875           22333


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...+..+|++++|+|.++.-+... ..++..+..... ....|++++.||+|+...
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            345667799999999874433332 445555544322 123699999999999654

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

>cd04144 Ras2 Ras2 subfamily

Probab=99.64  E-value=4.5e-15  Score=104.85  Aligned_cols=116  Identities=21%  Similarity=0.209  Sum_probs=73.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeE-EEEEEEeCCc--EEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCE-MQRTVLKDGQ--VVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~--~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      +|+++|.+|+|||||++.++..... ..   ...|.... ...... .+.  .+.+|||||..+           +....
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~-~~---~~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~-----------~~~~~   64 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFV-ET---YDPTIEDSYRKQVVV-DGQPCMLEVLDTAGQEE-----------YTALR   64 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCC-cc---CCCchHhhEEEEEEE-CCEEEEEEEEECCCchh-----------hHHHH
Confidence            4799999999999999999865431 11   11111111 112222 333  478899999765           22333


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhh-hhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGK-KIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~-~~~~~~~iv~tk~D~~~~  153 (174)
                      ...+..+|++++|+|.++..+... ..+++.+...... ....|+++|.||+|+...
T Consensus        65 ~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~  121 (190)
T cd04144          65 DQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYE  121 (190)
T ss_pred             HHHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhcccc
Confidence            345677899999999985443333 4566666554321 123689999999998643

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.

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

Probab=99.64  E-value=2e-15  Score=107.74  Aligned_cols=115  Identities=14%  Similarity=0.154  Sum_probs=71.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEE---eCCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL---KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      .|+++|++|||||||++.|.+....... .    +..........   .++..+.++||||..+           ++..+
T Consensus         2 ~vll~G~~~sGKTsL~~~l~~~~~~~t~-~----s~~~~~~~~~~~~~~~~~~~~l~D~pG~~~-----------~~~~~   65 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKLTTGKYRSTV-T----SIEPNVATFILNSEGKGKKFRLVDVPGHPK-----------LRDKL   65 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCcc-C----cEeecceEEEeecCCCCceEEEEECCCCHH-----------HHHHH
Confidence            6899999999999999999987532221 1    11112222211   1356789999999885           33333


Q ss_pred             HhccCCc-eEEEEEEeCCCCCCHHHHHHHHHHHHHHh----hhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGI-HAVLVVFSVRSRFSQEEEAALHSLQTLFG----KKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~-~~il~v~~~~~~~~~~~~~~l~~l~~~~~----~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...+..+ ++++||+|+.+.. .......+++...+.    .....|++++.||+|+...
T Consensus        66 ~~~~~~~~~~vV~VvD~~~~~-~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~a  124 (203)
T cd04105          66 LETLKNSAKGIVFVVDSATFQ-KNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFTA  124 (203)
T ss_pred             HHHHhccCCEEEEEEECccch-hHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhccc
Confidence            3344555 9999999998432 222222233322221    1123699999999998764

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

>cd04118 Rab24 Rab24 subfamily

Probab=99.64  E-value=4.2e-15  Score=105.09  Aligned_cols=113  Identities=20%  Similarity=0.200  Sum_probs=72.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEE--EEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM--QRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~--~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      +|+++|++|+|||||++++++.... .+.  ...|....+  ..... .+  ..+.+|||||...           +...
T Consensus         2 ki~vvG~~~vGKSsLi~~~~~~~~~-~~~--~~~t~~~~~~~~~~~~-~~~~~~l~i~D~~G~~~-----------~~~~   66 (193)
T cd04118           2 KVVMLGKESVGKTSLVERYVHHRFL-VGP--YQNTIGAAFVAKRMVV-GERVVTLGIWDTAGSER-----------YEAM   66 (193)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCcC-CcC--cccceeeEEEEEEEEE-CCEEEEEEEEECCCchh-----------hhhh
Confidence            7899999999999999999986532 111  112222211  12222 23  3467999999765           2222


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      ....+.++|++++|+|.++.-+... ..+++.+....   ...|+++|.||+|+..
T Consensus        67 ~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~---~~~piilv~nK~Dl~~  119 (193)
T cd04118          67 SRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQNLE---EHCKIYLCGTKSDLIE  119 (193)
T ss_pred             hHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHhcC---CCCCEEEEEEcccccc
Confidence            3345678899999999984422222 35565555431   1368999999999864

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

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.64  E-value=8.7e-15  Score=102.95  Aligned_cols=115  Identities=14%  Similarity=0.076  Sum_probs=73.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEE-EEEEe--CCcEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ-RTVLK--DGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~-~~~~~--~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      .+|+++|++|+|||||++.+++......    ...|...... .+...  ....+.+|||||..+           +...
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~~~----~~~t~~~~~~~~i~~~~~~~~~l~i~Dt~G~~~-----------~~~~   65 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFPEE----YVPTVFENYVTNIQGPNGKIIELALWDTAGQEE-----------YDRL   65 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCC----CCCeeeeeeEEEEEecCCcEEEEEEEECCCchh-----------HHHH
Confidence            3789999999999999999998764322    1122222211 22221  123578999999764           2333


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHH--HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~--~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ....+.++|++++|+|.+++.+...  ..|+..+... ..  ..|+++|.||.|+...
T Consensus        66 ~~~~~~~ad~ii~v~d~~~~~s~~~~~~~~~~~~~~~-~~--~~piilv~nK~Dl~~~  120 (187)
T cd04132          66 RPLSYPDVDVLLICYAVDNPTSLDNVEDKWFPEVNHF-CP--GTPIMLVGLKTDLRKD  120 (187)
T ss_pred             HHHhCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh-CC--CCCEEEEEeChhhhhC
Confidence            3445788999999999985443333  2344444432 12  2599999999998653

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.

>PLN03127 Elongation factor Tu; Provisional

Probab=99.64  E-value=5.8e-15  Score=116.32  Aligned_cols=118  Identities=16%  Similarity=0.144  Sum_probs=83.1

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCccc--------------ccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCC
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAF--------------KSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   84 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~--------------~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~   84 (174)
                      +..+|+++|+.++|||||+++|++....              ...+...+.|.......+.+ ++..+.++||||+.+  
T Consensus        60 ~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~-~~~~i~~iDtPGh~~--  136 (447)
T PLN03127         60 PHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEYET-AKRHYAHVDCPGHAD--  136 (447)
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEEEEcC-CCeEEEEEECCCccc--
Confidence            3478999999999999999999743100              00112245566665555554 556889999999875  


Q ss_pred             CChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCc-EEEEEeCcCCCCC
Q 030630           85 AGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDY-MIVVFTGGDELED  153 (174)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~-~~iv~tk~D~~~~  153 (174)
                               +..........+|++++|+|+.++....+.+.+..+....     .| +++++||+|+...
T Consensus       137 ---------f~~~~~~g~~~aD~allVVda~~g~~~qt~e~l~~~~~~g-----ip~iIvviNKiDlv~~  192 (447)
T PLN03127        137 ---------YVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQVG-----VPSLVVFLNKVDVVDD  192 (447)
T ss_pred             ---------hHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHHcC-----CCeEEEEEEeeccCCH
Confidence                     2222223344689999999998788888888887766542     35 5788999999853

>cd04126 Rab20 Rab20 subfamily

Probab=99.63  E-value=1.2e-14  Score=104.79  Aligned_cols=112  Identities=24%  Similarity=0.179  Sum_probs=74.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhc
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  101 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~  101 (174)
                      +|+++|.+|+|||||++.+++......     ..|....+....+ ....+.+|||||....           .......
T Consensus         2 KIvivG~~~vGKTSLi~r~~~~~f~~~-----~~Tig~~~~~~~~-~~~~l~iwDt~G~e~~-----------~~l~~~~   64 (220)
T cd04126           2 KVVLLGDMNVGKTSLLHRYMERRFKDT-----VSTVGGAFYLKQW-GPYNISIWDTAGREQF-----------HGLGSMY   64 (220)
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCCCCC-----CCccceEEEEEEe-eEEEEEEEeCCCcccc-----------hhhHHHH
Confidence            689999999999999999998764211     1233222332333 4456899999998762           2222335


Q ss_pred             cCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630          102 KDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus       102 ~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      +..+|++++|+|.+++-+... ..++..+.+.....  .|+++|.||+|+..
T Consensus        65 ~~~ad~~IlV~Dvt~~~Sf~~l~~~~~~l~~~~~~~--~piIlVgNK~DL~~  114 (220)
T cd04126          65 CRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANED--CLFAVVGNKLDLTE  114 (220)
T ss_pred             hccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCCC--CcEEEEEECccccc
Confidence            678899999999986544444 23444444432222  58999999999865

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

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.63  E-value=3.4e-15  Score=107.55  Aligned_cols=115  Identities=20%  Similarity=0.295  Sum_probs=77.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCccccc----c----------cCCCCcceeeEEEEEEEe---------CCcEEEEEeC
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKS----R----------ASSSGVTSTCEMQRTVLK---------DGQVVNVIDT   77 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~----~----------~~~~~~t~~~~~~~~~~~---------~~~~~~~iDt   77 (174)
                      +.|+++|+.++|||||+.+|+.......    +          +...+.|.........+.         ++..+.++||
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            4789999999999999999975431100    0          111233433333333342         1457889999


Q ss_pred             CCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCC
Q 030630           78 PGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  151 (174)
Q Consensus        78 pG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~  151 (174)
                      ||..+           +......++..+|++++|+|+.++....++..++.....   .  .|+++++||+|+.
T Consensus        81 PG~~~-----------f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~l~~~~~~---~--~p~ilviNKiD~~  138 (222)
T cd01885          81 PGHVD-----------FSSEVTAALRLCDGALVVVDAVEGVCVQTETVLRQALKE---R--VKPVLVINKIDRL  138 (222)
T ss_pred             CCccc-----------cHHHHHHHHHhcCeeEEEEECCCCCCHHHHHHHHHHHHc---C--CCEEEEEECCCcc
Confidence            99987           333334455667999999999888877777666554432   2  5899999999986

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

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.63  E-value=1e-14  Score=121.25  Aligned_cols=123  Identities=20%  Similarity=0.188  Sum_probs=81.5

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCCh--HHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGS--EFVGKEIVKC   97 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~--~~~~~~~~~~   97 (174)
                      ..+|+++|.+|+|||||+|+|+|.... .+ ...+.|.+.......+ ++..+.++||||..+.....  ....+.+.+.
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~~-vg-n~pGvTve~k~g~~~~-~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~   79 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTGARQR-VG-NWAGVTVERKEGQFST-TDHQVTLVDLPGTYSLTTISSQTSLDEQIACH   79 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCc-cC-CCCCceEeeEEEEEEc-CceEEEEEECCCccccccccccccHHHHHHHH
Confidence            468999999999999999999997642 33 3355666655555555 67789999999998754311  1112222211


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                       ......+|++++|+|++ .+... ..+...+.+.     ..|+++++||+|+.+.
T Consensus        80 -~l~~~~aD~vI~VvDat-~ler~-l~l~~ql~e~-----giPvIvVlNK~Dl~~~  127 (772)
T PRK09554         80 -YILSGDADLLINVVDAS-NLERN-LYLTLQLLEL-----GIPCIVALNMLDIAEK  127 (772)
T ss_pred             -HHhccCCCEEEEEecCC-cchhh-HHHHHHHHHc-----CCCEEEEEEchhhhhc
Confidence             11346789999999998 43332 2233333332     2699999999998754

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.63  E-value=5.7e-15  Score=121.52  Aligned_cols=118  Identities=15%  Similarity=0.222  Sum_probs=81.5

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe---CCcEEEEEeCCCCCCCCCChHHHHHHHH
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK---DGQVVNVIDTPGLFDFSAGSEFVGKEIV   95 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~---~~~~~~~iDtpG~~~~~~~~~~~~~~~~   95 (174)
                      +.++|+++|+.++|||||+++|++......  ...+.|.........+.   .+..+.+|||||+..           +.
T Consensus       243 r~p~V~IvGhvdvGKTSLld~L~~~~~~~~--e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~-----------F~  309 (742)
T CHL00189        243 RPPIVTILGHVDHGKTTLLDKIRKTQIAQK--EAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEA-----------FS  309 (742)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhccCccc--cCCccccccceEEEEEEecCCceEEEEEECCcHHH-----------HH
Confidence            447999999999999999999987654322  12233333333333332   246899999999864           33


Q ss_pred             HHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630           96 KCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        96 ~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      ..+...+..+|++++|++++++....+.+.+..+...   .  .|+++++||+|+...+
T Consensus       310 ~mr~rg~~~aDiaILVVDA~dGv~~QT~E~I~~~k~~---~--iPiIVViNKiDl~~~~  363 (742)
T CHL00189        310 SMRSRGANVTDIAILIIAADDGVKPQTIEAINYIQAA---N--VPIIVAINKIDKANAN  363 (742)
T ss_pred             HHHHHHHHHCCEEEEEEECcCCCChhhHHHHHHHHhc---C--ceEEEEEECCCccccC
Confidence            3333455677999999999877777777666554332   2  5899999999997653

>cd04116 Rab9 Rab9 subfamily

Probab=99.63  E-value=8.2e-15  Score=101.48  Aligned_cols=120  Identities=16%  Similarity=0.039  Sum_probs=73.8

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      ..+|+++|++|+|||||++.+++.......  ....+........... ....+.++||||...           +....
T Consensus         5 ~~ki~vvG~~~~GKTsli~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~-----------~~~~~   71 (170)
T cd04116           5 LLKVILLGDGGVGKSSLMNRYVTNKFDTQL--FHTIGVEFLNKDLEVDGHFVTLQIWDTAGQER-----------FRSLR   71 (170)
T ss_pred             EEEEEEECCCCCCHHHHHHHHHcCCCCcCc--CCceeeEEEEEEEEECCeEEEEEEEeCCChHH-----------HHHhH
Confidence            478999999999999999999876532221  1111111111222231 123568899999654           33334


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhh--hhcCcEEEEEeCcCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGK--KIFDYMIVVFTGGDELE  152 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~--~~~~~~~iv~tk~D~~~  152 (174)
                      ...+..+|++++|++.+++-+... ..+...+......  ....|++++.||+|+..
T Consensus        72 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  128 (170)
T cd04116          72 TPFYRGSDCCLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIPE  128 (170)
T ss_pred             HHHhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECccccc
Confidence            445678899999999884432222 3444444443221  11258999999999864

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

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.63  E-value=9.5e-15  Score=118.58  Aligned_cols=116  Identities=22%  Similarity=0.284  Sum_probs=84.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccc-cccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFK-SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~-~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      +|+++|+.++|||||+++|++...-. ......+.|....+..+.+ .+..+.+||+||..+           +.+.+..
T Consensus         2 ~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~-~~~~v~~iDtPGhe~-----------f~~~~~~   69 (581)
T TIGR00475         2 IIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPL-PDYRLGFIDVPGHEK-----------FISNAIA   69 (581)
T ss_pred             EEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEe-CCEEEEEEECCCHHH-----------HHHHHHh
Confidence            68999999999999999999854110 1122345666666666666 557899999999754           4444445


Q ss_pred             ccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .+..+|++++|+|++++....+.+.+..+... +.   +++++|+||+|+.+.
T Consensus        70 g~~~aD~aILVVDa~~G~~~qT~ehl~il~~l-gi---~~iIVVlNK~Dlv~~  118 (581)
T TIGR00475        70 GGGGIDAALLVVDADEGVMTQTGEHLAVLDLL-GI---PHTIVVITKADRVNE  118 (581)
T ss_pred             hhccCCEEEEEEECCCCCcHHHHHHHHHHHHc-CC---CeEEEEEECCCCCCH
Confidence            66788999999999877777887777665443 21   249999999999865

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.

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.63  E-value=9.7e-15  Score=118.49  Aligned_cols=116  Identities=19%  Similarity=0.270  Sum_probs=85.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcc-c-ccc------------cCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCC
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRA-F-KSR------------ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAG   86 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~-~-~~~------------~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~   86 (174)
                      +.|+++|+.++|||||+++|+.... + ..+            ....+.|.......+.| ++..+.+|||||+.+    
T Consensus         2 RNIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~-~~~kinlIDTPGh~D----   76 (594)
T TIGR01394         2 RNIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRY-NGTKINIVDTPGHAD----   76 (594)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEE-CCEEEEEEECCCHHH----
Confidence            5799999999999999999985321 1 111            11235677777777788 788999999999876    


Q ss_pred             hHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           87 SEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                             +...+...+..+|++++|+|+.++....++.++..+...   .  .|.++++||+|+...
T Consensus        77 -------F~~ev~~~l~~aD~alLVVDa~~G~~~qT~~~l~~a~~~---~--ip~IVviNKiD~~~a  131 (594)
T TIGR01394        77 -------FGGEVERVLGMVDGVLLLVDASEGPMPQTRFVLKKALEL---G--LKPIVVINKIDRPSA  131 (594)
T ss_pred             -------HHHHHHHHHHhCCEEEEEEeCCCCCcHHHHHHHHHHHHC---C--CCEEEEEECCCCCCc
Confidence                   222233344566999999999877777777777666553   2  578999999998654

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.

>PRK12735 elongation factor Tu; Reviewed

Probab=99.63  E-value=7.2e-15  Score=114.59  Aligned_cols=118  Identities=17%  Similarity=0.194  Sum_probs=81.5

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCccc--------------ccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCC
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAF--------------KSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   84 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~--------------~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~   84 (174)
                      +..+++++|+.++|||||+++|++....              ...+...+.|.......+.+ ++..+.++||||+.+  
T Consensus        11 ~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~~~~~-~~~~i~~iDtPGh~~--   87 (396)
T PRK12735         11 PHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEYET-ANRHYAHVDCPGHAD--   87 (396)
T ss_pred             CeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeeeEEcC-CCcEEEEEECCCHHH--
Confidence            4488999999999999999999862110              01112345565554444444 566789999999753  


Q ss_pred             CChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCc-EEEEEeCcCCCCC
Q 030630           85 AGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDY-MIVVFTGGDELED  153 (174)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~-~~iv~tk~D~~~~  153 (174)
                               +.......+..+|++++|+|+.++....+.+.+..+... +    .| +++++||+|+...
T Consensus        88 ---------f~~~~~~~~~~aD~~llVvda~~g~~~qt~e~l~~~~~~-g----i~~iivvvNK~Dl~~~  143 (396)
T PRK12735         88 ---------YVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQV-G----VPYIVVFLNKCDMVDD  143 (396)
T ss_pred             ---------HHHHHHhhhccCCEEEEEEECCCCCchhHHHHHHHHHHc-C----CCeEEEEEEecCCcch
Confidence                     334444556688999999999877777777777665543 2    35 4568999999753

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.63  E-value=2e-14  Score=100.00  Aligned_cols=116  Identities=17%  Similarity=0.149  Sum_probs=76.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEE-EEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM-QRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      .+|+++|..|+|||||++.+.+.......    .+|..... ..... ++  ..+.++||||..+           +...
T Consensus         3 ~ki~vvG~~~vGKTsL~~~~~~~~f~~~~----~~t~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~-----------~~~l   66 (172)
T cd04141           3 YKIVMLGAGGVGKSAVTMQFISHSFPDYH----DPTIEDAYKQQARI-DNEPALLDILDTAGQAE-----------FTAM   66 (172)
T ss_pred             eEEEEECCCCCcHHHHHHHHHhCCCCCCc----CCcccceEEEEEEE-CCEEEEEEEEeCCCchh-----------hHHH
Confidence            68999999999999999998876532211    11211111 12222 23  4578999999875           3334


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...++..+|++++|+|.+++.+... ..+.+.+.+... ....|+++|.||+|+...
T Consensus        67 ~~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~~-~~~~piilvgNK~Dl~~~  122 (172)
T cd04141          67 RDQYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVRL-TEDIPLVLVGNKVDLESQ  122 (172)
T ss_pred             hHHHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhcC-CCCCCEEEEEEChhhhhc
Confidence            4445677899999999986655555 345555555422 223699999999998643

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

>PRK12736 elongation factor Tu; Reviewed

Probab=99.63  E-value=2.5e-15  Score=117.06  Aligned_cols=118  Identities=15%  Similarity=0.194  Sum_probs=82.7

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccc--------------cccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCC
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFK--------------SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   84 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~--------------~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~   84 (174)
                      +..+++++|+.++|||||+++|++.....              ..+...+.|.......+.. ++..+.++||||+.+  
T Consensus        11 ~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~~~-~~~~i~~iDtPGh~~--   87 (394)
T PRK12736         11 PHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYET-EKRHYAHVDCPGHAD--   87 (394)
T ss_pred             CeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEecC-CCcEEEEEECCCHHH--
Confidence            34889999999999999999998742110              1112345566554444433 566889999999753  


Q ss_pred             CChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCc-EEEEEeCcCCCCC
Q 030630           85 AGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDY-MIVVFTGGDELED  153 (174)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~-~~iv~tk~D~~~~  153 (174)
                               +..........+|++++|+|+.++....+.+.+..+... +    .| +++++||+|+...
T Consensus        88 ---------f~~~~~~~~~~~d~~llVvd~~~g~~~~t~~~~~~~~~~-g----~~~~IvviNK~D~~~~  143 (394)
T PRK12736         88 ---------YVKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQV-G----VPYLVVFLNKVDLVDD  143 (394)
T ss_pred             ---------HHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHHc-C----CCEEEEEEEecCCcch
Confidence                     223333344677999999999878888888888776654 2    34 6789999999754

>cd04177 RSR1 RSR1 subgroup

Probab=99.63  E-value=1.1e-14  Score=100.74  Aligned_cols=117  Identities=21%  Similarity=0.172  Sum_probs=73.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeE-EEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCE-MQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~-~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+++++|.+|+|||||++++.+.......    ..|.... .....+. ....+.+|||||..+.           ....
T Consensus         2 ~ki~liG~~~~GKTsli~~~~~~~~~~~~----~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~-----------~~~~   66 (168)
T cd04177           2 YKIVVLGAGGVGKSALTVQFVQNVFIESY----DPTIEDSYRKQVEIDGRQCDLEILDTAGTEQF-----------TAMR   66 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCccc----CCcchheEEEEEEECCEEEEEEEEeCCCcccc-----------hhhh
Confidence            57999999999999999999876532221    1111111 1222221 1246789999998763           2233


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...+..++++++|++.+++-+... ..+.+.+.+.... ...|++++.||.|+...
T Consensus        67 ~~~~~~~~~~vlv~~~~~~~s~~~~~~~~~~i~~~~~~-~~~piiiv~nK~D~~~~  121 (168)
T cd04177          67 ELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDS-DNVPMVLVGNKADLEDD  121 (168)
T ss_pred             HHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCC-CCCCEEEEEEChhcccc
Confidence            334566799999999885433332 4455555543322 23689999999998654

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

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.62  E-value=1e-14  Score=114.80  Aligned_cols=119  Identities=20%  Similarity=0.261  Sum_probs=82.8

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCccccc--------------c---------------cCCCCcceeeEEEEEEEeCC
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKS--------------R---------------ASSSGVTSTCEMQRTVLKDG   69 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~--------------~---------------~~~~~~t~~~~~~~~~~~~~   69 (174)
                      +..+++++|+.++|||||++.|+.....-.              |               +...+.|.......+.+ ++
T Consensus         5 ~~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~-~~   83 (425)
T PRK12317          5 PHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFET-DK   83 (425)
T ss_pred             CEEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEec-CC
Confidence            348899999999999999999984321100              1               11346677776666666 67


Q ss_pred             cEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCC--CCCHHHHHHHHHHHHHHhhhhcCcEEEEEeC
Q 030630           70 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRS--RFSQEEEAALHSLQTLFGKKIFDYMIVVFTG  147 (174)
Q Consensus        70 ~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~--~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk  147 (174)
                      ..+.++||||+.+.           .+.....+..+|++++|+|+++  .+...+...+..+... +.   +++++++||
T Consensus        84 ~~i~liDtpG~~~~-----------~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~-~~---~~iivviNK  148 (425)
T PRK12317         84 YYFTIVDCPGHRDF-----------VKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTL-GI---NQLIVAINK  148 (425)
T ss_pred             eEEEEEECCCcccc-----------hhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHc-CC---CeEEEEEEc
Confidence            88999999997652           2222233567899999999987  5656666666554432 21   468999999


Q ss_pred             cCCCCC
Q 030630          148 GDELED  153 (174)
Q Consensus       148 ~D~~~~  153 (174)
                      +|+...
T Consensus       149 ~Dl~~~  154 (425)
T PRK12317        149 MDAVNY  154 (425)
T ss_pred             cccccc
Confidence            999753

>cd00157 Rho Rho (Ras homology) family

Probab=99.62  E-value=6.3e-15  Score=101.96  Aligned_cols=117  Identities=18%  Similarity=0.114  Sum_probs=73.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEE-eCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .+|+++|++|+|||||++++++...........   .......... .....+.++||||.....           ....
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~l~~~D~~g~~~~~-----------~~~~   66 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYVPTV---FDNYSATVTVDGKQVNLGLWDTAGQEEYD-----------RLRP   66 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCce---eeeeEEEEEECCEEEEEEEEeCCCccccc-----------ccch
Confidence            378999999999999999999876422211111   1111111111 123468899999988631           1112


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH--HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~--~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      ..+..+|++++|+|.+++-+...  ..++..+.....   ..|+++|+||+|+....
T Consensus        67 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~p~ivv~nK~Dl~~~~  120 (171)
T cd00157          67 LSYPNTDVFLICFSVDSPSSFENVKTKWIPEIRHYCP---NVPIILVGTKIDLRDDE  120 (171)
T ss_pred             hhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCC---CCCEEEEEccHHhhhch
Confidence            24467899999999984333222  345555554432   36999999999987663

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

>cd00876 Ras Ras family

Probab=99.62  E-value=8.9e-15  Score=99.96  Aligned_cols=116  Identities=18%  Similarity=0.168  Sum_probs=72.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeC--CcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      +|+++|++|+|||||++++++.... .....  .+.......... .  ...+.++|+||...           +.....
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~~~-~~~~~--~~~~~~~~~~~~-~~~~~~~~l~D~~g~~~-----------~~~~~~   65 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGTFV-EEYDP--TIEDSYRKTIVV-DGETYTLDILDTAGQEE-----------FSAMRD   65 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCC-cCcCC--ChhHeEEEEEEE-CCEEEEEEEEECCChHH-----------HHHHHH
Confidence            4899999999999999999986532 22111  111112222222 2  24578999999765           222333


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .....+|++++|+|.++.-+... ..+...+.+.... ...|+++++||+|+...
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            34566799999999874322222 4444445544321 23699999999999763

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

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=99.62  E-value=1.6e-14  Score=107.41  Aligned_cols=128  Identities=20%  Similarity=0.269  Sum_probs=76.9

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccC------CCCcceeeEEEEEEEe-C--CcEEEEEeCCCCCCCCCChHH-
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRAS------SSGVTSTCEMQRTVLK-D--GQVVNVIDTPGLFDFSAGSEF-   89 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~------~~~~t~~~~~~~~~~~-~--~~~~~~iDtpG~~~~~~~~~~-   89 (174)
                      ..+++++|.+|+|||||||+|++.........      ....+........... .  ...+.++||||+.+....... 
T Consensus         4 ~fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpGfGd~i~n~~~~   83 (281)
T PF00735_consen    4 NFNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPGFGDNIDNSDCW   83 (281)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-CSSSSTHCHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCCccccccchhhh
Confidence            47899999999999999999999765433210      1111222222222221 2  236899999999975433211 


Q ss_pred             ------HHHHHHHHHHh---------ccCCceEEEEEEeCC-CCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           90 ------VGKEIVKCIGM---------AKDGIHAVLVVFSVR-SRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        90 ------~~~~~~~~~~~---------~~~~~~~il~v~~~~-~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                            +..++...+..         .-.++|++||+++++ .++.+.+.+.++.|.+..      ++|-|+.|+|.+.+
T Consensus        84 ~~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~~L~~~Di~~mk~Ls~~v------NvIPvIaKaD~lt~  157 (281)
T PF00735_consen   84 EPIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGHGLKPLDIEFMKRLSKRV------NVIPVIAKADTLTP  157 (281)
T ss_dssp             HHHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSSSS-HHHHHHHHHHTTTS------EEEEEESTGGGS-H
T ss_pred             HHHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCccchHHHHHHHHHhcccc------cEEeEEecccccCH
Confidence                  12222222211         134689999999985 468899999988888764      89999999999986

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.

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.62  E-value=1e-14  Score=102.35  Aligned_cols=116  Identities=16%  Similarity=0.061  Sum_probs=78.4

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEE-EEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHH
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM-QRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVK   96 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~   96 (174)
                      ...+|+++|..|+|||||++.++........    .+|..... ...... ....+.+|||+|...           +..
T Consensus         4 ~~~KivvvGd~~vGKTsli~~~~~~~f~~~~----~pT~~~~~~~~~~~~~~~~~l~iwDtaG~e~-----------~~~   68 (182)
T cd04172           4 VKCKIVVVGDSQCGKTALLHVFAKDCFPENY----VPTVFENYTASFEIDTQRIELSLWDTSGSPY-----------YDN   68 (182)
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCCCCCcc----CCceeeeeEEEEEECCEEEEEEEEECCCchh-----------hHh
Confidence            3478999999999999999999876532221    12221111 122221 124689999999765           333


Q ss_pred             HHHhccCCceEEEEEEeCCCCCCHHH--HHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630           97 CIGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus        97 ~~~~~~~~~~~il~v~~~~~~~~~~~--~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      ....++.++|++++|+|.+++-+...  ..|++.+.+.. .  ..|+++|.||.|+..
T Consensus        69 ~~~~~~~~ad~~ilvyDit~~~Sf~~~~~~w~~~i~~~~-~--~~piilVgNK~DL~~  123 (182)
T cd04172          69 VRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-P--NTKMLLVGCKSDLRT  123 (182)
T ss_pred             hhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHC-C--CCCEEEEeEChhhhc
Confidence            34456789999999999986544444  46777776653 2  269999999999854

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

>cd04131 Rnd Rnd subfamily

Probab=99.62  E-value=7.5e-15  Score=102.72  Aligned_cols=114  Identities=15%  Similarity=0.047  Sum_probs=76.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEE-EEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM-QRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+|+++|.+|+|||||++.+.+......    ..+|..... ..+... ....+.+|||+|...           +....
T Consensus         2 ~Kiv~vG~~~vGKTsli~~~~~~~f~~~----~~~t~~~~~~~~~~~~~~~~~l~iwDt~G~~~-----------~~~~~   66 (178)
T cd04131           2 CKIVVVGDVQCGKTALLQVFAKDCYPET----YVPTVFENYTASFEIDEQRIELSLWDTSGSPY-----------YDNVR   66 (178)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCcCCCC----cCCceEEEEEEEEEECCEEEEEEEEECCCchh-----------hhhcc
Confidence            5799999999999999999998753222    112221111 122221 224578999999765           22233


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH--HHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~--~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      ...+..+|++++|+|.+++-+...  ..|++.+.+...   ..|+++|.||+|+..
T Consensus        67 ~~~~~~a~~~ilvfdit~~~Sf~~~~~~w~~~i~~~~~---~~~iilVgnK~DL~~  119 (178)
T cd04131          67 PLCYPDSDAVLICFDISRPETLDSVLKKWRGEIQEFCP---NTKVLLVGCKTDLRT  119 (178)
T ss_pred             hhhcCCCCEEEEEEECCChhhHHHHHHHHHHHHHHHCC---CCCEEEEEEChhhhc
Confidence            346788999999999986655554  467777776532   258999999999853

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.

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.62  E-value=1.5e-14  Score=103.01  Aligned_cols=117  Identities=17%  Similarity=0.183  Sum_probs=78.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeE--EEEEEEe------CCcEEEEEeCCCCCCCCCChHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCE--MQRTVLK------DGQVVNVIDTPGLFDFSAGSEFVGKE   93 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~--~~~~~~~------~~~~~~~iDtpG~~~~~~~~~~~~~~   93 (174)
                      +|+++|.+|+|||||++.+++......    ...|..+.  .....+.      ....+.+|||+|...           
T Consensus         2 KIvlvGd~gVGKTSLi~~~~~~~f~~~----~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~-----------   66 (202)
T cd04102           2 RVLVVGDSGVGKSSLVHLICKNQVLGR----PSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSES-----------   66 (202)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCCC----CCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchh-----------
Confidence            689999999999999999998764322    12222222  1222221      123578999999876           


Q ss_pred             HHHHHHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHh-----------------hhhcCcEEEEEeCcCCCCC
Q 030630           94 IVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFG-----------------KKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        94 ~~~~~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~-----------------~~~~~~~~iv~tk~D~~~~  153 (174)
                      +......++.++|++++|+|.+++-+... ..|++.+.+...                 .....|+++|.||.|+.+.
T Consensus        67 ~~~l~~~~yr~ad~iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~  144 (202)
T cd04102          67 VKSTRAVFYNQVNGIILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPE  144 (202)
T ss_pred             HHHHHHHHhCcCCEEEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhh
Confidence            44445557889999999999986544444 567766655321                 0112599999999998653

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.

>cd04128 Spg1 Spg1p

Probab=99.62  E-value=1e-14  Score=102.42  Aligned_cols=111  Identities=14%  Similarity=0.115  Sum_probs=73.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEE--EEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM--QRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~--~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      +++++|..|+|||||++.+++......    ..+|....+  ..+.. ++  ..+.+|||+|...           +...
T Consensus         2 Ki~vlG~~~vGKTsLi~~~~~~~f~~~----~~~T~g~~~~~~~i~~-~~~~~~l~iwDt~G~~~-----------~~~~   65 (182)
T cd04128           2 KIGLLGDAQIGKTSLMVKYVEGEFDED----YIQTLGVNFMEKTISI-RGTEITFSIWDLGGQRE-----------FINM   65 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCC----CCCccceEEEEEEEEE-CCEEEEEEEEeCCCchh-----------HHHh
Confidence            689999999999999999987653221    112222222  22333 33  4579999999875           3334


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDEL  151 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~  151 (174)
                      ...++..+|++++|+|.+++-+... ..|++.+.......  .| ++|.||+|+.
T Consensus        66 ~~~~~~~a~~iilv~D~t~~~s~~~i~~~~~~~~~~~~~~--~p-ilVgnK~Dl~  117 (182)
T cd04128          66 LPLVCNDAVAILFMFDLTRKSTLNSIKEWYRQARGFNKTA--IP-ILVGTKYDLF  117 (182)
T ss_pred             hHHHCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCCC--CE-EEEEEchhcc
Confidence            4456788999999999985544433 45666665542222  35 6889999985

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

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.62  E-value=2.4e-14  Score=106.43  Aligned_cols=145  Identities=21%  Similarity=0.171  Sum_probs=106.5

Q ss_pred             CCCCCcccccccCCCCCCceE----------------------EEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceee
Q 030630            2 MGGSAIDDDWELTSPSNGERT----------------------VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTC   59 (174)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~----------------------i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~   59 (174)
                      .|+.+-..|+.|.++.++.++                      |+++|-+++|||||++.++...+- . ......|...
T Consensus       119 kGG~GG~GN~~Fks~~nrAP~~a~~G~~Ge~r~v~LELKllADVGLVG~PNaGKSTlls~vS~AkPK-I-adYpFTTL~P  196 (369)
T COG0536         119 KGGRGGLGNAHFKSSVNRAPRFATPGEPGEERDLRLELKLLADVGLVGLPNAGKSTLLSAVSAAKPK-I-ADYPFTTLVP  196 (369)
T ss_pred             cCCCCCccchhhcCcccCCcccCCCCCCCceEEEEEEEeeecccccccCCCCcHHHHHHHHhhcCCc-c-cCCccccccC
Confidence            356666777777777766554                      899999999999999999987642 2 2334445544


Q ss_pred             EEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCC---HH-H-HHHHHHHHHHHh
Q 030630           60 EMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFS---QE-E-EAALHSLQTLFG  134 (174)
Q Consensus        60 ~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~---~~-~-~~~l~~l~~~~~  134 (174)
                      +.-.+....+..+.+-|.||+.++.....-+..++++.+.++    .+++.|+|.+ +.+   +. + ..+...|..+..
T Consensus       197 nLGvV~~~~~~sfv~ADIPGLIEGAs~G~GLG~~FLrHIERt----~vL~hviD~s-~~~~~dp~~~~~~i~~EL~~Y~~  271 (369)
T COG0536         197 NLGVVRVDGGESFVVADIPGLIEGASEGVGLGLRFLRHIERT----RVLLHVIDLS-PIDGRDPIEDYQTIRNELEKYSP  271 (369)
T ss_pred             cccEEEecCCCcEEEecCcccccccccCCCccHHHHHHHHhh----heeEEEEecC-cccCCCHHHHHHHHHHHHHHhhH
Confidence            544444435778999999999999888888899999998877    8999999987 333   22 2 455566666644


Q ss_pred             hhhcCcEEEEEeCcCCCCC
Q 030630          135 KKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       135 ~~~~~~~~iv~tk~D~~~~  153 (174)
                      .-..+|.+||.||+|...+
T Consensus       272 ~L~~K~~ivv~NKiD~~~~  290 (369)
T COG0536         272 KLAEKPRIVVLNKIDLPLD  290 (369)
T ss_pred             HhccCceEEEEeccCCCcC
Confidence            4455799999999996554

>cd04134 Rho3 Rho3 subfamily

Probab=99.61  E-value=7.5e-15  Score=103.63  Aligned_cols=115  Identities=19%  Similarity=0.120  Sum_probs=74.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEE-EEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM-QRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      ++|+++|++|+|||||++.+.+.......    .+|..... ...... ....+.++||||....           ....
T Consensus         1 ~kivivG~~~vGKTsli~~~~~~~~~~~~----~~t~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~-----------~~l~   65 (189)
T cd04134           1 RKVVVLGDGACGKTSLLNVFTRGYFPQVY----EPTVFENYVHDIFVDGLHIELSLWDTAGQEEF-----------DRLR   65 (189)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCcc----CCcceeeeEEEEEECCEEEEEEEEECCCChhc-----------cccc
Confidence            47899999999999999999987643221    12221111 112221 1246789999998652           2223


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH--HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~--~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...+..+|++++|++.+++-+...  ..|+..+....   ...|+++|.||+|+...
T Consensus        66 ~~~~~~a~~~ilv~dv~~~~sf~~~~~~~~~~i~~~~---~~~piilvgNK~Dl~~~  119 (189)
T cd04134          66 SLSYADTDVIMLCFSVDSPDSLENVESKWLGEIREHC---PGVKLVLVALKCDLREA  119 (189)
T ss_pred             cccccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC---CCCCEEEEEEChhhccC
Confidence            345678899999999985433333  34666666542   13699999999998754

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.

>PRK12739 elongation factor G; Reviewed

Probab=99.61  E-value=9.9e-15  Score=120.90  Aligned_cols=120  Identities=22%  Similarity=0.271  Sum_probs=87.1

Q ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCccc--ccc--------------cCCCCcceeeEEEEEEEeCCcEEEEEeCCCCC
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRRAF--KSR--------------ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF   81 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~~~--~~~--------------~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~   81 (174)
                      .+-++|+++|+.++|||||+++|+.....  ..+              ....+.|.........| ++..+.++||||+.
T Consensus         6 ~~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~-~~~~i~liDTPG~~   84 (691)
T PRK12739          6 EKTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFW-KGHRINIIDTPGHV   84 (691)
T ss_pred             cCeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEE-CCEEEEEEcCCCHH
Confidence            34578999999999999999999742110  000              11345677766777777 78899999999986


Q ss_pred             CCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630           82 DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      +       ...+    +..++..+|++++|+|+.++....++..+..+....     .|.++++||+|+...+
T Consensus        85 ~-------f~~e----~~~al~~~D~~ilVvDa~~g~~~qt~~i~~~~~~~~-----~p~iv~iNK~D~~~~~  141 (691)
T PRK12739         85 D-------FTIE----VERSLRVLDGAVAVFDAVSGVEPQSETVWRQADKYG-----VPRIVFVNKMDRIGAD  141 (691)
T ss_pred             H-------HHHH----HHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHcC-----CCEEEEEECCCCCCCC
Confidence            4       1223    333445569999999998888888887777665542     5889999999998653

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

Probab=99.61  E-value=1.1e-14  Score=99.99  Aligned_cols=125  Identities=14%  Similarity=0.141  Sum_probs=92.0

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEE--EEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQR--TVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVK   96 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~--~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~   96 (174)
                      ..+++++|..++||||||+..+-...-    .....|....+..  +.+. ...++.+|||+|+.+           ++.
T Consensus        22 ~~KlVflGdqsVGKTslItRf~yd~fd----~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQER-----------Frs   86 (221)
T KOG0094|consen   22 KYKLVFLGDQSVGKTSLITRFMYDKFD----NTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQER-----------FRS   86 (221)
T ss_pred             EEEEEEEccCccchHHHHHHHHHhhhc----ccccceeeeEEEEEEEEEcCcEEEEEEEecccHHH-----------Hhh
Confidence            478999999999999999998855422    1233343333332  2221 234679999999998           778


Q ss_pred             HHHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhHHH
Q 030630           97 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLED  160 (174)
Q Consensus        97 ~~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~  160 (174)
                      .+..+++++.++++|+|.++.-+.+. .+|++.+....+.+. ..+++|.||.|+.++.+...++
T Consensus        87 lipsY~Rds~vaviVyDit~~~Sfe~t~kWi~dv~~e~gs~~-viI~LVGnKtDL~dkrqvs~eE  150 (221)
T KOG0094|consen   87 LIPSYIRDSSVAVIVYDITDRNSFENTSKWIEDVRRERGSDD-VIIFLVGNKTDLSDKRQVSIEE  150 (221)
T ss_pred             hhhhhccCCeEEEEEEeccccchHHHHHHHHHHHHhccCCCc-eEEEEEcccccccchhhhhHHH
Confidence            88889999999999999987766665 789888888766541 3678999999999876544444

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.61  E-value=1.4e-14  Score=119.94  Aligned_cols=121  Identities=21%  Similarity=0.234  Sum_probs=86.3

Q ss_pred             CCCceEEEEEcCCCCCHHHHHHHHhCCcccc--cc--------------cCCCCcceeeEEEEEEEeCCcEEEEEeCCCC
Q 030630           17 SNGERTVVLVGRTGNGKSATGNSILGRRAFK--SR--------------ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   80 (174)
Q Consensus        17 ~~~~~~i~i~G~~g~GKStlin~l~~~~~~~--~~--------------~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~   80 (174)
                      ..+-++|+++|+.++|||||+|+|+......  .+              ....+.|.........| ++..+.++||||+
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            3445899999999999999999997422110  00              01235666666777777 7889999999999


Q ss_pred             CCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630           81 FDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      .++.       .+    +..++..+|++++|+|+.++....+...+..+....     .|+++++||+|+...+
T Consensus        86 ~~~~-------~~----~~~~l~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~-----~p~ivviNK~D~~~~~  143 (689)
T TIGR00484        86 VDFT-------VE----VERSLRVLDGAVAVLDAVGGVQPQSETVWRQANRYE-----VPRIAFVNKMDKTGAN  143 (689)
T ss_pred             cchh-------HH----HHHHHHHhCEEEEEEeCCCCCChhHHHHHHHHHHcC-----CCEEEEEECCCCCCCC
Confidence            8632       12    223445569999999998777777777766554432     5889999999998654

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.

>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=99.61  E-value=4.8e-14  Score=102.58  Aligned_cols=88  Identities=20%  Similarity=0.263  Sum_probs=59.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhc
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  101 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~  101 (174)
                      +++++|++|+|||||+|+|++.... .+ .....|.......+.+ ++..+.++||||+.+..........++    ...
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~-v~-~~~~tT~~~~~g~~~~-~~~~i~l~DtpG~~~~~~~~~~~~~~~----l~~   74 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSE-VA-AYEFTTLTCVPGVLEY-KGAKIQLLDLPGIIEGAADGKGRGRQV----IAV   74 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCcc-cc-CCCCccccceEEEEEE-CCeEEEEEECCCcccccccchhHHHHH----HHh
Confidence            6899999999999999999997632 22 1223343333334445 677899999999876432222222233    234


Q ss_pred             cCCceEEEEEEeCCC
Q 030630          102 KDGIHAVLVVFSVRS  116 (174)
Q Consensus       102 ~~~~~~il~v~~~~~  116 (174)
                      +..+|++++|+|+++
T Consensus        75 ~~~ad~il~V~D~t~   89 (233)
T cd01896          75 ARTADLILMVLDATK   89 (233)
T ss_pred             hccCCEEEEEecCCc
Confidence            667799999999863

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.

>PRK00049 elongation factor Tu; Reviewed

Probab=99.61  E-value=1.2e-14  Score=113.28  Aligned_cols=118  Identities=17%  Similarity=0.159  Sum_probs=83.6

Q ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCcccc--------------cccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCC
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRRAFK--------------SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   83 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~~~~--------------~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~   83 (174)
                      .+..+++++|+.++|||||+++|++.....              ..+...+.|.......+.+ ++..+.++||||+.+ 
T Consensus        10 ~~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~-~~~~i~~iDtPG~~~-   87 (396)
T PRK00049         10 KPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEYET-EKRHYAHVDCPGHAD-   87 (396)
T ss_pred             CCEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeeeEEEEcC-CCeEEEEEECCCHHH-
Confidence            345889999999999999999998732110              0111345555554444444 456789999999753 


Q ss_pred             CCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEE-EEEeCcCCCC
Q 030630           84 SAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMI-VVFTGGDELE  152 (174)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~-iv~tk~D~~~  152 (174)
                                +..........+|++++|+|+.++....+.+++..+....     .|.+ +++||+|+..
T Consensus        88 ----------f~~~~~~~~~~aD~~llVVDa~~g~~~qt~~~~~~~~~~g-----~p~iiVvvNK~D~~~  142 (396)
T PRK00049         88 ----------YVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQVG-----VPYIVVFLNKCDMVD  142 (396)
T ss_pred             ----------HHHHHHhhhccCCEEEEEEECCCCCchHHHHHHHHHHHcC-----CCEEEEEEeecCCcc
Confidence                      4444445567889999999998788888888887766542     4654 6899999975

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.61  E-value=6.2e-15  Score=101.68  Aligned_cols=118  Identities=19%  Similarity=0.231  Sum_probs=69.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      +|+++|++|+|||||+++++........ ........  ...... +.  ..+.+|||||.....  ..    ...    
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~~~~~-~~t~~~~~--~~~~~~-~~~~~~~~i~D~~g~~~~~--~~----~~~----   66 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRFIGEY-DPNLESLY--SRQVTI-DGEQVSLEILDTAGQQQAD--TE----QLE----   66 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCcccccc-CCChHHhc--eEEEEE-CCEEEEEEEEECCCCcccc--cc----hHH----
Confidence            4799999999999999998864421111 11111111  112222 22  357899999988410  00    011    


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..+..+|++++|+|.++.-+... ..++..+.+........|+++|.||+|+...
T Consensus        67 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~  121 (165)
T cd04146          67 RSIRWADGFVLVYSITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHY  121 (165)
T ss_pred             HHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHh
Confidence            23456799999999985433332 4455555554211223689999999998643

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.61  E-value=1.8e-14  Score=98.85  Aligned_cols=116  Identities=19%  Similarity=0.155  Sum_probs=71.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      +|+++|++|+|||||+++++...............   ........ ....+.++||||..+           +......
T Consensus         2 ki~~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~i~D~~g~~~-----------~~~~~~~   67 (164)
T cd04139           2 KVIVVGAGGVGKSALTLQFMYDEFVEDYEPTKADS---YRKKVVLDGEDVQLNILDTAGQED-----------YAAIRDN   67 (164)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCccccCCcchhh---EEEEEEECCEEEEEEEEECCChhh-----------hhHHHHH
Confidence            78999999999999999999765332111111111   11111221 234688999999775           2233344


Q ss_pred             ccCCceEEEEEEeCCCCCCHH-HHHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQE-EEAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~-~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      ....+|+++++++..++-+.. ...+...+..... ....|+++|+||+|+..
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            566779999999987432222 1344444444321 22369999999999976

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

>PRK00007 elongation factor G; Reviewed

Probab=99.61  E-value=1.4e-14  Score=120.03  Aligned_cols=121  Identities=19%  Similarity=0.236  Sum_probs=87.7

Q ss_pred             CCCceEEEEEcCCCCCHHHHHHHHhC---Ccccccc-------------cCCCCcceeeEEEEEEEeCCcEEEEEeCCCC
Q 030630           17 SNGERTVVLVGRTGNGKSATGNSILG---RRAFKSR-------------ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   80 (174)
Q Consensus        17 ~~~~~~i~i~G~~g~GKStlin~l~~---~~~~~~~-------------~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~   80 (174)
                      ..+-++|+++|+.++|||||+++|+.   .......             ....+.|.........| ++..+.++||||+
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            33458999999999999999999973   2111000             01335666666667777 7889999999998


Q ss_pred             CCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630           81 FDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      .++       ..++.+    +...+|++++|+|+.+++...+...+..+....     .|.++++||+|+...+
T Consensus        86 ~~f-------~~ev~~----al~~~D~~vlVvda~~g~~~qt~~~~~~~~~~~-----~p~iv~vNK~D~~~~~  143 (693)
T PRK00007         86 VDF-------TIEVER----SLRVLDGAVAVFDAVGGVEPQSETVWRQADKYK-----VPRIAFVNKMDRTGAD  143 (693)
T ss_pred             HHH-------HHHHHH----HHHHcCEEEEEEECCCCcchhhHHHHHHHHHcC-----CCEEEEEECCCCCCCC
Confidence            651       123333    344559999999998888888888887776653     5789999999998764

>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=1.3e-14  Score=101.24  Aligned_cols=117  Identities=13%  Similarity=0.115  Sum_probs=84.6

Q ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      .+..+|+++|+.||||||+++.|.......     ..+|...+...+.+ ++..+.++|.+|...           ++..
T Consensus        12 ~~~~~ililGl~~sGKTtll~~l~~~~~~~-----~~pT~g~~~~~i~~-~~~~~~~~d~gG~~~-----------~~~~   74 (175)
T PF00025_consen   12 KKEIKILILGLDGSGKTTLLNRLKNGEISE-----TIPTIGFNIEEIKY-KGYSLTIWDLGGQES-----------FRPL   74 (175)
T ss_dssp             TSEEEEEEEESTTSSHHHHHHHHHSSSEEE-----EEEESSEEEEEEEE-TTEEEEEEEESSSGG-----------GGGG
T ss_pred             CcEEEEEEECCCccchHHHHHHhhhccccc-----cCcccccccceeee-CcEEEEEEecccccc-----------cccc
Confidence            456899999999999999999998754322     33455555666666 788999999999765           5667


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhh--hcCcEEEEEeCcCCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELED  153 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~--~~~~~~iv~tk~D~~~~  153 (174)
                      ++..+..+|+++||+|.++.- . -.+..+.|.+.+...  ...|++|+.||.|....
T Consensus        75 w~~y~~~~~~iIfVvDssd~~-~-l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~  130 (175)
T PF00025_consen   75 WKSYFQNADGIIFVVDSSDPE-R-LQEAKEELKELLNDPELKDIPILILANKQDLPDA  130 (175)
T ss_dssp             GGGGHTTESEEEEEEETTGGG-G-HHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTTS
T ss_pred             ceeeccccceeEEEEecccce-e-ecccccchhhhcchhhcccceEEEEeccccccCc
Confidence            777888999999999998432 1 222333344444332  23699999999998764

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 ....

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=99.61  E-value=1.5e-14  Score=101.09  Aligned_cols=117  Identities=21%  Similarity=0.202  Sum_probs=71.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+|+++|++|+|||||++.+++........   +.+.......... ..  ..+.++||||..+           +....
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~---~t~~~~~~~~~~~-~~~~~~~~l~D~~g~~~-----------~~~~~   66 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFVESYY---PTIENTFSKIIRY-KGQDYHLEIVDTAGQDE-----------YSILP   66 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCccccC---cchhhhEEEEEEE-CCEEEEEEEEECCChHh-----------hHHHH
Confidence            689999999999999999999765321111   1111111122222 22  3468999999765           22333


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..++..+|++++++|.++...... ..+.+.+.+.... ...|+++++||+|+...
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            345567799999999985332222 3333444443221 22589999999998643

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

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.61  E-value=7.1e-15  Score=100.92  Aligned_cols=116  Identities=18%  Similarity=0.233  Sum_probs=70.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      ++|+++|++|+|||||+|.|.+.....      ..+.     ...+ ...  .+|||||.....   ....+.+.    .
T Consensus         2 ~~i~~iG~~~~GKstl~~~l~~~~~~~------~~~~-----~v~~-~~~--~~iDtpG~~~~~---~~~~~~~~----~   60 (158)
T PRK15467          2 KRIAFVGAVGAGKTTLFNALQGNYTLA------RKTQ-----AVEF-NDK--GDIDTPGEYFSH---PRWYHALI----T   60 (158)
T ss_pred             cEEEEECCCCCCHHHHHHHHcCCCccC------ccce-----EEEE-CCC--CcccCCccccCC---HHHHHHHH----H
Confidence            479999999999999999999864211      1111     1222 111  269999986532   12222222    2


Q ss_pred             ccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhHHHHhcc
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGR  164 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~  164 (174)
                      .+.++|++++|+|+++....... +   +... ..  ..|+++++||+|+...+...+.+++++
T Consensus        61 ~~~~ad~il~v~d~~~~~s~~~~-~---~~~~-~~--~~~ii~v~nK~Dl~~~~~~~~~~~~~~  117 (158)
T PRK15467         61 TLQDVDMLIYVHGANDPESRLPA-G---LLDI-GV--SKRQIAVISKTDMPDADVAATRKLLLE  117 (158)
T ss_pred             HHhcCCEEEEEEeCCCcccccCH-H---HHhc-cC--CCCeEEEEEccccCcccHHHHHHHHHH
Confidence            35678999999999854332222 2   1221 11  258999999999876544445555544

>cd04167 Snu114p Snu114p subfamily

Probab=99.60  E-value=1.1e-14  Score=104.62  Aligned_cols=115  Identities=20%  Similarity=0.291  Sum_probs=73.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCccccc-------c----------cCCCCcceeeEEEEEEEe----CCcEEEEEeCCC
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKS-------R----------ASSSGVTSTCEMQRTVLK----DGQVVNVIDTPG   79 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~-------~----------~~~~~~t~~~~~~~~~~~----~~~~~~~iDtpG   79 (174)
                      ++++++|+.|+|||||+++|+.......       +          ....+.+.........+.    ....+.++||||
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            4689999999999999999986432111       0          011122322223333331    235689999999


Q ss_pred             CCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCC
Q 030630           80 LFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  151 (174)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~  151 (174)
                      ..++           .......+..+|++++|+|+.+.....+..+++.+..   ..  .|+++++||+|+.
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            8862           2223334556799999999986766665555444332   12  5899999999986

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.

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.60  E-value=2.1e-14  Score=117.01  Aligned_cols=117  Identities=22%  Similarity=0.317  Sum_probs=84.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccc-cccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFK-SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~-~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .|+++|+.++|||||+++|+|...-. ......+.|....+......++..+.+|||||+.+           +.+.+..
T Consensus         2 ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~g~~i~~IDtPGhe~-----------fi~~m~~   70 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPDGRVLGFIDVPGHEK-----------FLSNMLA   70 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCCCcEEEEEECCCHHH-----------HHHHHHH
Confidence            68999999999999999999854211 11223456666555544443456789999999854           3333444


Q ss_pred             ccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .+..+|++++|+|+++++...+.+.+..+... +.   +++++|+||+|+...
T Consensus        71 g~~~~D~~lLVVda~eg~~~qT~ehl~il~~l-gi---~~iIVVlNKiDlv~~  119 (614)
T PRK10512         71 GVGGIDHALLVVACDDGVMAQTREHLAILQLT-GN---PMLTVALTKADRVDE  119 (614)
T ss_pred             HhhcCCEEEEEEECCCCCcHHHHHHHHHHHHc-CC---CeEEEEEECCccCCH
Confidence            56778999999999888888888888766543 21   356899999999754

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.60  E-value=7e-15  Score=114.66  Aligned_cols=120  Identities=17%  Similarity=0.244  Sum_probs=81.6

Q ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCcc------cc--------cccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCC
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRRA------FK--------SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   83 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~~------~~--------~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~   83 (174)
                      .+..+++++|+.++|||||+++|++...      ..        ..+...+.|.......+.. ++..+.++||||+.+ 
T Consensus        10 ~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~~~~~~~-~~~~~~liDtpGh~~-   87 (394)
T TIGR00485        10 KPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHVEYET-ENRHYAHVDCPGHAD-   87 (394)
T ss_pred             CceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeEEEEEcC-CCEEEEEEECCchHH-
Confidence            3458999999999999999999984311      00        0111245565554444433 456789999999865 


Q ss_pred             CCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           84 SAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                                +..........+|++++|+|+.++....+.+.+..+... +.   +++++++||+|+...
T Consensus        88 ----------f~~~~~~~~~~~D~~ilVvda~~g~~~qt~e~l~~~~~~-gi---~~iIvvvNK~Dl~~~  143 (394)
T TIGR00485        88 ----------YVKNMITGAAQMDGAILVVSATDGPMPQTREHILLARQV-GV---PYIVVFLNKCDMVDD  143 (394)
T ss_pred             ----------HHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHc-CC---CEEEEEEEecccCCH
Confidence                      222223344577999999999877888888887776554 21   345578999999754

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.

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=99.60  E-value=9.7e-15  Score=112.79  Aligned_cols=129  Identities=16%  Similarity=0.160  Sum_probs=96.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      ..++++|++++|||||+|+|+..+..-.. ...+.|.+.-...+.. ++.+++++||+|+-+  .+.+.....-.+.++.
T Consensus       269 l~iaIvGrPNvGKSSLlNaL~~~drsIVS-pv~GTTRDaiea~v~~-~G~~v~L~DTAGiRe--~~~~~iE~~gI~rA~k  344 (531)
T KOG1191|consen  269 LQIAIVGRPNVGKSSLLNALSREDRSIVS-PVPGTTRDAIEAQVTV-NGVPVRLSDTAGIRE--ESNDGIEALGIERARK  344 (531)
T ss_pred             CeEEEEcCCCCCHHHHHHHHhcCCceEeC-CCCCcchhhheeEeec-CCeEEEEEecccccc--ccCChhHHHhHHHHHH
Confidence            88999999999999999999998754332 3355666666666665 899999999999998  4455566666677777


Q ss_pred             ccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhh-h------cCcEEEEEeCcCCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK-I------FDYMIVVFTGGDELED  153 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~-~------~~~~~iv~tk~D~~~~  153 (174)
                      ...++|++++|+|+.+..+..+..+.+.+......- .      +.+.+++.||.|...+
T Consensus       345 ~~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~  404 (531)
T KOG1191|consen  345 RIERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSK  404 (531)
T ss_pred             HHhhcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCc
Confidence            888999999999996666666666555555542211 1      2578899999998765

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

Probab=99.60  E-value=1.5e-14  Score=100.51  Aligned_cols=112  Identities=24%  Similarity=0.160  Sum_probs=72.5

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEE-EEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           23 VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM-QRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        23 i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      |+++|+.|+|||||++++++.......    ..+..... ..... ++  ..+.++||||....           .....
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~~~----~~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~-----------~~~~~   64 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPEDY----VPTVFENYSADVEV-DGKPVELGLWDTAGQEDY-----------DRLRP   64 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCCCC----CCcEEeeeeEEEEE-CCEEEEEEEEECCCCccc-----------chhch
Confidence            589999999999999999986642221    11221111 12222 23  35789999998752           22223


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH--HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~--~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..+..+|++++|+|.++.-+...  ..|+..+....   ...|+++|.||+|+...
T Consensus        65 ~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~i~~~~---~~~piilv~nK~Dl~~~  117 (174)
T smart00174       65 LSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFC---PNTPIILVGTKLDLRED  117 (174)
T ss_pred             hhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC---CCCCEEEEecChhhhhC
Confidence            45678899999999985433332  34666665542   23699999999998753

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

>TIGR00503 prfC peptide chain release factor 3

Probab=99.60  E-value=2.5e-14  Score=114.76  Aligned_cols=124  Identities=15%  Similarity=0.168  Sum_probs=83.1

Q ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCc--cccccc------------------CCCCcceeeEEEEEEEeCCcEEEEEeC
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRR--AFKSRA------------------SSSGVTSTCEMQRTVLKDGQVVNVIDT   77 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~--~~~~~~------------------~~~~~t~~~~~~~~~~~~~~~~~~iDt   77 (174)
                      .+.++++++|+.++|||||+++|+-..  ....+.                  ...+.+.......+.+ ++..+.++||
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            445899999999999999999985311  111110                  0113444555566666 7788999999


Q ss_pred             CCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhh
Q 030630           78 PGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDET  157 (174)
Q Consensus        78 pG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~  157 (174)
                      ||+.+           +......++..+|++++|+|+.+++......+++.....     ..|+++++||+|+...+...
T Consensus        88 PG~~d-----------f~~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~~-----~~PiivviNKiD~~~~~~~~  151 (527)
T TIGR00503        88 PGHED-----------FSEDTYRTLTAVDNCLMVIDAAKGVETRTRKLMEVTRLR-----DTPIFTFMNKLDRDIRDPLE  151 (527)
T ss_pred             CChhh-----------HHHHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHhc-----CCCEEEEEECccccCCCHHH
Confidence            99975           222222344567999999999877777766666544332     26899999999987544333


Q ss_pred             H
Q 030630          158 L  158 (174)
Q Consensus       158 ~  158 (174)
                      +
T Consensus       152 l  152 (527)
T TIGR00503       152 L  152 (527)
T ss_pred             H
Confidence            3

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.

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.60  E-value=1.5e-14  Score=102.87  Aligned_cols=114  Identities=23%  Similarity=0.257  Sum_probs=72.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcce-eeEEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTS-TCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~-~~~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      +|+++|.+|+|||||++.+++.......    ..|. ......+.+ .+  ..+.++||||....           ....
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~~~~----~~t~~~~~~~~~~~-~~~~~~l~i~D~~G~~~~-----------~~~~   64 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFEPKY----RRTVEEMHRKEYEV-GGVSLTLDILDTSGSYSF-----------PAMR   64 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccC----CCchhhheeEEEEE-CCEEEEEEEEECCCchhh-----------hHHH
Confidence            4799999999999999999986643211    1111 111222333 23  46789999997752           2223


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      ...+..+|++++|+|.++..+... ..++..+.+.... ...|+++++||+|+..
T Consensus        65 ~~~~~~ad~vilv~d~~~~~s~~~~~~~~~~i~~~~~~-~~~piilv~NK~Dl~~  118 (198)
T cd04147          65 KLSIQNSDAFALVYAVDDPESFEEVERLREEILEVKED-KFVPIVVVGNKADSLE  118 (198)
T ss_pred             HHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCcEEEEEEcccccc
Confidence            335678899999999985433332 3444445444321 2369999999999865

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.

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

Probab=99.60  E-value=7.3e-15  Score=100.72  Aligned_cols=125  Identities=21%  Similarity=0.195  Sum_probs=85.0

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      ..+++++|.+|+|||||+-............++.+...-+...... .....+.+|||.|..+           +.....
T Consensus         5 ~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~-~~~ikfeIWDTAGQER-----------y~slap   72 (200)
T KOG0092|consen    5 EFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVD-DNTIKFEIWDTAGQER-----------YHSLAP   72 (200)
T ss_pred             eEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeC-CcEEEEEEEEcCCccc-----------cccccc
Confidence            3789999999999999998887766443322333222222222221 1235678999999998           445556


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhH
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETL  158 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~  158 (174)
                      ..+++++++|+|+|.++.-+... +.|++.|++..+++  ..+.+|.||+|+........
T Consensus        73 MYyRgA~AAivvYDit~~~SF~~aK~WvkeL~~~~~~~--~vialvGNK~DL~~~R~V~~  130 (200)
T KOG0092|consen   73 MYYRGANAAIVVYDITDEESFEKAKNWVKELQRQASPN--IVIALVGNKADLLERREVEF  130 (200)
T ss_pred             ceecCCcEEEEEEecccHHHHHHHHHHHHHHHhhCCCC--eEEEEecchhhhhhcccccH
Confidence            78999999999999994433333 78888888876533  35668999999987443443

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=99.60  E-value=4.9e-15  Score=98.63  Aligned_cols=114  Identities=21%  Similarity=0.237  Sum_probs=74.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .|++++|++|||||||+++|.+....      ...|..     +.+ .+   .+|||||=+-       -...+...+..
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~~~------~~KTq~-----i~~-~~---~~IDTPGEyi-------E~~~~y~aLi~   59 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEEIR------YKKTQA-----IEY-YD---NTIDTPGEYI-------ENPRFYHALIV   59 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCCCC------cCccce-----eEe-cc---cEEECChhhe-------eCHHHHHHHHH
Confidence            68999999999999999999986531      112221     222 12   2599999663       12334445555


Q ss_pred             ccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCC--CCChhhHHHHhcc
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL--EDNDETLEDYLGR  164 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~--~~~~~~~~~~~~~  164 (174)
                      ....+|.|+++.|++++...-...+...    +    .+|++-|+||+|+.  +.+.+..+++++.
T Consensus        60 ta~dad~V~ll~dat~~~~~~pP~fa~~----f----~~pvIGVITK~Dl~~~~~~i~~a~~~L~~  117 (143)
T PF10662_consen   60 TAQDADVVLLLQDATEPRSVFPPGFASM----F----NKPVIGVITKIDLPSDDANIERAKKWLKN  117 (143)
T ss_pred             HHhhCCEEEEEecCCCCCccCCchhhcc----c----CCCEEEEEECccCccchhhHHHHHHHHHH
Confidence            5667899999999985544333333322    2    15899999999998  4433344556655

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

>PLN03126 Elongation factor Tu; Provisional

Probab=99.60  E-value=8.3e-15  Score=116.12  Aligned_cols=120  Identities=16%  Similarity=0.213  Sum_probs=84.7

Q ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCccc--------------ccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCC
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRRAF--------------KSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   83 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~~~--------------~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~   83 (174)
                      .+..+++++|+.++|||||+++|++....              .......+.|.......+.+ ++..+.++||||+.+ 
T Consensus        79 k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~-~~~~i~liDtPGh~~-  156 (478)
T PLN03126         79 KPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYET-ENRHYAHVDCPGHAD-  156 (478)
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEec-CCcEEEEEECCCHHH-
Confidence            34578999999999999999999852210              01122345565555555555 677899999999875 


Q ss_pred             CCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           84 SAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                                +.......+..+|++++|+|+.++....+++++..+... +.   +++++++||+|+...
T Consensus       157 ----------f~~~~~~g~~~aD~ailVVda~~G~~~qt~e~~~~~~~~-gi---~~iIvvvNK~Dl~~~  212 (478)
T PLN03126        157 ----------YVKNMITGAAQMDGAILVVSGADGPMPQTKEHILLAKQV-GV---PNMVVFLNKQDQVDD  212 (478)
T ss_pred             ----------HHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHc-CC---CeEEEEEecccccCH
Confidence                      333333344577999999999878888888888765554 21   247889999999764

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.60  E-value=1.7e-14  Score=100.69  Aligned_cols=114  Identities=22%  Similarity=0.127  Sum_probs=75.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEE-EEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ-RTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      .+++++|.+|+|||||++.+........    ..+|...... .... .+  ..+.+|||+|..+           +...
T Consensus         2 ~ki~vvG~~~vGKTsl~~~~~~~~f~~~----~~pt~~~~~~~~~~~-~~~~~~l~i~Dt~G~~~-----------~~~~   65 (175)
T cd01874           2 IKCVVVGDGAVGKTCLLISYTTNKFPSE----YVPTVFDNYAVTVMI-GGEPYTLGLFDTAGQED-----------YDRL   65 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCC----CCCceeeeeEEEEEE-CCEEEEEEEEECCCccc-----------hhhh
Confidence            5799999999999999999997653222    1122222111 2223 33  4578999999876           2223


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHH--HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~--~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ....+..+|++++|+|.+++-+...  ..|+..+.... .  ..|+++|.||+|+...
T Consensus        66 ~~~~~~~a~~~ilv~d~~~~~s~~~~~~~w~~~i~~~~-~--~~piilvgnK~Dl~~~  120 (175)
T cd01874          66 RPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHC-P--KTPFLLVGTQIDLRDD  120 (175)
T ss_pred             hhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-C--CCCEEEEEECHhhhhC
Confidence            3346678899999999985544433  24666665542 2  2699999999998643

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

>cd01892 Miro2 Miro2 subfamily

Probab=99.60  E-value=3e-14  Score=98.83  Aligned_cols=117  Identities=14%  Similarity=-0.000  Sum_probs=70.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+|+++|.+|+|||||++.+++....... ..+..........+.+ ++  ..+.++|++|.....           ...
T Consensus         5 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~-~~~T~~~~~~~~~~~~-~~~~~~l~~~d~~g~~~~~-----------~~~   71 (169)
T cd01892           5 FLCFVLGAKGSGKSALLRAFLGRSFSLNA-YSPTIKPRYAVNTVEV-YGQEKYLILREVGEDEVAI-----------LLN   71 (169)
T ss_pred             EEEEEECCCCCcHHHHHHHHhCCCCCccc-CCCccCcceEEEEEEE-CCeEEEEEEEecCCccccc-----------ccc
Confidence            78999999999999999999987632011 1111111111222333 33  357789999977532           122


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...+.++|++++|+|.+++-+..  ...+++... ......|+++|+||+|+...
T Consensus        72 ~~~~~~~d~~llv~d~~~~~s~~--~~~~~~~~~-~~~~~~p~iiv~NK~Dl~~~  123 (169)
T cd01892          72 DAELAACDVACLVYDSSDPKSFS--YCAEVYKKY-FMLGEIPCLFVAAKADLDEQ  123 (169)
T ss_pred             hhhhhcCCEEEEEEeCCCHHHHH--HHHHHHHHh-ccCCCCeEEEEEEccccccc
Confidence            23457889999999997442211  112222222 11123699999999998643

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.

>cd04148 RGK RGK subfamily

Probab=99.60  E-value=2.7e-14  Score=103.21  Aligned_cols=116  Identities=20%  Similarity=0.113  Sum_probs=70.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCccc-ccccCCCCcceeeEEEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAF-KSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~-~~~~~~~~~t~~~~~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      +|+++|++|+|||||++.+++.... .......+..  .....+... ....+.+|||||...      .    ...   
T Consensus         2 KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~--~~~~~i~~~~~~~~l~i~Dt~G~~~------~----~~~---   66 (221)
T cd04148           2 RVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDD--TYERTVSVDGEESTLVVIDHWEQEM------W----TED---   66 (221)
T ss_pred             EEEEECCCCCcHHHHHHHHhcCCcCccCcCCCcccc--ceEEEEEECCEEEEEEEEeCCCcch------H----HHh---
Confidence            7899999999999999999765432 1111111101  111122221 235688999999872      1    111   


Q ss_pred             hccC-CceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKD-GIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~-~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .+.. .+|++++|+|.+++-+... ..++..+.+.. .....|+++|.||+|+...
T Consensus        67 ~~~~~~ad~iilV~d~td~~S~~~~~~~~~~l~~~~-~~~~~piilV~NK~Dl~~~  121 (221)
T cd04148          67 SCMQYQGDAFVVVYSVTDRSSFERASELRIQLRRNR-QLEDRPIILVGNKSDLARS  121 (221)
T ss_pred             HHhhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhc-CCCCCCEEEEEEChhcccc
Confidence            1223 7899999999985433332 45555555432 1123699999999998654

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

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.59  E-value=2.9e-14  Score=103.43  Aligned_cols=115  Identities=14%  Similarity=0.038  Sum_probs=77.5

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEE-EEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM-QRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      ..+|+++|..|+|||||++.+++......    ..+|....+ ..+... ....+.+|||+|...           +...
T Consensus        13 ~~KIvvvGd~~VGKTsLi~r~~~~~F~~~----y~pTi~~~~~~~i~~~~~~v~l~iwDTaG~e~-----------~~~~   77 (232)
T cd04174          13 RCKLVLVGDVQCGKTAMLQVLAKDCYPET----YVPTVFENYTAGLETEEQRVELSLWDTSGSPY-----------YDNV   77 (232)
T ss_pred             eEEEEEECCCCCcHHHHHHHHhcCCCCCC----cCCceeeeeEEEEEECCEEEEEEEEeCCCchh-----------hHHH
Confidence            47899999999999999999987653211    112221111 112221 234689999999765           3334


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHH--HHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~--~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      ...++.++|++++|+|.+++-+...  ..|++.+.+...   ..|+++|.||+|+..
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            4456789999999999986555443  467777766532   258999999999853

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.

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.59  E-value=8.2e-15  Score=98.63  Aligned_cols=101  Identities=19%  Similarity=0.240  Sum_probs=65.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhc
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  101 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~  101 (174)
                      +|+++|++|+|||||+|++++....      ...|.     ...+ ..   .++||||...   .    ...+.+.+...
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~~------~~~t~-----~~~~-~~---~~iDt~G~~~---~----~~~~~~~~~~~   59 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEIL------YKKTQ-----AVEY-ND---GAIDTPGEYV---E----NRRLYSALIVT   59 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCccc------cccce-----eEEE-cC---eeecCchhhh---h----hHHHHHHHHHH
Confidence            7899999999999999999987521      11122     1223 22   5899999742   1    11122222234


Q ss_pred             cCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630          102 KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus       102 ~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      +.++|++++|+|++++.+.....+.+.    ..    .|+++|+||+|+..
T Consensus        60 ~~~ad~vilv~d~~~~~s~~~~~~~~~----~~----~p~ilv~NK~Dl~~  102 (142)
T TIGR02528        60 AADADVIALVQSATDPESRFPPGFASI----FV----KPVIGLVTKIDLAE  102 (142)
T ss_pred             hhcCCEEEEEecCCCCCcCCChhHHHh----cc----CCeEEEEEeeccCC
Confidence            788999999999986655544333321    11    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.

>PRK10218 GTP-binding protein; Provisional

Probab=99.59  E-value=4.4e-14  Score=114.67  Aligned_cols=117  Identities=19%  Similarity=0.229  Sum_probs=84.7

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcc-ccc-c------------cCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCC
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRA-FKS-R------------ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~-~~~-~------------~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~   85 (174)
                      -++|+++|+.++|||||+++|+.... +.. +            ....+.|.......+.| ++..+.+|||||..++  
T Consensus         5 iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~-~~~~inliDTPG~~df--   81 (607)
T PRK10218          5 LRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKW-NDYRINIVDTPGHADF--   81 (607)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEec-CCEEEEEEECCCcchh--
Confidence            47899999999999999999986321 111 1            12235566666666666 7788999999998873  


Q ss_pred             ChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           86 GSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                               ...+...+..+|++++|+|+.++....++.++..+...   .  .|.++++||+|....
T Consensus        82 ---------~~~v~~~l~~aDg~ILVVDa~~G~~~qt~~~l~~a~~~---g--ip~IVviNKiD~~~a  135 (607)
T PRK10218         82 ---------GGEVERVMSMVDSVLLVVDAFDGPMPQTRFVTKKAFAY---G--LKPIVVINKVDRPGA  135 (607)
T ss_pred             ---------HHHHHHHHHhCCEEEEEEecccCccHHHHHHHHHHHHc---C--CCEEEEEECcCCCCC
Confidence                     22333455677999999999877777777776655443   2  578999999998754

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.59  E-value=3.1e-14  Score=102.70  Aligned_cols=115  Identities=18%  Similarity=0.071  Sum_probs=73.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEE-EEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM-QRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~-~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+|+++|..|+|||||++.+++...+....    +|....+ ..+... ....+.+|||+|...           +....
T Consensus         2 ~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~----pTi~~~~~~~~~~~~~~v~L~iwDt~G~e~-----------~~~l~   66 (222)
T cd04173           2 CKIVVVGDAECGKTALLQVFAKDAYPGSYV----PTVFENYTASFEIDKRRIELNMWDTSGSSY-----------YDNVR   66 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCccC----CccccceEEEEEECCEEEEEEEEeCCCcHH-----------HHHHh
Confidence            579999999999999999999866432211    1211111 122221 234578899999765           33344


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH--HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~--~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..++..+|++++|+|.+++-+...  ..|...+.... .  ..|+++|.||+|+...
T Consensus        67 ~~~~~~~d~illvfdis~~~Sf~~i~~~w~~~~~~~~-~--~~piiLVgnK~DL~~~  120 (222)
T cd04173          67 PLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFC-P--NAKVVLVGCKLDMRTD  120 (222)
T ss_pred             HHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC-C--CCCEEEEEECcccccc
Confidence            456889999999999985533332  23443333322 2  2589999999998653

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

>cd01875 RhoG RhoG subfamily

Probab=99.58  E-value=3.1e-14  Score=100.64  Aligned_cols=116  Identities=18%  Similarity=0.061  Sum_probs=75.5

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEE-EEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ-RTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~-~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      ..+++++|..|+|||||++.+........    ..+|....+. ..... +...+.+|||+|...           +...
T Consensus         3 ~~ki~~vG~~~vGKTsli~~~~~~~f~~~----~~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~e~-----------~~~l   67 (191)
T cd01875           3 SIKCVVVGDGAVGKTCLLICYTTNAFPKE----YIPTVFDNYSAQTAVDGRTVSLNLWDTAGQEE-----------YDRL   67 (191)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCcC----CCCceEeeeEEEEEECCEEEEEEEEECCCchh-----------hhhh
Confidence            36899999999999999999887653212    1122221111 11221 234678999999876           3334


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHHH--HHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEEE--AALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~~--~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ....+.++|++++|+|.+++-+....  .|...+.... .  ..|+++|.||.|+...
T Consensus        68 ~~~~~~~a~~~ilvydit~~~Sf~~~~~~w~~~i~~~~-~--~~piilvgNK~DL~~~  122 (191)
T cd01875          68 RTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHHC-P--NVPILLVGTKKDLRND  122 (191)
T ss_pred             hhhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC-C--CCCEEEEEeChhhhcC
Confidence            44567889999999999855443332  3555454432 2  3699999999998643

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

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.58  E-value=1.1e-13  Score=93.85  Aligned_cols=117  Identities=22%  Similarity=0.220  Sum_probs=68.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+|+++|.+|+|||||++.+++...+ .. .....+.........+ .+  ..+.++|+||..+..           ...
T Consensus         2 ~ki~~~G~~~~GKstl~~~l~~~~~~-~~-~~~~~~~~~~~~~~~~-~~~~~~~~~~D~~G~~~~~-----------~~~   67 (161)
T TIGR00231         2 IKIVIVGDPNVGKSTLLNRLLGNKFI-TE-YKPGTTRNYVTTVIEE-DGKTYKFNLLDTAGQEDYR-----------AIR   67 (161)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCCc-Cc-CCCCceeeeeEEEEEE-CCEEEEEEEEECCCcccch-----------HHH
Confidence            68999999999999999999998732 22 2223333333333334 44  568899999966521           111


Q ss_pred             HhccCCceEEEEEEeCCCC-CCHH--HHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSR-FSQE--EEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~-~~~~--~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ......++.+++++|.... .+..  ...+...+......  ..|+++++||+|+...
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            1222334555555555422 1111  12344444444322  3689999999999764

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.

>PLN00023 GTP-binding protein; Provisional

Probab=99.58  E-value=5.9e-14  Score=105.23  Aligned_cols=127  Identities=18%  Similarity=0.201  Sum_probs=83.4

Q ss_pred             CCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe--------------CCcEEEEEeCCC
Q 030630           14 TSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK--------------DGQVVNVIDTPG   79 (174)
Q Consensus        14 ~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~--------------~~~~~~~iDtpG   79 (174)
                      ..+.....+|+++|..|+|||||++.+++.........+.+.+.  ....+.+.              +...+.+|||+|
T Consensus        15 ~~~~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~--~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAG   92 (334)
T PLN00023         15 GGPPCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTV--GVKHITYGSPGSSSNSIKGDSERDFFVELWDVSG   92 (334)
T ss_pred             cCCCccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeE--EEEEEEECCcccccccccccCCceEEEEEEECCC
Confidence            45556668999999999999999999997653211111111111  11222221              123589999999


Q ss_pred             CCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhh----------hhcCcEEEEEeCc
Q 030630           80 LFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGK----------KIFDYMIVVFTGG  148 (174)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~----------~~~~~~~iv~tk~  148 (174)
                      ...           +..+...++.+++++|+|+|.++.-+... ..|++.+......          ....+++||.||+
T Consensus        93 qEr-----------frsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~  161 (334)
T PLN00023         93 HER-----------YKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKA  161 (334)
T ss_pred             Chh-----------hhhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECc
Confidence            876           45555667889999999999985443333 5677777664210          0125899999999


Q ss_pred             CCCCC
Q 030630          149 DELED  153 (174)
Q Consensus       149 D~~~~  153 (174)
                      |+...
T Consensus       162 DL~~~  166 (334)
T PLN00023        162 DIAPK  166 (334)
T ss_pred             ccccc
Confidence            98653

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.58  E-value=4.9e-14  Score=103.36  Aligned_cols=115  Identities=20%  Similarity=0.171  Sum_probs=71.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcce-eeEEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTS-TCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~-~~~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      +|+++|..|+|||||++.+++......    ..+|. ......+.. ++  ..+.+|||+|..+.           ....
T Consensus         2 KVvvlG~~gvGKTSLi~r~~~~~f~~~----y~pTi~d~~~k~~~i-~~~~~~l~I~Dt~G~~~~-----------~~~~   65 (247)
T cd04143           2 RMVVLGASKVGKTAIVSRFLGGRFEEQ----YTPTIEDFHRKLYSI-RGEVYQLDILDTSGNHPF-----------PAMR   65 (247)
T ss_pred             EEEEECcCCCCHHHHHHHHHcCCCCCC----CCCChhHhEEEEEEE-CCEEEEEEEEECCCChhh-----------hHHH
Confidence            689999999999999999987653321    11121 111122222 23  45789999997652           1122


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHh-------hhhcCcEEEEEeCcCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFG-------KKIFDYMIVVFTGGDELE  152 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~-------~~~~~~~~iv~tk~D~~~  152 (174)
                      ...+..+|++++|+|.++.-+... ..+++.+.+...       .....|++++.||+|+..
T Consensus        66 ~~~~~~ad~iIlVfdv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~  127 (247)
T cd04143          66 RLSILTGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDF  127 (247)
T ss_pred             HHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchh
Confidence            224567899999999985433332 344455543211       112369999999999974

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

>cd04133 Rop_like Rop subfamily

Probab=99.58  E-value=3.3e-14  Score=99.21  Aligned_cols=115  Identities=17%  Similarity=0.083  Sum_probs=77.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .+++++|..|+|||||+..+...........+.+...   ....... ....+.+|||+|..+           +.....
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~---~~~~~~~~~~v~l~i~Dt~G~~~-----------~~~~~~   67 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF---SANVSVDGNTVNLGLWDTAGQED-----------YNRLRP   67 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeee---EEEEEECCEEEEEEEEECCCCcc-----------ccccch
Confidence            5799999999999999999997653222111111111   1122221 234679999999876           333334


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH--HHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~--~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      ..+.++|++++|+|.+++-+...  ..|+..+.... .  ..|+++|.||+|+.+
T Consensus        68 ~~~~~a~~~ilvyd~~~~~Sf~~~~~~w~~~i~~~~-~--~~piilvgnK~Dl~~  119 (176)
T cd04133          68 LSYRGADVFVLAFSLISRASYENVLKKWVPELRHYA-P--NVPIVLVGTKLDLRD  119 (176)
T ss_pred             hhcCCCcEEEEEEEcCCHHHHHHHHHHHHHHHHHhC-C--CCCEEEEEeChhhcc
Confidence            46788999999999986655554  35777776543 2  369999999999864

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,

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.58  E-value=5e-14  Score=112.97  Aligned_cols=120  Identities=15%  Similarity=0.216  Sum_probs=80.9

Q ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCc--cccccc------------------CCCCcceeeEEEEEEEeCCcEEEEEeC
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRR--AFKSRA------------------SSSGVTSTCEMQRTVLKDGQVVNVIDT   77 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~--~~~~~~------------------~~~~~t~~~~~~~~~~~~~~~~~~iDt   77 (174)
                      .+.++++++|+.++|||||.++|+...  ....+.                  ...+.+.......+.| ++..+.++||
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            345899999999999999999986311  110110                  0113344445555666 7788999999


Q ss_pred             CCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630           78 PGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        78 pG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      ||+.++.       .+..    .++..+|++++|+|+++++......+++.....     ..|+++++||+|+...+
T Consensus        87 PG~~df~-------~~~~----~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~~-----~iPiiv~iNK~D~~~a~  147 (526)
T PRK00741         87 PGHEDFS-------EDTY----RTLTAVDSALMVIDAAKGVEPQTRKLMEVCRLR-----DTPIFTFINKLDRDGRE  147 (526)
T ss_pred             CCchhhH-------HHHH----HHHHHCCEEEEEEecCCCCCHHHHHHHHHHHhc-----CCCEEEEEECCcccccC
Confidence            9987621       1222    233456999999999877777666665544332     26899999999987654

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.58  E-value=6.6e-14  Score=97.58  Aligned_cols=115  Identities=17%  Similarity=0.044  Sum_probs=73.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .+++++|..|+|||||+.+++.............   .......... ....+.++||||...           +.....
T Consensus         2 ~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~---~~~~~~~~~~~~~~~l~i~Dt~G~~~-----------~~~~~~   67 (174)
T cd01871           2 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF---DNYSANVMVDGKPVNLGLWDTAGQED-----------YDRLRP   67 (174)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCcCCCcce---eeeEEEEEECCEEEEEEEEECCCchh-----------hhhhhh
Confidence            5899999999999999999887553222111111   1111122221 124578999999765           233334


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH--HHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~--~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      .++.++|++++|+|.+++-+...  ..|+..+.... .  ..|+++|.||.|+..
T Consensus        68 ~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~-~--~~piilvgnK~Dl~~  119 (174)
T cd01871          68 LSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-P--NTPIILVGTKLDLRD  119 (174)
T ss_pred             hhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-C--CCCEEEEeeChhhcc
Confidence            46778999999999985433333  24555555532 2  369999999999854

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

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.58  E-value=1.3e-13  Score=94.11  Aligned_cols=130  Identities=17%  Similarity=0.224  Sum_probs=95.7

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCccccc-----ccCCCC---cceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKS-----RASSSG---VTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVG   91 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~-----~~~~~~---~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~   91 (174)
                      ..+|+++|+.++||||+++.+........     ..+...   .|....+....+..+..+++++|||+.+         
T Consensus        10 ~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~~~~~~v~LfgtPGq~R---------   80 (187)
T COG2229          10 ETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELDEDTGVHLFGTPGQER---------   80 (187)
T ss_pred             ceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccceEEcCcceEEEecCCCcHH---------
Confidence            46899999999999999999998764222     112222   4555566666664558899999999997         


Q ss_pred             HHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCCh-hhHHHHhcc
Q 030630           92 KEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDND-ETLEDYLGR  164 (174)
Q Consensus        92 ~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~-~~~~~~~~~  164 (174)
                        +.-.+....+++..+++++|.+...+......++.+.....    .|++|++||.|+.+... +.+.++++.
T Consensus        81 --F~fm~~~l~~ga~gaivlVDss~~~~~~a~~ii~f~~~~~~----ip~vVa~NK~DL~~a~ppe~i~e~l~~  148 (187)
T COG2229          81 --FKFMWEILSRGAVGAIVLVDSSRPITFHAEEIIDFLTSRNP----IPVVVAINKQDLFDALPPEKIREALKL  148 (187)
T ss_pred             --HHHHHHHHhCCcceEEEEEecCCCcchHHHHHHHHHhhccC----CCEEEEeeccccCCCCCHHHHHHHHHh
Confidence              44444455677899999999987777766777777766432    58999999999987643 346677766

>cd04135 Tc10 TC10 subfamily

Probab=99.58  E-value=7.2e-14  Score=97.04  Aligned_cols=113  Identities=20%  Similarity=0.136  Sum_probs=71.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeE-EEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCE-MQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~-~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      +|+++|++|+|||||++.+++.......    .+|.... ...... .+  ..+.+|||||..+..           ...
T Consensus         2 ki~i~G~~~~GKTsl~~~~~~~~~~~~~----~~t~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~-----------~~~   65 (174)
T cd04135           2 KCVVVGDGAVGKTCLLMSYANDAFPEEY----VPTVFDHYAVSVTV-GGKQYLLGLYDTAGQEDYD-----------RLR   65 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCC----CCceeeeeEEEEEE-CCEEEEEEEEeCCCccccc-----------ccc
Confidence            7899999999999999999886642221    1121111 112222 22  346799999987632           122


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH--HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~--~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...+..+|++++|++.+++-+...  ..++..+... ..  ..|++++.||+|+.+.
T Consensus        66 ~~~~~~~~~~ilv~~~~~~~s~~~~~~~~~~~l~~~-~~--~~piivv~nK~Dl~~~  119 (174)
T cd04135          66 PLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY-AP--NVPYLLVGTQIDLRDD  119 (174)
T ss_pred             cccCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhh-CC--CCCEEEEeEchhhhcC
Confidence            235678899999999975433332  3455555543 22  3689999999998643

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

>COG2262 HflX GTPases [General function prediction only]

Probab=99.57  E-value=7.4e-14  Score=106.15  Aligned_cols=129  Identities=26%  Similarity=0.237  Sum_probs=91.9

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      .-+.|+++|-++||||||+|+|++...+..  .....|-+.......+..+..+.+-||-||.+  .-++.+..-+...+
T Consensus       191 ~~p~vaLvGYTNAGKSTL~N~LT~~~~~~~--d~LFATLdpttR~~~l~~g~~vlLtDTVGFI~--~LP~~LV~AFksTL  266 (411)
T COG2262         191 GIPLVALVGYTNAGKSTLFNALTGADVYVA--DQLFATLDPTTRRIELGDGRKVLLTDTVGFIR--DLPHPLVEAFKSTL  266 (411)
T ss_pred             CCCeEEEEeeccccHHHHHHHHhccCeecc--ccccccccCceeEEEeCCCceEEEecCccCcc--cCChHHHHHHHHHH
Confidence            347899999999999999999998776433  33445555555566664578999999999997  44666666666665


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      . ....+|.++.|+|++++.-... ....+.|.+. +... .|+++|+||+|++.+.
T Consensus       267 E-E~~~aDlllhVVDaSdp~~~~~~~~v~~vL~el-~~~~-~p~i~v~NKiD~~~~~  320 (411)
T COG2262         267 E-EVKEADLLLHVVDASDPEILEKLEAVEDVLAEI-GADE-IPIILVLNKIDLLEDE  320 (411)
T ss_pred             H-HhhcCCEEEEEeecCChhHHHHHHHHHHHHHHc-CCCC-CCEEEEEecccccCch
Confidence            5 4578899999999986622222 2333334443 3222 6999999999998763

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.57  E-value=2.5e-14  Score=111.83  Aligned_cols=118  Identities=14%  Similarity=0.157  Sum_probs=81.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccc--------------cc-----------------cCCCCcceeeEEEEEEEeCC
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFK--------------SR-----------------ASSSGVTSTCEMQRTVLKDG   69 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~--------------~~-----------------~~~~~~t~~~~~~~~~~~~~   69 (174)
                      .+++++|+.++|||||++.|+.....-              .+                 +...+.|.........+ ++
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            378999999999999999986432110              01                 11224556666666666 67


Q ss_pred             cEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcC
Q 030630           70 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGD  149 (174)
Q Consensus        70 ~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D  149 (174)
                      ..+.++||||+.+           +.......+..+|++++|+|+.+++...+.+.+..+... +.   +++++++||+|
T Consensus        80 ~~~~liDtPGh~~-----------f~~~~~~~~~~aD~allVVda~~G~~~qt~~~~~~~~~~-~~---~~iivviNK~D  144 (406)
T TIGR02034        80 RKFIVADTPGHEQ-----------YTRNMATGASTADLAVLLVDARKGVLEQTRRHSYIASLL-GI---RHVVLAVNKMD  144 (406)
T ss_pred             eEEEEEeCCCHHH-----------HHHHHHHHHhhCCEEEEEEECCCCCccccHHHHHHHHHc-CC---CcEEEEEEecc
Confidence            7899999999764           222223345678999999999878877777766655543 21   47899999999


Q ss_pred             CCCCC
Q 030630          150 ELEDN  154 (174)
Q Consensus       150 ~~~~~  154 (174)
                      +...+
T Consensus       145 ~~~~~  149 (406)
T TIGR02034       145 LVDYD  149 (406)
T ss_pred             cccch
Confidence            97543

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).

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=99.57  E-value=4.4e-14  Score=114.37  Aligned_cols=115  Identities=18%  Similarity=0.239  Sum_probs=76.0

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe-----------------CCcEEEEEeCCCCCC
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-----------------DGQVVNVIDTPGLFD   82 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-----------------~~~~~~~iDtpG~~~   82 (174)
                      .+.|+++|+.++|||||+|+|++......  ...+.|.........+.                 +...+.++||||+..
T Consensus         4 ~piV~IiG~~d~GKTSLln~l~~~~v~~~--e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~   81 (590)
T TIGR00491         4 SPIVSVLGHVDHGKTTLLDKIRGSAVAKR--EAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEA   81 (590)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccccccc--cCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHh
Confidence            46899999999999999999998754221  11112211111111100                 112488999999865


Q ss_pred             CCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630           83 FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                                 +.......+..+|++++|+|++++....+.+.+..+...   .  .|+++++||+|+..
T Consensus        82 -----------f~~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~~l~~~---~--vpiIVv~NK~Dl~~  135 (590)
T TIGR00491        82 -----------FTNLRKRGGALADLAILIVDINEGFKPQTQEALNILRMY---K--TPFVVAANKIDRIP  135 (590)
T ss_pred             -----------HHHHHHHHHhhCCEEEEEEECCcCCCHhHHHHHHHHHHc---C--CCEEEEEECCCccc
Confidence                       222233355678999999999877777777776655442   2  58999999999864

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.

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.57  E-value=3e-14  Score=102.82  Aligned_cols=115  Identities=19%  Similarity=0.248  Sum_probs=74.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCccc-----------------------------ccccCCCCcceeeEEEEEEEeCCcEE
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAF-----------------------------KSRASSSGVTSTCEMQRTVLKDGQVV   72 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~-----------------------------~~~~~~~~~t~~~~~~~~~~~~~~~~   72 (174)
                      .|+++|+.++|||||+.+|+.....                             .......+.|.......+.+ ++..+
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            3799999999999999998632110                             01112235566666666666 77899


Q ss_pred             EEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCC-------CCHHHHHHHHHHHHHHhhhhcCcEEEEE
Q 030630           73 NVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSR-------FSQEEEAALHSLQTLFGKKIFDYMIVVF  145 (174)
Q Consensus        73 ~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~-------~~~~~~~~l~~l~~~~~~~~~~~~~iv~  145 (174)
                      .++||||+.+           +...+......+|++++|+|+++.       ........+..... .+   .+|+++++
T Consensus        80 ~liDtpG~~~-----------~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~~~-~~---~~~iiivv  144 (219)
T cd01883          80 TILDAPGHRD-----------FVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLART-LG---VKQLIVAV  144 (219)
T ss_pred             EEEECCChHH-----------HHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHHHH-cC---CCeEEEEE
Confidence            9999999754           222222345667999999999853       22233343333322 11   15789999


Q ss_pred             eCcCCCC
Q 030630          146 TGGDELE  152 (174)
Q Consensus       146 tk~D~~~  152 (174)
                      ||+|+..
T Consensus       145 NK~Dl~~  151 (219)
T cd01883         145 NKMDDVT  151 (219)
T ss_pred             Ecccccc
Confidence            9999973

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

>KOG0087 consensus GTPase Rab11/YPT3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.57  E-value=2e-14  Score=99.97  Aligned_cols=118  Identities=19%  Similarity=0.120  Sum_probs=87.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .+++++|.+|+|||-|+...+.........++.+....+....+.- +.....+|||.|+.+           ++.+..+
T Consensus        15 FKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~-k~vkaqIWDTAGQER-----------yrAitSa   82 (222)
T KOG0087|consen   15 FKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDG-KTVKAQIWDTAGQER-----------YRAITSA   82 (222)
T ss_pred             EEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecC-cEEEEeeecccchhh-----------hccccch
Confidence            6799999999999999999988764333333333333333333322 334679999999997           6666677


Q ss_pred             ccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      .++++.+.++|.|.+.+.+.+. ..|++.|++....  +.++++|.||+|+..
T Consensus        83 YYrgAvGAllVYDITr~~Tfenv~rWL~ELRdhad~--nivimLvGNK~DL~~  133 (222)
T KOG0087|consen   83 YYRGAVGALLVYDITRRQTFENVERWLKELRDHADS--NIVIMLVGNKSDLNH  133 (222)
T ss_pred             hhcccceeEEEEechhHHHHHHHHHHHHHHHhcCCC--CeEEEEeecchhhhh
Confidence            8999999999999986666665 7888888886533  468999999999976

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.57  E-value=3e-14  Score=99.09  Aligned_cols=113  Identities=19%  Similarity=0.076  Sum_probs=72.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcce-eeEEEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTS-TCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~-~~~~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      +++++|+.|+|||||++++.+.......    ..|. .......... ....+.+|||||...           +.....
T Consensus         2 k~~i~G~~~~GKtsl~~~~~~~~~~~~~----~~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~-----------~~~~~~   66 (173)
T cd04130           2 KCVLVGDGAVGKTSLIVSYTTNGYPTEY----VPTAFDNFSVVVLVDGKPVRLQLCDTAGQDE-----------FDKLRP   66 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCCCCCCC----CCceeeeeeEEEEECCEEEEEEEEECCCChh-----------hccccc
Confidence            6899999999999999999875532211    1121 1111122221 124678999999865           222233


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH--HHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~--~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      .++..+|++++|+|.+++-+...  ..|+..+.... .  ..|++++.||+|+..
T Consensus        67 ~~~~~a~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~-~--~~piilv~nK~Dl~~  118 (173)
T cd04130          67 LCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHN-P--KAPIILVGTQADLRT  118 (173)
T ss_pred             cccCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhhC-C--CCCEEEEeeChhhcc
Confidence            46678899999999985543333  34665555432 1  268999999999864

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,

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=99.57  E-value=4.3e-14  Score=113.35  Aligned_cols=124  Identities=21%  Similarity=0.276  Sum_probs=91.2

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCC--ChHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA--GSEFVGKEIVKC   97 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~--~~~~~~~~~~~~   97 (174)
                      ..+++++|.+|+|||||+|+|+|.... .| .-++.|.+.......+ +++.+.++|.||.++-..  ..+...+++.  
T Consensus         3 ~~~valvGNPNvGKTtlFN~LTG~~q~-Vg-NwpGvTVEkkeg~~~~-~~~~i~ivDLPG~YSL~~~S~DE~Var~~l--   77 (653)
T COG0370           3 KLTVALVGNPNVGKTTLFNALTGANQK-VG-NWPGVTVEKKEGKLKY-KGHEIEIVDLPGTYSLTAYSEDEKVARDFL--   77 (653)
T ss_pred             cceEEEecCCCccHHHHHHHHhccCce-ec-CCCCeeEEEEEEEEEe-cCceEEEEeCCCcCCCCCCCchHHHHHHHH--
Confidence            467999999999999999999998753 33 5677888877777777 777899999999997332  2233333332  


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhH
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETL  158 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~  158 (174)
                         ...++|+++-|+|++ .++..-.-.++.+.-.      .|+++++|.+|..+..+..+
T Consensus        78 ---l~~~~D~ivnVvDAt-nLeRnLyltlQLlE~g------~p~ilaLNm~D~A~~~Gi~I  128 (653)
T COG0370          78 ---LEGKPDLIVNVVDAT-NLERNLYLTLQLLELG------IPMILALNMIDEAKKRGIRI  128 (653)
T ss_pred             ---hcCCCCEEEEEcccc-hHHHHHHHHHHHHHcC------CCeEEEeccHhhHHhcCCcc
Confidence               257789999999999 6655555555433332      58999999999987654443

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.57  E-value=7.4e-14  Score=97.07  Aligned_cols=115  Identities=18%  Similarity=0.098  Sum_probs=72.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeE-EEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCE-MQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~-~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+|+++|++|+|||||++.+++.......    .+|.... ...+... ....+.++||||..+           +....
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~----~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~-----------~~~~~   66 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPEVY----VPTVFENYVADIEVDGKQVELALWDTAGQED-----------YDRLR   66 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCC----CCccccceEEEEEECCEEEEEEEEeCCCchh-----------hhhcc
Confidence            57999999999999999999986532211    1111111 1122231 123578999999765           22222


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH--HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~--~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...+.++|++++|++.++.-+...  ..++..+....   ...|++++.||+|+...
T Consensus        67 ~~~~~~~d~~i~v~~~~~~~s~~~~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~  120 (175)
T cd01870          67 PLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC---PNVPIILVGNKKDLRND  120 (175)
T ss_pred             ccccCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC---CCCCEEEEeeChhcccC
Confidence            335678899999999884422222  23555454432   12699999999998653

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

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.56  E-value=3.9e-14  Score=112.55  Aligned_cols=121  Identities=13%  Similarity=0.157  Sum_probs=81.7

Q ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCcccc--------------ccc-----------------CCCCcceeeEEEEEEE
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRRAFK--------------SRA-----------------SSSGVTSTCEMQRTVL   66 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~~~~--------------~~~-----------------~~~~~t~~~~~~~~~~   66 (174)
                      ....+++++|+.++|||||++.|+.....-              .|.                 ...+.|.........+
T Consensus        25 ~~~~~i~iiGhvdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~~~~~~~~  104 (474)
T PRK05124         25 KSLLRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYFST  104 (474)
T ss_pred             cCceEEEEECCCCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEeeEEEecc
Confidence            445899999999999999999987543110              010                 1124455555555555


Q ss_pred             eCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEe
Q 030630           67 KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFT  146 (174)
Q Consensus        67 ~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~t  146 (174)
                       ++..+.++||||+.+           +.+........+|++++|+|+.+++...+.+.+..+... +.   +++++++|
T Consensus       105 -~~~~i~~iDTPGh~~-----------f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~~l~~~l-g~---~~iIvvvN  168 (474)
T PRK05124        105 -EKRKFIIADTPGHEQ-----------YTRNMATGASTCDLAILLIDARKGVLDQTRRHSFIATLL-GI---KHLVVAVN  168 (474)
T ss_pred             -CCcEEEEEECCCcHH-----------HHHHHHHHHhhCCEEEEEEECCCCccccchHHHHHHHHh-CC---CceEEEEE
Confidence             567899999999653           222222334778999999999877776666655444433 31   47899999


Q ss_pred             CcCCCCCC
Q 030630          147 GGDELEDN  154 (174)
Q Consensus       147 k~D~~~~~  154 (174)
                      |+|+.+.+
T Consensus       169 KiD~~~~~  176 (474)
T PRK05124        169 KMDLVDYS  176 (474)
T ss_pred             eeccccch
Confidence            99998543

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.56  E-value=1.2e-13  Score=99.92  Aligned_cols=116  Identities=19%  Similarity=0.117  Sum_probs=75.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccC-------------CCCcceeeE------------------------EEEE
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRAS-------------SSGVTSTCE------------------------MQRT   64 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~-------------~~~~t~~~~------------------------~~~~   64 (174)
                      +++++|+.++|||||++.++.... ..+..             ..+.|....                        ....
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~-~~~~~~~~~~~~~~~~E~~~g~t~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~   79 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGEL-DNGRGKARLNLFRHKHEVESGRTSSVSNEILGFDSDGEVVNYPDNHLSESDIEIC   79 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCc-CCCCCeEEeehhhhhhhhhcCchhhhhhhhcccCCCCceecCCCCccccccceee
Confidence            578999999999999999985322 11100             001111000                        0011


Q ss_pred             EEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEE
Q 030630           65 VLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVV  144 (174)
Q Consensus        65 ~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv  144 (174)
                      .. .+..+.++||||..+       ..+.....+.  ...+|++++|+|+..++...+.+++..+....     .|++++
T Consensus        80 ~~-~~~~i~liDtpG~~~-------~~~~~~~~~~--~~~~D~~llVvda~~g~~~~d~~~l~~l~~~~-----ip~ivv  144 (224)
T cd04165          80 EK-SSKLVTFIDLAGHER-------YLKTTLFGLT--GYAPDYAMLVVAANAGIIGMTKEHLGLALALN-----IPVFVV  144 (224)
T ss_pred             ee-CCcEEEEEECCCcHH-------HHHHHHHhhc--ccCCCEEEEEEECCCCCcHHHHHHHHHHHHcC-----CCEEEE
Confidence            12 456789999999764       2222222211  13689999999998788888888888777653     589999


Q ss_pred             EeCcCCCCC
Q 030630          145 FTGGDELED  153 (174)
Q Consensus       145 ~tk~D~~~~  153 (174)
                      +||+|+...
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

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.56  E-value=2.6e-14  Score=98.16  Aligned_cols=117  Identities=20%  Similarity=0.212  Sum_probs=75.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      +|+++|+.|+|||||++.+.+...........+  ........... ....+.+||++|...           +......
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~--~~~~~~~~~~~~~~~~l~i~D~~g~~~-----------~~~~~~~   67 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIG--IDSYSKEVSIDGKPVNLEIWDTSGQER-----------FDSLRDI   67 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSS--EEEEEEEEEETTEEEEEEEEEETTSGG-----------GHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHhhccccccccccc--ccccccccccccccccccccccccccc-----------ccccccc
Confidence            589999999999999999998763322211111  22222223331 223589999999764           2222234


Q ss_pred             ccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...++|++++|+|.+++-+... ..|+..+.......  .|++++.||.|+...
T Consensus        68 ~~~~~~~~ii~fd~~~~~S~~~~~~~~~~i~~~~~~~--~~iivvg~K~D~~~~  119 (162)
T PF00071_consen   68 FYRNSDAIIIVFDVTDEESFENLKKWLEEIQKYKPED--IPIIVVGNKSDLSDE  119 (162)
T ss_dssp             HHTTESEEEEEEETTBHHHHHTHHHHHHHHHHHSTTT--SEEEEEEETTTGGGG
T ss_pred             ccccccccccccccccccccccccccccccccccccc--ccceeeecccccccc
Confidence            5677899999999984333322 56777777665422  589999999998763

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 ....

>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=99.56  E-value=4.8e-14  Score=97.53  Aligned_cols=115  Identities=19%  Similarity=0.218  Sum_probs=68.3

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCcccccccCCCCccee--------------------------------------------
Q 030630           23 VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTST--------------------------------------------   58 (174)
Q Consensus        23 i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~--------------------------------------------   58 (174)
                      |+++|..++|||||+|+|+|......+.........                                            
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            689999999999999999998754444221100000                                            


Q ss_pred             ---------eEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHH
Q 030630           59 ---------CEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSL  129 (174)
Q Consensus        59 ---------~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l  129 (174)
                               .............+.++||||+.+......       ..+..++..+|++|+|++++..++..+...+...
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                     000001111234589999999976332222       3333344778999999999865665554443322


Q ss_pred             HHHHhhhhcCcEEEEEeCc
Q 030630          130 QTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus       130 ~~~~~~~~~~~~~iv~tk~  148 (174)
                      ...   . ...+++|+||+
T Consensus       154 ~~~---~-~~~~i~V~nk~  168 (168)
T PF00350_consen  154 LDP---D-KSRTIFVLNKA  168 (168)
T ss_dssp             HTT---T-CSSEEEEEE-G
T ss_pred             hcC---C-CCeEEEEEcCC
Confidence            221   1 14688999985

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 ....

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.55  E-value=4e-14  Score=116.34  Aligned_cols=121  Identities=14%  Similarity=0.162  Sum_probs=81.7

Q ss_pred             CCCCceEEEEEcCCCCCHHHHHHHHhCCcccc--------------ccc-----------------CCCCcceeeEEEEE
Q 030630           16 PSNGERTVVLVGRTGNGKSATGNSILGRRAFK--------------SRA-----------------SSSGVTSTCEMQRT   64 (174)
Q Consensus        16 ~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~--------------~~~-----------------~~~~~t~~~~~~~~   64 (174)
                      +..+..+++++|+.++|||||++.|+.....-              .|.                 ...+.|........
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            33445889999999999999999998643210              110                 01234444444555


Q ss_pred             EEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEE
Q 030630           65 VLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVV  144 (174)
Q Consensus        65 ~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv  144 (174)
                      .+ ++..+.++||||+.+       ....+.    .....+|++++|+|+.++....+.+.+..+... +.   ++++++
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 667899999999653       222222    345677999999999877777766666555443 21   478899


Q ss_pred             EeCcCCCC
Q 030630          145 FTGGDELE  152 (174)
Q Consensus       145 ~tk~D~~~  152 (174)
                      +||+|+..
T Consensus       164 vNK~D~~~  171 (632)
T PRK05506        164 VNKMDLVD  171 (632)
T ss_pred             EEeccccc
Confidence            99999975

>PRK09866 hypothetical protein; Provisional

Probab=99.55  E-value=3.4e-13  Score=108.25  Aligned_cols=85  Identities=18%  Similarity=0.243  Sum_probs=58.9

Q ss_pred             cEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcC
Q 030630           70 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGD  149 (174)
Q Consensus        70 ~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D  149 (174)
                      ..+.++||||+....  ...+.+.+.+    .+..+|+|+||+|+....+..+...++.+++. ++.  .|+++|+||+|
T Consensus       230 ~QIIFVDTPGIhk~~--~~~L~k~M~e----qL~eADvVLFVVDat~~~s~~DeeIlk~Lkk~-~K~--~PVILVVNKID  300 (741)
T PRK09866        230 GQLTLLDTPGPNEAG--QPHLQKMLNQ----QLARASAVLAVLDYTQLKSISDEEVREAILAV-GQS--VPLYVLVNKFD  300 (741)
T ss_pred             CCEEEEECCCCCCcc--chHHHHHHHH----HHhhCCEEEEEEeCCCCCChhHHHHHHHHHhc-CCC--CCEEEEEEccc
Confidence            457999999998632  1223334444    35667999999999866888888888777764 211  38999999999


Q ss_pred             CCCCC---hhhHHHHhc
Q 030630          150 ELEDN---DETLEDYLG  163 (174)
Q Consensus       150 ~~~~~---~~~~~~~~~  163 (174)
                      ..+..   .+.+.++++
T Consensus       301 l~dreeddkE~Lle~V~  317 (741)
T PRK09866        301 QQDRNSDDADQVRALIS  317 (741)
T ss_pred             CCCcccchHHHHHHHHH
Confidence            97532   134555554

>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=99.54  E-value=6.3e-14  Score=99.70  Aligned_cols=109  Identities=17%  Similarity=0.054  Sum_probs=72.8

Q ss_pred             EcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEE--EEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhcc
Q 030630           26 VGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ--RTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAK  102 (174)
Q Consensus        26 ~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~--~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~  102 (174)
                      +|..|+|||||++.++..... ..   ...|....+.  .+.+. ....+.+|||||...           +......++
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~-~~---~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~-----------~~~l~~~~~   65 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFE-KK---YVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEK-----------FGGLRDGYY   65 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCC-CC---CCCceeEEEEEEEEEECCEEEEEEEEECCCchh-----------hhhhhHHHh
Confidence            599999999999999865432 11   1223322222  22221 235789999999876           344444567


Q ss_pred             CCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630          103 DGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus       103 ~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      ..+|++++|+|.+++.+... ..|++.+.+.. .  ..|+++|.||+|+..
T Consensus        66 ~~ad~~ilV~D~t~~~S~~~i~~w~~~i~~~~-~--~~piilvgNK~Dl~~  113 (200)
T smart00176       66 IQGQCAIIMFDVTARVTYKNVPNWHRDLVRVC-E--NIPIVLCGNKVDVKD  113 (200)
T ss_pred             cCCCEEEEEEECCChHHHHHHHHHHHHHHHhC-C--CCCEEEEEECccccc
Confidence            88899999999986544443 45666666643 2  259999999999854

Ran is involved in the active transport of proteins through nuclear pores.

>PRK13351 elongation factor G; Reviewed

Probab=99.54  E-value=8.1e-14  Score=115.63  Aligned_cols=119  Identities=18%  Similarity=0.229  Sum_probs=83.8

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCccc--ccc--------------cCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCC
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAF--KSR--------------ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   82 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~--~~~--------------~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~   82 (174)
                      ..++|+++|+.|+|||||+++|+.....  ..+              ....+.|.........| ++..+.+|||||..+
T Consensus         7 ~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~-~~~~i~liDtPG~~d   85 (687)
T PRK13351          7 QIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDW-DNHRINLIDTPGHID   85 (687)
T ss_pred             cccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEE-CCEEEEEEECCCcHH
Confidence            4489999999999999999999753210  000              01134455555566667 778999999999875


Q ss_pred             CCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630           83 FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                                 +...+..++..+|++++|+|++++....+...++.+...   .  .|+++++||+|+...+
T Consensus        86 -----------f~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~~~~~~~---~--~p~iiviNK~D~~~~~  141 (687)
T PRK13351         86 -----------FTGEVERSLRVLDGAVVVFDAVTGVQPQTETVWRQADRY---G--IPRLIFINKMDRVGAD  141 (687)
T ss_pred             -----------HHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhc---C--CCEEEEEECCCCCCCC
Confidence                       222333455666999999999877777766666554443   2  6899999999998753

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.54  E-value=9.3e-14  Score=93.24  Aligned_cols=113  Identities=21%  Similarity=0.206  Sum_probs=69.8

Q ss_pred             EEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe---CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhc
Q 030630           25 LVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK---DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  101 (174)
Q Consensus        25 i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~---~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~  101 (174)
                      ++|++|+|||||+|++.+.......   ...|. .........   ....+.++|+||....           .......
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~---~~~t~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~-----------~~~~~~~   65 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEE---YETTI-IDFYSKTIEVDGKKVKLQIWDTAGQERF-----------RSLRRLY   65 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcc---cccch-hheeeEEEEECCEEEEEEEEecCChHHH-----------HhHHHHH
Confidence            5799999999999999987652111   11222 222222221   2457899999998762           1222345


Q ss_pred             cCCceEEEEEEeCCCCCCHHHHHHH--HHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630          102 KDGIHAVLVVFSVRSRFSQEEEAAL--HSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus       102 ~~~~~~il~v~~~~~~~~~~~~~~l--~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      ...+|++++|+|+++..........  ..+...  .....|+++++||+|+....
T Consensus        66 ~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~--~~~~~~~ivv~nk~D~~~~~  118 (157)
T cd00882          66 YRGADGIILVYDVTDRESFENVKEWLLLILINK--EGENIPIILVGNKIDLPEER  118 (157)
T ss_pred             hcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhh--ccCCCcEEEEEecccccccc
Confidence            6778999999999854333332221  112221  22336999999999997653

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=99.54  E-value=5e-15  Score=102.68  Aligned_cols=120  Identities=15%  Similarity=0.245  Sum_probs=69.0

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEE--eCCcEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL--KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      ...++++|++|||||+|+..|........- ++.    ..+. ....  .....+.++|+||..+-.       ..+.+.
T Consensus         3 ~~~vlL~Gps~SGKTaLf~~L~~~~~~~T~-tS~----e~n~-~~~~~~~~~~~~~lvD~PGH~rlr-------~~~~~~   69 (181)
T PF09439_consen    3 RPTVLLVGPSGSGKTALFSQLVNGKTVPTV-TSM----ENNI-AYNVNNSKGKKLRLVDIPGHPRLR-------SKLLDE   69 (181)
T ss_dssp             --EEEEE-STTSSHHHHHHHHHHSS---B----S----SEEE-ECCGSSTCGTCECEEEETT-HCCC-------HHHHHH
T ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCcCCee-ccc----cCCc-eEEeecCCCCEEEEEECCCcHHHH-------HHHHHh
Confidence            468999999999999999999876432111 111    1111 1111  135678999999998722       122222


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhh----hcCcEEEEEeCcCCCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK----IFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~----~~~~~~iv~tk~D~~~~~  154 (174)
                      .. ....+.+|+||+|.+ .....-++..+.|.+.+...    ...|++|+.||.|+....
T Consensus        70 ~~-~~~~~k~IIfvvDSs-~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A~  128 (181)
T PF09439_consen   70 LK-YLSNAKGIIFVVDSS-TDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTAK  128 (181)
T ss_dssp             HH-HHGGEEEEEEEEETT-THHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT--
T ss_pred             hh-chhhCCEEEEEEeCc-cchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCccccccC
Confidence            11 244579999999987 44344455555555554432    235899999999998753

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.

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.54  E-value=1.3e-13  Score=111.98  Aligned_cols=115  Identities=18%  Similarity=0.207  Sum_probs=74.9

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEE--EEEEe---------------CCcEEEEEeCCCCC
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ--RTVLK---------------DGQVVNVIDTPGLF   81 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~--~~~~~---------------~~~~~~~iDtpG~~   81 (174)
                      +.+.|+++|+.++|||||+++|.+.......  ..+.|......  ...+.               +-..+.++||||+.
T Consensus         5 R~p~V~i~Gh~~~GKTSLl~~l~~~~v~~~~--~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~e   82 (586)
T PRK04004          5 RQPIVVVLGHVDHGKTTLLDKIRGTAVAAKE--AGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGHE   82 (586)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCcccccCC--CCceEEeeceeeccccccccccceeccccccccccCCEEEEECCChH
Confidence            4578999999999999999999886532211  11111111111  00000               00126899999987


Q ss_pred             CCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCC
Q 030630           82 DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  151 (174)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~  151 (174)
                      ++           .......+..+|++++|+|+++++...+.+.+..+...     ..|+++++||+|+.
T Consensus        83 ~f-----------~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~~~~~-----~vpiIvviNK~D~~  136 (586)
T PRK04004         83 AF-----------TNLRKRGGALADIAILVVDINEGFQPQTIEAINILKRR-----KTPFVVAANKIDRI  136 (586)
T ss_pred             HH-----------HHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHHHHHc-----CCCEEEEEECcCCc
Confidence            62           22222345667999999999877878877777655442     25899999999985

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.53  E-value=1.1e-13  Score=109.29  Aligned_cols=116  Identities=19%  Similarity=0.229  Sum_probs=79.9

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcc--c---------------------------ccccCCCCcceeeEEEEEEEeCC
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRA--F---------------------------KSRASSSGVTSTCEMQRTVLKDG   69 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~--~---------------------------~~~~~~~~~t~~~~~~~~~~~~~   69 (174)
                      +..+++++|+.++|||||+..|+....  .                           ...+...+.|.........+ ++
T Consensus         6 ~~~nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~~~-~~   84 (446)
T PTZ00141          6 THINLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKFET-PK   84 (446)
T ss_pred             ceEEEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEEcc-CC
Confidence            347899999999999999998864210  0                           00112235566665566666 67


Q ss_pred             cEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCC-------CHHHHHHHHHHHHHHhhhhcCcEE
Q 030630           70 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRF-------SQEEEAALHSLQTLFGKKIFDYMI  142 (174)
Q Consensus        70 ~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~-------~~~~~~~l~~l~~~~~~~~~~~~~  142 (174)
                      ..+.++||||+.+           +.......+..+|++++|+|+.++.       ...+++.+..+... +.   ++++
T Consensus        85 ~~i~lIDtPGh~~-----------f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~~-gi---~~ii  149 (446)
T PTZ00141         85 YYFTIIDAPGHRD-----------FIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFTL-GV---KQMI  149 (446)
T ss_pred             eEEEEEECCChHH-----------HHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHHc-CC---CeEE
Confidence            7899999999775           4444444566789999999998664       35667776655543 22   3578


Q ss_pred             EEEeCcCC
Q 030630          143 VVFTGGDE  150 (174)
Q Consensus       143 iv~tk~D~  150 (174)
                      +++||+|.
T Consensus       150 v~vNKmD~  157 (446)
T PTZ00141        150 VCINKMDD  157 (446)
T ss_pred             EEEEcccc
Confidence            99999995

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=99.53  E-value=1.9e-13  Score=102.67  Aligned_cols=134  Identities=22%  Similarity=0.368  Sum_probs=90.7

Q ss_pred             CCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc----cCC--CCcceeeEEEEEEEeCC---cEEEEEeCCCCCCCCC
Q 030630           15 SPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR----ASS--SGVTSTCEMQRTVLKDG---QVVNVIDTPGLFDFSA   85 (174)
Q Consensus        15 ~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~----~~~--~~~t~~~~~~~~~~~~~---~~~~~iDtpG~~~~~~   85 (174)
                      ...|-..+++++|++|.|||||+|+|++...-...    ...  ...+............+   ..+.++|||||.++..
T Consensus        18 ~k~Gi~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD~id   97 (373)
T COG5019          18 SKKGIDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGDFID   97 (373)
T ss_pred             HhcCCceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCcccccc
Confidence            44466689999999999999999999987432221    111  12333333333333222   3689999999998655


Q ss_pred             ChH-------HHHHHHHHHHH----------hccCCceEEEEEEeC-CCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeC
Q 030630           86 GSE-------FVGKEIVKCIG----------MAKDGIHAVLVVFSV-RSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTG  147 (174)
Q Consensus        86 ~~~-------~~~~~~~~~~~----------~~~~~~~~il~v~~~-~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk  147 (174)
                      ...       .+..++..++.          ....++|++||.+.. ..++.+.+.+.|+.|.+..      ++|-|+.|
T Consensus        98 Ns~~we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptgh~l~~~DIe~Mk~ls~~v------NlIPVI~K  171 (373)
T COG5019          98 NSKCWEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTGHGLKPLDIEAMKRLSKRV------NLIPVIAK  171 (373)
T ss_pred             ccccHHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCCCCCCCHHHHHHHHHHhccc------Ceeeeeec
Confidence            322       11222332221          124568999999976 4479999999999888875      89999999


Q ss_pred             cCCCCCC
Q 030630          148 GDELEDN  154 (174)
Q Consensus       148 ~D~~~~~  154 (174)
                      +|.+..+
T Consensus       172 aD~lT~~  178 (373)
T COG5019         172 ADTLTDD  178 (373)
T ss_pred             cccCCHH
Confidence            9999873

>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=99.53  E-value=1.5e-13  Score=95.81  Aligned_cols=122  Identities=16%  Similarity=0.119  Sum_probs=89.9

Q ss_pred             CCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHH
Q 030630           17 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIV   95 (174)
Q Consensus        17 ~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~   95 (174)
                      .....+++++|.+|+|||+++-.+........-.  ...........+... ....+.+|||.|..+           ++
T Consensus         9 ~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~--sTiGIDFk~kti~l~g~~i~lQiWDtaGQer-----------f~   75 (207)
T KOG0078|consen    9 YDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFI--STIGIDFKIKTIELDGKKIKLQIWDTAGQER-----------FR   75 (207)
T ss_pred             cceEEEEEEECCCCCchhHhhhhhhhccCcCCcc--ceEEEEEEEEEEEeCCeEEEEEEEEcccchh-----------HH
Confidence            3344899999999999999999988776432222  222333334444441 123579999999998           77


Q ss_pred             HHHHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           96 KCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        96 ~~~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .....++++|+++++|+|.++.-+.+. ..|++.+.+.....  .+.++|.||+|....
T Consensus        76 ti~~sYyrgA~gi~LvyDitne~Sfeni~~W~~~I~e~a~~~--v~~~LvGNK~D~~~~  132 (207)
T KOG0078|consen   76 TITTAYYRGAMGILLVYDITNEKSFENIRNWIKNIDEHASDD--VVKILVGNKCDLEEK  132 (207)
T ss_pred             HHHHHHHhhcCeeEEEEEccchHHHHHHHHHHHHHHhhCCCC--CcEEEeecccccccc
Confidence            777788899999999999986555554 67999999976554  589999999999764

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.53  E-value=1.3e-13  Score=108.65  Aligned_cols=118  Identities=20%  Similarity=0.278  Sum_probs=77.8

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCccc-c-------------c---------------ccCCCCcceeeEEEEEEEeCC
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAF-K-------------S---------------RASSSGVTSTCEMQRTVLKDG   69 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~-~-------------~---------------~~~~~~~t~~~~~~~~~~~~~   69 (174)
                      +..+++++|+.++|||||++.|+..... .             .               .....+.|.......+.+ .+
T Consensus         6 ~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~-~~   84 (426)
T TIGR00483         6 EHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFET-DK   84 (426)
T ss_pred             ceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEcc-CC
Confidence            3478999999999999999999742110 0             0               011235566666666665 56


Q ss_pred             cEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCC---CCHHHHHHHHHHHHHHhhhhcCcEEEEEe
Q 030630           70 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSR---FSQEEEAALHSLQTLFGKKIFDYMIVVFT  146 (174)
Q Consensus        70 ~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~---~~~~~~~~l~~l~~~~~~~~~~~~~iv~t  146 (174)
                      ..+.++||||+.+           +.......+..+|++++|+|++++   ........+.... ..+   .+++++++|
T Consensus        85 ~~i~iiDtpGh~~-----------f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~~-~~~---~~~iIVviN  149 (426)
T TIGR00483        85 YEVTIVDCPGHRD-----------FIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLAR-TLG---INQLIVAIN  149 (426)
T ss_pred             eEEEEEECCCHHH-----------HHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHHH-HcC---CCeEEEEEE
Confidence            7899999999654           333333345678999999999866   3333333333232 222   147899999


Q ss_pred             CcCCCC
Q 030630          147 GGDELE  152 (174)
Q Consensus       147 k~D~~~  152 (174)
                      |+|+..
T Consensus       150 K~Dl~~  155 (426)
T TIGR00483       150 KMDSVN  155 (426)
T ss_pred             ChhccC
Confidence            999975

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.

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.53  E-value=2.3e-13  Score=97.91  Aligned_cols=117  Identities=20%  Similarity=0.097  Sum_probs=71.2

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEE---eCCcEEEEEeCCCCCCCCCChHHHHHHHH
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL---KDGQVVNVIDTPGLFDFSAGSEFVGKEIV   95 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~~~~iDtpG~~~~~~~~~~~~~~~~   95 (174)
                      ...+++++|++|||||||++.++........    ..|....+....+   .....+.++||+|....           .
T Consensus         8 ~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~----~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~-----------~   72 (215)
T PTZ00132          8 PEFKLILVGDGGVGKTTFVKRHLTGEFEKKY----IPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKF-----------G   72 (215)
T ss_pred             CCceEEEECCCCCCHHHHHHHHHhCCCCCCC----CCccceEEEEEEEEECCeEEEEEEEECCCchhh-----------h
Confidence            3478999999999999999654433221111    1222222222211   12346789999997542           2


Q ss_pred             HHHHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           96 KCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        96 ~~~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ......+..++++++|+|.+++.+... ..++..+.... .  ..|++++.||+|+...
T Consensus        73 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~--~~~i~lv~nK~Dl~~~  128 (215)
T PTZ00132         73 GLRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVRVC-E--NIPIVLVGNKVDVKDR  128 (215)
T ss_pred             hhhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhC-C--CCCEEEEEECccCccc
Confidence            222334567799999999985554443 45555555442 2  2588899999998543

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.53  E-value=2.3e-13  Score=110.76  Aligned_cols=118  Identities=20%  Similarity=0.253  Sum_probs=78.1

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCccc------cccc-------CCCCcceeeEEEEEEEe--C--CcEEEEEeCCCCCC
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAF------KSRA-------SSSGVTSTCEMQRTVLK--D--GQVVNVIDTPGLFD   82 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~------~~~~-------~~~~~t~~~~~~~~~~~--~--~~~~~~iDtpG~~~   82 (174)
                      -++++++|+.++|||||+++|+.....      ....       ...+.|.........|.  +  ...+.+|||||+.+
T Consensus         3 iRNi~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~d   82 (595)
T TIGR01393         3 IRNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVD   82 (595)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHH
Confidence            378999999999999999999864210      0100       11245555444445442  1  25689999999986


Q ss_pred             CCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           83 FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      +           ...+..++..+|++++|+|++++....+...+..+.+   ..  .|+++++||+|+...
T Consensus        83 F-----------~~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~---~~--ipiIiViNKiDl~~~  137 (595)
T TIGR01393        83 F-----------SYEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALE---ND--LEIIPVINKIDLPSA  137 (595)
T ss_pred             H-----------HHHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHH---cC--CCEEEEEECcCCCcc
Confidence            2           2223334556799999999987777776554433332   12  589999999998654

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.

>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.53  E-value=3.8e-13  Score=101.61  Aligned_cols=137  Identities=20%  Similarity=0.252  Sum_probs=91.8

Q ss_pred             ccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccc-----ccCCCCcceeeEEEEEEEeC---CcEEEEEeCCCCCCC
Q 030630           12 ELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKS-----RASSSGVTSTCEMQRTVLKD---GQVVNVIDTPGLFDF   83 (174)
Q Consensus        12 ~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~-----~~~~~~~t~~~~~~~~~~~~---~~~~~~iDtpG~~~~   83 (174)
                      ......|-...+.++|++|.|||||+|+|++......     .......|............   ..++.++|||||.++
T Consensus        13 r~~~KkG~~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD~   92 (366)
T KOG2655|consen   13 RKSVKKGFDFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGDA   92 (366)
T ss_pred             HHHHhcCCceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCccc
Confidence            3445566668999999999999999999988743211     11111123333333333312   236899999999986


Q ss_pred             CCCh-------HHHHHHHHHHHHh---------ccCCceEEEEEEeCC-CCCCHHHHHHHHHHHHHHhhhhcCcEEEEEe
Q 030630           84 SAGS-------EFVGKEIVKCIGM---------AKDGIHAVLVVFSVR-SRFSQEEEAALHSLQTLFGKKIFDYMIVVFT  146 (174)
Q Consensus        84 ~~~~-------~~~~~~~~~~~~~---------~~~~~~~il~v~~~~-~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~t  146 (174)
                      ....       +.+..++..++..         .-.++|++||.+..+ .++.+.+...++.+....      +++-|+.
T Consensus        93 vdns~~w~pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~ghgL~p~Di~~Mk~l~~~v------NiIPVI~  166 (366)
T KOG2655|consen   93 VDNSNCWRPIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPTGHGLKPLDIEFMKKLSKKV------NLIPVIA  166 (366)
T ss_pred             ccccccchhhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCCCCCCcHhhHHHHHHHhccc------cccceee
Confidence            5532       1223334433322         123789999999874 369999999999888875      8899999


Q ss_pred             CcCCCCCC
Q 030630          147 GGDELEDN  154 (174)
Q Consensus       147 k~D~~~~~  154 (174)
                      |+|.+.++
T Consensus       167 KaD~lT~~  174 (366)
T KOG2655|consen  167 KADTLTKD  174 (366)
T ss_pred             ccccCCHH
Confidence            99999873

>KOG0098 consensus GTPase Rab2, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.52  E-value=2.7e-13  Score=92.64  Aligned_cols=120  Identities=15%  Similarity=0.133  Sum_probs=87.3

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEE-eCCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      ..++.++|..|+|||.|+...+.....+.-..+.+  .+.....+.. .++.++.+|||.|+..           ++...
T Consensus         6 ~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiG--vefg~r~~~id~k~IKlqiwDtaGqe~-----------frsv~   72 (216)
T KOG0098|consen    6 LFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIG--VEFGARMVTIDGKQIKLQIWDTAGQES-----------FRSVT   72 (216)
T ss_pred             eEEEEEECCCCccHHHHHHHHhccCccccccceee--eeeceeEEEEcCceEEEEEEecCCcHH-----------HHHHH
Confidence            37899999999999999999998774322222222  2222222222 1345789999999987           77888


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      +.+++.+.++|+|.|.+.+-+... ..||..+++...+.  .-++++.||+|+....
T Consensus        73 ~syYr~a~GalLVydit~r~sF~hL~~wL~D~rq~~~~N--mvImLiGNKsDL~~rR  127 (216)
T KOG0098|consen   73 RSYYRGAAGALLVYDITRRESFNHLTSWLEDARQHSNEN--MVIMLIGNKSDLEARR  127 (216)
T ss_pred             HHHhccCcceEEEEEccchhhHHHHHHHHHHHHHhcCCC--cEEEEEcchhhhhccc
Confidence            889999999999999986655554 78888888875333  4688999999997543

>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]

Probab=99.52  E-value=5.5e-13  Score=89.27  Aligned_cols=114  Identities=15%  Similarity=0.212  Sum_probs=89.3

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      +.||+++|..||||||+++.+.+...     ....+|...+.....+ +...+.++|.-|...           ++++++
T Consensus        16 E~riLiLGLdNsGKTti~~kl~~~~~-----~~i~pt~gf~Iktl~~-~~~~L~iwDvGGq~~-----------lr~~W~   78 (185)
T KOG0073|consen   16 EVRILILGLDNSGKTTIVKKLLGEDT-----DTISPTLGFQIKTLEY-KGYTLNIWDVGGQKT-----------LRSYWK   78 (185)
T ss_pred             eeEEEEEecCCCCchhHHHHhcCCCc-----cccCCccceeeEEEEe-cceEEEEEEcCCcch-----------hHHHHH
Confidence            58999999999999999999999762     3455677777888877 889999999999887           889999


Q ss_pred             hccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhh-hh-cCcEEEEEeCcCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK-KI-FDYMIVVFTGGDELE  152 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~-~~-~~~~~iv~tk~D~~~  152 (174)
                      .++...|++++|+|.+++.-.+  +....+++.+.. +. ..+++++.||.|+..
T Consensus        79 nYfestdglIwvvDssD~~r~~--e~~~~L~~lL~eerlaG~~~Lvlank~dl~~  131 (185)
T KOG0073|consen   79 NYFESTDGLIWVVDSSDRMRMQ--ECKQELTELLVEERLAGAPLLVLANKQDLPG  131 (185)
T ss_pred             HhhhccCeEEEEEECchHHHHH--HHHHHHHHHHhhhhhcCCceEEEEecCcCcc
Confidence            9999999999999987543333  233334444433 22 258999999999973

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

Probab=99.51  E-value=2.6e-13  Score=89.59  Aligned_cols=118  Identities=18%  Similarity=0.194  Sum_probs=87.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .+|+++|..|+|||.|++.++....|++.....+...-  +..++.. .+..+.+|||.|..+           ++.+..
T Consensus         8 fkivlvgnagvgktclvrrftqglfppgqgatigvdfm--iktvev~gekiklqiwdtagqer-----------frsitq   74 (213)
T KOG0095|consen    8 FKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFM--IKTVEVNGEKIKLQIWDTAGQER-----------FRSITQ   74 (213)
T ss_pred             EEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEE--EEEEEECCeEEEEEEeeccchHH-----------HHHHHH
Confidence            68999999999999999999987755443222222211  2222321 245689999999987           777777


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..++.+|+++++.|.+...+... .+|+..|.++...++  -.++|.||.|+.+.
T Consensus        75 syyrsahalilvydiscqpsfdclpewlreie~yan~kv--lkilvgnk~d~~dr  127 (213)
T KOG0095|consen   75 SYYRSAHALILVYDISCQPSFDCLPEWLREIEQYANNKV--LKILVGNKIDLADR  127 (213)
T ss_pred             HHhhhcceEEEEEecccCcchhhhHHHHHHHHHHhhcce--EEEeeccccchhhh
Confidence            78888999999999986666655 899999999876553  56899999999765

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.50  E-value=3.2e-13  Score=105.79  Aligned_cols=124  Identities=15%  Similarity=0.236  Sum_probs=78.4

Q ss_pred             CCCCCceEEEEEcCCCCCHHHHHHHHhCCccc-ccccCCCCcceeeEEEEEEEe-------------------------C
Q 030630           15 SPSNGERTVVLVGRTGNGKSATGNSILGRRAF-KSRASSSGVTSTCEMQRTVLK-------------------------D   68 (174)
Q Consensus        15 ~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~-~~~~~~~~~t~~~~~~~~~~~-------------------------~   68 (174)
                      ....+..+++++|+.++|||||+.+|++.... ...+...+.|....+....+.                         .
T Consensus         4 ~~~~~~~ni~v~Gh~d~GKSTL~~~L~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (411)
T PRK04000          4 EKVQPEVNIGMVGHVDHGKTTLVQALTGVWTDRHSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETEL   83 (411)
T ss_pred             ccCCCcEEEEEEccCCCCHHHHHHHhhCeecccCHhHHhcCcEEEecccccccccccccCcccccccccccccccccccc
Confidence            34455689999999999999999999774211 011112334443332111110                         0


Q ss_pred             CcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCC-CHHHHHHHHHHHHHHhhhhcCcEEEEEeC
Q 030630           69 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRF-SQEEEAALHSLQTLFGKKIFDYMIVVFTG  147 (174)
Q Consensus        69 ~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~-~~~~~~~l~~l~~~~~~~~~~~~~iv~tk  147 (174)
                      ...+.++||||..+           +...+......+|++++|+|++++. ...+...+..+... +   .+++++|+||
T Consensus        84 ~~~i~liDtPG~~~-----------f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~~l~~~-~---i~~iiVVlNK  148 (411)
T PRK04000         84 LRRVSFVDAPGHET-----------LMATMLSGAALMDGAILVIAANEPCPQPQTKEHLMALDII-G---IKNIVIVQNK  148 (411)
T ss_pred             ccEEEEEECCCHHH-----------HHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHHHHHHHc-C---CCcEEEEEEe
Confidence            25789999999653           3333333445679999999998665 56666666555432 2   1468999999


Q ss_pred             cCCCCC
Q 030630          148 GDELED  153 (174)
Q Consensus       148 ~D~~~~  153 (174)
                      +|+...
T Consensus       149 ~Dl~~~  154 (411)
T PRK04000        149 IDLVSK  154 (411)
T ss_pred             eccccc
Confidence            999864

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.50  E-value=4.7e-13  Score=109.05  Aligned_cols=118  Identities=19%  Similarity=0.243  Sum_probs=77.8

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCccc-cc---c---------cCCCCcceeeEEEEEEEe----CCcEEEEEeCCCCCC
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAF-KS---R---------ASSSGVTSTCEMQRTVLK----DGQVVNVIDTPGLFD   82 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~-~~---~---------~~~~~~t~~~~~~~~~~~----~~~~~~~iDtpG~~~   82 (174)
                      -+.++++|+.++|||||+.+|+..... ..   +         +...+.|.........|.    +...+.+|||||+.+
T Consensus         7 iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~d   86 (600)
T PRK05433          7 IRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGHVD   86 (600)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCcHH
Confidence            478999999999999999999753211 00   0         112244544444444442    145789999999987


Q ss_pred             CCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           83 FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      +           ...+..++..+|++++|+|++++....+...+..+..   ..  .|+++|+||+|+...
T Consensus        87 F-----------~~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~~---~~--lpiIvViNKiDl~~a  141 (600)
T PRK05433         87 F-----------SYEVSRSLAACEGALLVVDASQGVEAQTLANVYLALE---ND--LEIIPVLNKIDLPAA  141 (600)
T ss_pred             H-----------HHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH---CC--CCEEEEEECCCCCcc
Confidence            2           2222334456699999999987777766555443332   12  589999999998654

>cd04129 Rho2 Rho2 subfamily

Probab=99.49  E-value=3.6e-13  Score=94.85  Aligned_cols=113  Identities=19%  Similarity=0.161  Sum_probs=70.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeE-EEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCE-MQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~-~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      .+++++|++|+|||||++.+.........    ..|.... ...... .+  ..+.++||||......           .
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~~~----~~t~~~~~~~~~~~-~~~~~~l~i~Dt~g~~~~~~-----------~   65 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLGEFPEEY----HPTVFENYVTDCRV-DGKPVQLALWDTAGQEEYER-----------L   65 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCccc----CCcccceEEEEEEE-CCEEEEEEEEECCCChhccc-----------c
Confidence            58999999999999999999854432211    1121111 112222 22  3468999999765321           1


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHH--HHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~--~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      ....+..+|+++++++.++.-+...  ..|++.+..... .  .|+++|.||+|+..
T Consensus        66 ~~~~~~~a~~~llv~~i~~~~s~~~~~~~~~~~i~~~~~-~--~piilvgnK~Dl~~  119 (187)
T cd04129          66 RPLSYSKAHVILIGFAVDTPDSLENVRTKWIEEVRRYCP-N--VPVILVGLKKDLRQ  119 (187)
T ss_pred             chhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC-C--CCEEEEeeChhhhh
Confidence            1123567899999999874332222  346666665432 2  69999999999854

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).

>KOG0080 consensus GTPase Rab18, small G protein superfamily [General function prediction only]

Probab=99.49  E-value=2.9e-13  Score=90.40  Aligned_cols=118  Identities=17%  Similarity=0.129  Sum_probs=82.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .+|+++|.+|+|||||+-.+.....-+......+.........+.- +...+.+|||+|..+           ++.....
T Consensus        12 ~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg-~~~KlaiWDTAGqEr-----------FRtLTpS   79 (209)
T KOG0080|consen   12 FKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDG-KRLKLAIWDTAGQER-----------FRTLTPS   79 (209)
T ss_pred             EEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcC-ceEEEEEEeccchHh-----------hhccCHh
Confidence            8899999999999999999887653222222223233333333322 456789999999998           6666677


Q ss_pred             ccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDEL  151 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~  151 (174)
                      +++++.++|+|.|.+.+-+... .-|++.+..+...+. .-.++|.||+|.-
T Consensus        80 yyRgaqGiIlVYDVT~Rdtf~kLd~W~~Eld~Ystn~d-iikmlVgNKiDke  130 (209)
T KOG0080|consen   80 YYRGAQGIILVYDVTSRDTFVKLDIWLKELDLYSTNPD-IIKMLVGNKIDKE  130 (209)
T ss_pred             HhccCceeEEEEEccchhhHHhHHHHHHHHHhhcCCcc-HhHhhhcccccch
Confidence            8999999999999985443333 567777777754431 2346899999975

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.48  E-value=3.3e-13  Score=105.61  Aligned_cols=120  Identities=16%  Similarity=0.224  Sum_probs=75.4

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccc-cccCCCCcceeeEEEEEE--------------E-----------eCCcEE
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFK-SRASSSGVTSTCEMQRTV--------------L-----------KDGQVV   72 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~-~~~~~~~~t~~~~~~~~~--------------~-----------~~~~~~   72 (174)
                      +..+|+++|+.++|||||+++|++..... ......+.|....+....              .           .....+
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            34789999999999999999998742111 001111222222211110              0           013578


Q ss_pred             EEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCC-CHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCC
Q 030630           73 NVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRF-SQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  151 (174)
Q Consensus        73 ~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~-~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~  151 (174)
                      .++||||..+           +...+...+..+|++++|+|++++. ...+.+.+..+... +.   +++++++||+|+.
T Consensus        83 ~liDtPGh~~-----------f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~~~-gi---~~iIVvvNK~Dl~  147 (406)
T TIGR03680        83 SFVDAPGHET-----------LMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMALEII-GI---KNIVIVQNKIDLV  147 (406)
T ss_pred             EEEECCCHHH-----------HHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHHHHc-CC---CeEEEEEEccccC
Confidence            9999999764           2233333445679999999998665 55666666655332 21   4789999999997


Q ss_pred             CC
Q 030630          152 ED  153 (174)
Q Consensus       152 ~~  153 (174)
                      ..
T Consensus       148 ~~  149 (406)
T TIGR03680       148 SK  149 (406)
T ss_pred             CH
Confidence            64

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>PTZ00416 elongation factor 2; Provisional

Probab=99.48  E-value=3.1e-13  Score=113.88  Aligned_cols=119  Identities=17%  Similarity=0.203  Sum_probs=82.4

Q ss_pred             CCCceEEEEEcCCCCCHHHHHHHHhCCcccc----cc----------cCCCCcceeeEEEEEEEe---------CCcEEE
Q 030630           17 SNGERTVVLVGRTGNGKSATGNSILGRRAFK----SR----------ASSSGVTSTCEMQRTVLK---------DGQVVN   73 (174)
Q Consensus        17 ~~~~~~i~i~G~~g~GKStlin~l~~~~~~~----~~----------~~~~~~t~~~~~~~~~~~---------~~~~~~   73 (174)
                      ..+.++|+++|+.++|||||+++|+......    .+          ....+.|.........|.         ++..+.
T Consensus        16 ~~~irni~iiGh~d~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~i~   95 (836)
T PTZ00416         16 PDQIRNMSVIAHVDHGKSTLTDSLVCKAGIISSKNAGDARFTDTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFLIN   95 (836)
T ss_pred             ccCcCEEEEECCCCCCHHHHHHHHHHhcCCcccccCCceeecccchhhHhhcceeeccceEEEeecccccccCCCceEEE
Confidence            4455899999999999999999998632110    00          011133333333333442         145689


Q ss_pred             EEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCC
Q 030630           74 VIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  151 (174)
Q Consensus        74 ~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~  151 (174)
                      ++||||+.+           +...+..+...+|++++|+|+.+++...+...++.+.+..     .|+++++||+|+.
T Consensus        96 liDtPG~~~-----------f~~~~~~al~~~D~ailVvda~~g~~~~t~~~~~~~~~~~-----~p~iv~iNK~D~~  157 (836)
T PTZ00416         96 LIDSPGHVD-----------FSSEVTAALRVTDGALVVVDCVEGVCVQTETVLRQALQER-----IRPVLFINKVDRA  157 (836)
T ss_pred             EEcCCCHHh-----------HHHHHHHHHhcCCeEEEEEECCCCcCccHHHHHHHHHHcC-----CCEEEEEEChhhh
Confidence            999999986           3333444567779999999998889888887776665542     5899999999997

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.48  E-value=7.5e-13  Score=95.30  Aligned_cols=117  Identities=17%  Similarity=0.149  Sum_probs=82.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEE-eC--CcEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KD--GQVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~-~~--~~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      .+|+++|+.|+|||||++++.+........    .|.......... ..  ...+.+|||+|+.+           +...
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~~~~~~~----~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~-----------~~~~   70 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDEFPEGYP----PTIGNLDPAKTIEPYRRNIKLQLWDTAGQEE-----------YRSL   70 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCcCcccCC----CceeeeeEEEEEEeCCCEEEEEeecCCCHHH-----------HHHH
Confidence            799999999999999999999887543321    222222222211 11  34578999999987           6677


Q ss_pred             HHhccCCceEEEEEEeCCC--CCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRS--RFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~--~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      +...+.++++++++++...  +.......+...+.......  .+++++.||+|+....
T Consensus        71 ~~~y~~~~~~~l~~~d~~~~~~~~~~~~~~~~~l~~~~~~~--~~iilv~nK~Dl~~~~  127 (219)
T COG1100          71 RPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDD--VPILLVGNKIDLFDEQ  127 (219)
T ss_pred             HHHHhcCCCEEEEEEecccchhhhHHHHHHHHHHHHhCCCC--ceEEEEecccccccch
Confidence            7778899999999998873  33333466666666654322  5899999999998763

>cd01882 BMS1 Bms1

Probab=99.47  E-value=2.9e-12  Score=92.82  Aligned_cols=111  Identities=19%  Similarity=0.143  Sum_probs=73.4

Q ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      .+...|+++|++|+|||||+|.|++....... .....+.    . .....+..+.++||||..          ..+.+.
T Consensus        37 ~~~~~i~ivG~~~~GKstl~~~l~~~~~~~~~-~~~~g~i----~-i~~~~~~~i~~vDtPg~~----------~~~l~~  100 (225)
T cd01882          37 PPPLVVAVVGPPGVGKTTLIKSLVKNYTKQNI-SDIKGPI----T-VVTGKKRRLTFIECPNDI----------NAMIDI  100 (225)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhcccCcc-ccccccE----E-EEecCCceEEEEeCCchH----------HHHHHH
Confidence            34478999999999999999999875321111 1111111    1 111256788999999742          223333


Q ss_pred             HHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCc-EEEEEeCcCCCCC
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDY-MIVVFTGGDELED  153 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~-~~iv~tk~D~~~~  153 (174)
                      +    ..+|++++++|+...+...+..++..+....     .| +++++||+|+..+
T Consensus       101 a----k~aDvVllviDa~~~~~~~~~~i~~~l~~~g-----~p~vi~VvnK~D~~~~  148 (225)
T cd01882         101 A----KVADLVLLLIDASFGFEMETFEFLNILQVHG-----FPRVMGVLTHLDLFKK  148 (225)
T ss_pred             H----HhcCEEEEEEecCcCCCHHHHHHHHHHHHcC-----CCeEEEEEeccccCCc
Confidence            3    4459999999998778777777776665531     34 4569999999754

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.

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.46  E-value=3e-13  Score=112.49  Aligned_cols=118  Identities=19%  Similarity=0.269  Sum_probs=77.2

Q ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCcc--------------cccccCCCCcceeeEEEE----EEEeCCcEEEEEeCCC
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRRA--------------FKSRASSSGVTSTCEMQR----TVLKDGQVVNVIDTPG   79 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~~--------------~~~~~~~~~~t~~~~~~~----~~~~~~~~~~~iDtpG   79 (174)
                      ...++|+++|+.++|||||++.|+....              +.......+.|.......    ..+ ++..+.++||||
T Consensus        17 ~~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~-~~~~i~liDTPG   95 (720)
T TIGR00490        17 KFIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEG-NEYLINLIDTPG   95 (720)
T ss_pred             ccccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecC-CceEEEEEeCCC
Confidence            3458999999999999999999864210              001001122333332222    333 467799999999


Q ss_pred             CCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630           80 LFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      +.++.           .....++..+|++++|+|+.++....+...++.+.+.   .  .|.++++||+|...
T Consensus        96 ~~~f~-----------~~~~~al~~aD~~llVvda~~g~~~~t~~~~~~~~~~---~--~p~ivviNKiD~~~  152 (720)
T TIGR00490        96 HVDFG-----------GDVTRAMRAVDGAIVVVCAVEGVMPQTETVLRQALKE---N--VKPVLFINKVDRLI  152 (720)
T ss_pred             ccccH-----------HHHHHHHHhcCEEEEEEecCCCCCccHHHHHHHHHHc---C--CCEEEEEEChhccc
Confidence            98732           2223345666999999999877777776666554332   1  46789999999875

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.

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=99.45  E-value=4e-13  Score=102.64  Aligned_cols=118  Identities=22%  Similarity=0.219  Sum_probs=68.4

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCc-ceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGV-TSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~-t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      ...|+|+|.+|+|||||||+|.|...-..+.-..+. .+......+..++..++.+||.||........+    ++.+..
T Consensus        35 ~l~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tGv~etT~~~~~Y~~p~~pnv~lWDlPG~gt~~f~~~----~Yl~~~  110 (376)
T PF05049_consen   35 PLNIAVTGESGSGKSSFINALRGLGHEDEGAAPTGVVETTMEPTPYPHPKFPNVTLWDLPGIGTPNFPPE----EYLKEV  110 (376)
T ss_dssp             -EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SSSHSCCTS-EEEE-SS-TTEEEEEE--GGGSS--HH----HHHHHT
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCeeCCCCCCCCCeEEeCCCCCCCCCCHH----HHHHHc
Confidence            378999999999999999999885432222222211 122233334444556899999999986543333    333332


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDE  150 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~  150 (174)
                      .  ...+|.+|+ +..+ +++..+....+.+++..     +++.+|-||+|.
T Consensus       111 ~--~~~yD~fii-i~s~-rf~~ndv~La~~i~~~g-----K~fyfVRTKvD~  153 (376)
T PF05049_consen  111 K--FYRYDFFII-ISSE-RFTENDVQLAKEIQRMG-----KKFYFVRTKVDS  153 (376)
T ss_dssp             T--GGG-SEEEE-EESS-S--HHHHHHHHHHHHTT------EEEEEE--HHH
T ss_pred             c--ccccCEEEE-EeCC-CCchhhHHHHHHHHHcC-----CcEEEEEecccc
Confidence            2  456686665 5555 88888888888887763     689999999996

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.

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=99.45  E-value=1.3e-12  Score=110.39  Aligned_cols=120  Identities=17%  Similarity=0.204  Sum_probs=82.6

Q ss_pred             CCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc--------------cCCCCcceeeEEEEEEEe--------------
Q 030630           16 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR--------------ASSSGVTSTCEMQRTVLK--------------   67 (174)
Q Consensus        16 ~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~--------------~~~~~~t~~~~~~~~~~~--------------   67 (174)
                      +..+-++|+++|+.++|||||+++|+........              ....+.|.........|.              
T Consensus        15 ~~~~Irni~iiGhvd~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~~   94 (843)
T PLN00116         15 KKHNIRNMSVIAHVDHGKSTLTDSLVAAAGIIAQEVAGDVRMTDTRADEAERGITIKSTGISLYYEMTDESLKDFKGERD   94 (843)
T ss_pred             CccCccEEEEEcCCCCCHHHHHHHHHHhcCCcccccCCceeeccCcHHHHHhCCceecceeEEEeecccccccccccccC
Confidence            4455689999999999999999998754321000              011233444444444442              


Q ss_pred             -CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEe
Q 030630           68 -DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFT  146 (174)
Q Consensus        68 -~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~t  146 (174)
                       ++..+.++||||+.+           +......++..+|++++|+|+.+++...++..++.+....     .|.++++|
T Consensus        95 ~~~~~inliDtPGh~d-----------F~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~~~~~~~~-----~p~i~~iN  158 (843)
T PLN00116         95 GNEYLINLIDSPGHVD-----------FSSEVTAALRITDGALVVVDCIEGVCVQTETVLRQALGER-----IRPVLTVN  158 (843)
T ss_pred             CCceEEEEECCCCHHH-----------HHHHHHHHHhhcCEEEEEEECCCCCcccHHHHHHHHHHCC-----CCEEEEEE
Confidence             145678999999986           3333334456669999999998898888887766555432     58899999


Q ss_pred             CcCCC
Q 030630          147 GGDEL  151 (174)
Q Consensus       147 k~D~~  151 (174)
                      |+|..
T Consensus       159 K~D~~  163 (843)
T PLN00116        159 KMDRC  163 (843)
T ss_pred             CCccc
Confidence            99998

>KOG0079 consensus GTP-binding protein H-ray, small G protein superfamily [General function prediction only]

Probab=99.44  E-value=6.3e-13  Score=87.64  Aligned_cols=117  Identities=19%  Similarity=0.223  Sum_probs=84.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe-CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      ...+|+|.+|+|||+|+-.+.... | .+.....+..+..+..+... ....+.+|||+|...           ++.+..
T Consensus         9 fkllIigDsgVGKssLl~rF~ddt-F-s~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGqEr-----------Frtits   75 (198)
T KOG0079|consen    9 FKLLIIGDSGVGKSSLLLRFADDT-F-SGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQER-----------FRTITS   75 (198)
T ss_pred             HHHHeecCCcccHHHHHHHHhhcc-c-ccceEEEeeeeEEEEEeecCCcEEEEEEeecccHHH-----------HHHHHH
Confidence            346789999999999998887764 3 32222223333334444431 123679999999886           777777


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..+++.|++++|.|.++.-+... ..|++.+++.+..   -|-++|.||.|....
T Consensus        76 tyyrgthgv~vVYDVTn~ESF~Nv~rWLeei~~ncds---v~~vLVGNK~d~~~R  127 (198)
T KOG0079|consen   76 TYYRGTHGVIVVYDVTNGESFNNVKRWLEEIRNNCDS---VPKVLVGNKNDDPER  127 (198)
T ss_pred             HHccCCceEEEEEECcchhhhHhHHHHHHHHHhcCcc---ccceecccCCCCccc
Confidence            88999999999999986555444 8999999987642   478999999998764

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.44  E-value=1.7e-12  Score=89.13  Aligned_cols=108  Identities=22%  Similarity=0.167  Sum_probs=69.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCC--cEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      +|+++|++|+|||||++.++....... ..+   +.......+.. ++  ..+.++||+|....                
T Consensus         2 ki~vvG~~gvGKTsli~~~~~~~f~~~-~~~---~~~~~~~~i~~-~~~~~~l~i~D~~g~~~~----------------   60 (158)
T cd04103           2 KLGIVGNLQSGKSALVHRYLTGSYVQL-ESP---EGGRFKKEVLV-DGQSHLLLIRDEGGAPDA----------------   60 (158)
T ss_pred             EEEEECCCCCcHHHHHHHHHhCCCCCC-CCC---CccceEEEEEE-CCEEEEEEEEECCCCCch----------------
Confidence            689999999999999998765542211 111   11111122333 33  45789999998641                


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDEL  151 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~  151 (174)
                      .+...+|++++|+|.+++-+... ..+++.+..... ....|+++|.||.|+.
T Consensus        61 ~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~i~~~~~-~~~~piilvgnK~Dl~  112 (158)
T cd04103          61 QFASWVDAVIFVFSLENEASFQTVYNLYHQLSSYRN-ISEIPLILVGTQDAIS  112 (158)
T ss_pred             hHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEeeHHHhh
Confidence            12346799999999986655555 566666665422 1225899999999974

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.

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.44  E-value=1.6e-12  Score=105.85  Aligned_cols=114  Identities=21%  Similarity=0.265  Sum_probs=72.9

Q ss_pred             cCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCCce
Q 030630           27 GRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIH  106 (174)
Q Consensus        27 G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~  106 (174)
                      |.+|+|||||+|++++... ..+ ...+.|.........+ ++..+.++||||..+......  ...+.+.. .....+|
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            8899999999999999763 232 3345555555555556 667899999999987443211  11122111 1235789


Q ss_pred             EEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          107 AVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       107 ~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ++++|+|++ .++..    +....+....  ..|+++++||+|+.+.
T Consensus        75 vvI~VvDat-~ler~----l~l~~ql~~~--~~PiIIVlNK~Dl~~~  114 (591)
T TIGR00437        75 LVVNVVDAS-NLERN----LYLTLQLLEL--GIPMILALNLVDEAEK  114 (591)
T ss_pred             EEEEEecCC-cchhh----HHHHHHHHhc--CCCEEEEEehhHHHHh
Confidence            999999998 44322    2222222222  2699999999998654

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.

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.44  E-value=9e-13  Score=97.50  Aligned_cols=96  Identities=19%  Similarity=0.267  Sum_probs=68.8

Q ss_pred             cCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHH
Q 030630           13 LTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGK   92 (174)
Q Consensus        13 ~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~   92 (174)
                      |..+..-.-+++++|++++|||||+|.|++...-..  .....|..+.....+| ++-.+.++|+||+..+.......++
T Consensus        56 f~V~KsGda~v~lVGfPsvGKStLL~~LTnt~seva--~y~FTTl~~VPG~l~Y-~ga~IQild~Pgii~gas~g~grG~  132 (365)
T COG1163          56 FAVKKSGDATVALVGFPSVGKSTLLNKLTNTKSEVA--DYPFTTLEPVPGMLEY-KGAQIQLLDLPGIIEGASSGRGRGR  132 (365)
T ss_pred             ceEeccCCeEEEEEcCCCccHHHHHHHHhCCCcccc--ccCceecccccceEee-cCceEEEEcCcccccCcccCCCCcc
Confidence            444444447899999999999999999999763211  2233344333334445 8889999999999998777766666


Q ss_pred             HHHHHHHhccCCceEEEEEEeCC
Q 030630           93 EIVKCIGMAKDGIHAVLVVFSVR  115 (174)
Q Consensus        93 ~~~~~~~~~~~~~~~il~v~~~~  115 (174)
                      ++...    .+.+|.+++|+|+.
T Consensus       133 ~vlsv----~R~ADlIiiVld~~  151 (365)
T COG1163         133 QVLSV----ARNADLIIIVLDVF  151 (365)
T ss_pred             eeeee----eccCCEEEEEEecC
Confidence            66654    44559999999986

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=99.44  E-value=4.3e-13  Score=104.06  Aligned_cols=129  Identities=18%  Similarity=0.155  Sum_probs=83.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      ++.+++|.+++|||||+|.++...+   .......|+..-+.+...++-..|.++||||+.+.......... +..+...
T Consensus       169 rTlllcG~PNVGKSSf~~~vtradv---evqpYaFTTksL~vGH~dykYlrwQViDTPGILD~plEdrN~IE-mqsITAL  244 (620)
T KOG1490|consen  169 RTLLVCGYPNVGKSSFNNKVTRADD---EVQPYAFTTKLLLVGHLDYKYLRWQVIDTPGILDRPEEDRNIIE-MQIITAL  244 (620)
T ss_pred             CeEEEecCCCCCcHhhccccccccc---ccCCcccccchhhhhhhhhheeeeeecCCccccCcchhhhhHHH-HHHHHHH
Confidence            8999999999999999999987653   22334444444444333336778999999999984332222211 1111111


Q ss_pred             ccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      + ---.+|||++|+++.+...-.+.++.+.....--.++++++|+||+|.+++.
T Consensus       245 A-HLraaVLYfmDLSe~CGySva~QvkLfhsIKpLFaNK~~IlvlNK~D~m~~e  297 (620)
T KOG1490|consen  245 A-HLRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLFANKVTILVLNKIDAMRPE  297 (620)
T ss_pred             H-HhhhhheeeeechhhhCCCHHHHHHHHHHhHHHhcCCceEEEeecccccCcc
Confidence            1 1124589999998777666555555554443222446999999999998764

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.41  E-value=5.3e-12  Score=99.05  Aligned_cols=118  Identities=15%  Similarity=0.208  Sum_probs=92.8

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      +++.|.++|+...|||||+.+|.+......  ...++|....-..+..+++..++|.||||+-.           +...-
T Consensus       152 RpPVVTiMGHVDHGKTTLLD~lRks~VAA~--E~GGITQhIGAF~V~~p~G~~iTFLDTPGHaA-----------F~aMR  218 (683)
T KOG1145|consen  152 RPPVVTIMGHVDHGKTTLLDALRKSSVAAG--EAGGITQHIGAFTVTLPSGKSITFLDTPGHAA-----------FSAMR  218 (683)
T ss_pred             CCCeEEEeecccCChhhHHHHHhhCceehh--hcCCccceeceEEEecCCCCEEEEecCCcHHH-----------HHHHH
Confidence            447899999999999999999999876433  34667777777777777889999999999886           33332


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      .+-+.-.|.+++|+.+++++-+++.+.++-.+...     -|+++.+||+|+...+
T Consensus       219 aRGA~vtDIvVLVVAadDGVmpQT~EaIkhAk~A~-----VpiVvAinKiDkp~a~  269 (683)
T KOG1145|consen  219 ARGANVTDIVVLVVAADDGVMPQTLEAIKHAKSAN-----VPIVVAINKIDKPGAN  269 (683)
T ss_pred             hccCccccEEEEEEEccCCccHhHHHHHHHHHhcC-----CCEEEEEeccCCCCCC
Confidence            33456679999999999898888877776555543     5999999999998764

>KOG1547 consensus Septin CDC10 and related P-loop GTPases [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms; Cytoskeleton]

Probab=99.40  E-value=1.7e-11  Score=87.38  Aligned_cols=132  Identities=21%  Similarity=0.260  Sum_probs=86.9

Q ss_pred             CCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccC-----CCCcceeeEEEEEEEeCC---cEEEEEeCCCCCCCCCCh
Q 030630           16 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRAS-----SSGVTSTCEMQRTVLKDG---QVVNVIDTPGLFDFSAGS   87 (174)
Q Consensus        16 ~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~-----~~~~t~~~~~~~~~~~~~---~~~~~iDtpG~~~~~~~~   87 (174)
                      ..|-...|.++|.+|.||||++|.|.....-..+..     ....|.+..........+   .++.++|||||.+.-...
T Consensus        42 k~GF~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGfGDqInN~  121 (336)
T KOG1547|consen   42 KTGFDFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGFGDQINND  121 (336)
T ss_pred             hccCceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCcccccCcc
Confidence            445568899999999999999999887554332211     223344444333333222   368999999999865432


Q ss_pred             ---HHHHHHHH----HHHHh----------ccCCceEEEEEEeCC-CCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcC
Q 030630           88 ---EFVGKEIV----KCIGM----------AKDGIHAVLVVFSVR-SRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGD  149 (174)
Q Consensus        88 ---~~~~~~~~----~~~~~----------~~~~~~~il~v~~~~-~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D  149 (174)
                         +-+.+-+.    ++++.          -..++|+++|.+.++ ..+.+.+.++++.|.+..      +++-|+.|+|
T Consensus       122 ncWePI~kyIneQye~yL~eElni~R~kripDTRVHcclyFi~ptGhsLrplDieflkrLt~vv------NvvPVIakaD  195 (336)
T KOG1547|consen  122 NCWEPIEKYINEQYEQYLREELNIAREKRIPDTRVHCCLYFIPPTGHSLRPLDIEFLKRLTEVV------NVVPVIAKAD  195 (336)
T ss_pred             chhHHHHHHHHHHHHHHHHHHHhHHhhhcCCCceEEEEEEEeCCCCCccCcccHHHHHHHhhhh------eeeeeEeecc
Confidence               22222222    22211          123579999999874 468888999999888875      8899999999


Q ss_pred             CCCC
Q 030630          150 ELED  153 (174)
Q Consensus       150 ~~~~  153 (174)
                      .+.-
T Consensus       196 tlTl  199 (336)
T KOG1547|consen  196 TLTL  199 (336)
T ss_pred             cccH
Confidence            9864

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.40  E-value=3.2e-12  Score=100.98  Aligned_cols=117  Identities=19%  Similarity=0.230  Sum_probs=79.8

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcc--c---------------------------ccccCCCCcceeeEEEEEEEeCC
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRA--F---------------------------KSRASSSGVTSTCEMQRTVLKDG   69 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~--~---------------------------~~~~~~~~~t~~~~~~~~~~~~~   69 (174)
                      +...++++|+.++|||||+-.|+-...  .                           ...+...+.|.......+.+ ++
T Consensus         6 ~~~ni~i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~~~~~~~~-~~   84 (447)
T PLN00043          6 VHINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDIALWKFET-TK   84 (447)
T ss_pred             ceEEEEEEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEEEEEEecC-CC
Confidence            347899999999999999987763110  0                           01112235666666666666 67


Q ss_pred             cEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCC-CC------HHHHHHHHHHHHHHhhhhcCcEE
Q 030630           70 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSR-FS------QEEEAALHSLQTLFGKKIFDYMI  142 (174)
Q Consensus        70 ~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~-~~------~~~~~~l~~l~~~~~~~~~~~~~  142 (174)
                      +.+.++||||+.+           +.......+..+|++++|+|+.++ +.      ...++.+..+... +.   ++++
T Consensus        85 ~~i~liDtPGh~d-----------f~~~~~~g~~~aD~aIlVVda~~G~~e~g~~~~~qT~eh~~~~~~~-gi---~~iI  149 (447)
T PLN00043         85 YYCTVIDAPGHRD-----------FIKNMITGTSQADCAVLIIDSTTGGFEAGISKDGQTREHALLAFTL-GV---KQMI  149 (447)
T ss_pred             EEEEEEECCCHHH-----------HHHHHHhhhhhccEEEEEEEcccCceecccCCCchHHHHHHHHHHc-CC---CcEE
Confidence            7899999999876           555555566788999999999854 32      3455555444332 21   3678


Q ss_pred             EEEeCcCCC
Q 030630          143 VVFTGGDEL  151 (174)
Q Consensus       143 iv~tk~D~~  151 (174)
                      +++||+|+.
T Consensus       150 V~vNKmD~~  158 (447)
T PLN00043        150 CCCNKMDAT  158 (447)
T ss_pred             EEEEcccCC
Confidence            899999976

>KOG0093 consensus GTPase Rab3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.40  E-value=3.9e-12  Score=83.86  Aligned_cols=119  Identities=12%  Similarity=0.075  Sum_probs=82.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .+++++|.+.+|||||+...++......-.++.+...... ..+...+...+.+|||.|...           ++.....
T Consensus        22 fKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvK-Tvyr~~kRiklQiwDTagqEr-----------yrtiTTa   89 (193)
T KOG0093|consen   22 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVK-TVYRSDKRIKLQIWDTAGQER-----------YRTITTA   89 (193)
T ss_pred             eeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEe-EeeecccEEEEEEEecccchh-----------hhHHHHH
Confidence            6899999999999999999888653322223333222222 111111234679999999986           6677777


Q ss_pred             ccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .+++++++|+++|.++.-+... +.|...|..+.-.  +.+++++.||||+-.+
T Consensus        90 yyRgamgfiLmyDitNeeSf~svqdw~tqIktysw~--naqvilvgnKCDmd~e  141 (193)
T KOG0093|consen   90 YYRGAMGFILMYDITNEESFNSVQDWITQIKTYSWD--NAQVILVGNKCDMDSE  141 (193)
T ss_pred             HhhccceEEEEEecCCHHHHHHHHHHHHHheeeecc--CceEEEEecccCCccc
Confidence            8999999999999985433333 6777777776433  3799999999998654

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.40  E-value=6.7e-12  Score=95.67  Aligned_cols=130  Identities=20%  Similarity=0.247  Sum_probs=90.4

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCc---cc------c-----cc---------------cCCCCcceeeEEEEEEEeCC
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRR---AF------K-----SR---------------ASSSGVTSTCEMQRTVLKDG   69 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~---~~------~-----~~---------------~~~~~~t~~~~~~~~~~~~~   69 (174)
                      +...++++|+..+|||||+-.|+=..   ..      .     .+               ....+.|.......++. +.
T Consensus         6 ph~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~~~fet-~k   84 (428)
T COG5256           6 PHLNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTIDVAHSKFET-DK   84 (428)
T ss_pred             CceEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcceEEEEEEEEeec-CC
Confidence            45889999999999999986654211   00      0     00               11226666666666666 56


Q ss_pred             cEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCC-------CCHHHHHHHHHHHHHHhhhhcCcEE
Q 030630           70 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSR-------FSQEEEAALHSLQTLFGKKIFDYMI  142 (174)
Q Consensus        70 ~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~-------~~~~~~~~l~~l~~~~~~~~~~~~~  142 (174)
                      ..+.++|+||.-+           +..-.-..+.++|+.++|+++...       ...++++.+- |...+|.   ...+
T Consensus        85 ~~~tIiDaPGHrd-----------FvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~-La~tlGi---~~lI  149 (428)
T COG5256          85 YNFTIIDAPGHRD-----------FVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAF-LARTLGI---KQLI  149 (428)
T ss_pred             ceEEEeeCCchHH-----------HHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHH-HHHhcCC---ceEE
Confidence            7899999999665           444444567788999999999766       6666777764 4444453   4899


Q ss_pred             EEEeCcCCCCCChhhHHHHhcc
Q 030630          143 VVFTGGDELEDNDETLEDYLGR  164 (174)
Q Consensus       143 iv~tk~D~~~~~~~~~~~~~~~  164 (174)
                      +++||+|...-++.++++...+
T Consensus       150 VavNKMD~v~wde~rf~ei~~~  171 (428)
T COG5256         150 VAVNKMDLVSWDEERFEEIVSE  171 (428)
T ss_pred             EEEEcccccccCHHHHHHHHHH
Confidence            9999999997665666665544

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.40  E-value=9.6e-12  Score=97.53  Aligned_cols=121  Identities=17%  Similarity=0.187  Sum_probs=92.9

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEe--CCcEEEEEeCCCCCCCCCChHHHHHHHHH
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK--DGQVVNVIDTPGLFDFSAGSEFVGKEIVK   96 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~~~iDtpG~~~~~~~~~~~~~~~~~   96 (174)
                      +++.|+++|+--.|||||+..|.+......  ...+.|.....+.+...  +...+.|+||||+..+           ..
T Consensus         4 R~PvVtimGHVDHGKTtLLD~IR~t~Va~~--EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeAF-----------t~   70 (509)
T COG0532           4 RPPVVTIMGHVDHGKTTLLDKIRKTNVAAG--EAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEAF-----------TA   70 (509)
T ss_pred             CCCEEEEeCcccCCccchhhhHhcCccccc--cCCceeeEeeeEEEEeccCCCceEEEEcCCcHHHH-----------HH
Confidence            457999999999999999999999876433  34667777666777664  3368999999998863           21


Q ss_pred             HHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhh
Q 030630           97 CIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDET  157 (174)
Q Consensus        97 ~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~  157 (174)
                      .-..-+.=.|.+++|+++++++.+++.+.++-++...     -|+++++||+|+.+.+...
T Consensus        71 mRaRGa~vtDIaILVVa~dDGv~pQTiEAI~hak~a~-----vP~iVAiNKiDk~~~np~~  126 (509)
T COG0532          71 MRARGASVTDIAILVVAADDGVMPQTIEAINHAKAAG-----VPIVVAINKIDKPEANPDK  126 (509)
T ss_pred             HHhcCCccccEEEEEEEccCCcchhHHHHHHHHHHCC-----CCEEEEEecccCCCCCHHH
Confidence            1122334469999999999999999988887777653     6999999999999775333

>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=99.39  E-value=7e-12  Score=90.60  Aligned_cols=125  Identities=15%  Similarity=0.156  Sum_probs=74.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhc
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  101 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~  101 (174)
                      +|+++|+.||||||..+.+.....+..- ...+.|.......+.......+.+||.||........      +.......
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT-~~L~~T~~ve~~~v~~~~~~~l~iwD~pGq~~~~~~~------~~~~~~~i   73 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRDT-LRLEPTIDVEKSHVRFLSFLPLNIWDCPGQDDFMENY------FNSQREEI   73 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGGG-GG-----SEEEEEEECTTSCEEEEEEE-SSCSTTHTT------HTCCHHHH
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchhc-cccCCcCCceEEEEecCCCcEEEEEEcCCcccccccc------ccccHHHH
Confidence            6899999999999999999988765433 2345566666555554355689999999998743220      00111123


Q ss_pred             cCCceEEEEEEeCC-CCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630          102 KDGIHAVLVVFSVR-SRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       102 ~~~~~~il~v~~~~-~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..+++++|||+|+. +.+...-....+.+...........+.+++.|+|+..+
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            46779999999997 34333334444444444333334688999999999764

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.

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.38  E-value=2.8e-12  Score=96.49  Aligned_cols=127  Identities=17%  Similarity=0.285  Sum_probs=89.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEE-----------------------------------
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTV-----------------------------------   65 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~-----------------------------------   65 (174)
                      +-|+++|+.+.||||+|+.|+....+ +-...+.+|+........                                   
T Consensus        59 Pmill~GqyStGKTtfi~yLle~dyp-g~riGpEPTtd~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~aflnRf~  137 (532)
T KOG1954|consen   59 PMILLVGQYSTGKTTFIRYLLEQDYP-GLRIGPEPTTDRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNAFLNRFM  137 (532)
T ss_pred             ceEEEEeccccchhHHHHHHHhCCCC-ccccCCCCCcceeEEEEecCcccccCCceeeecCCCchhhhhhhHHHHHHHHH
Confidence            56899999999999999999998865 322333334333322220                                   


Q ss_pred             ---EeC--CcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHH--HHHHHHHHHHHhhhhc
Q 030630           66 ---LKD--GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIF  138 (174)
Q Consensus        66 ---~~~--~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~--~~~l~~l~~~~~~~~~  138 (174)
                         ..+  -..+.++||||+.++..+.-.....+...+.+++.++|.|++++|+. .++..+  .+.+   ..+.|.+  
T Consensus       138 csqmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~h-KLDIsdEf~~vi---~aLkG~E--  211 (532)
T KOG1954|consen  138 CSQLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAH-KLDISDEFKRVI---DALKGHE--  211 (532)
T ss_pred             HhcCChhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechh-hccccHHHHHHH---HHhhCCc--
Confidence               000  02489999999998655544556668888899999999999999997 655544  4554   4444555  


Q ss_pred             CcEEEEEeCcCCCCCC
Q 030630          139 DYMIVVFTGGDELEDN  154 (174)
Q Consensus       139 ~~~~iv~tk~D~~~~~  154 (174)
                      ..+.||+||+|..+.+
T Consensus       212 dkiRVVLNKADqVdtq  227 (532)
T KOG1954|consen  212 DKIRVVLNKADQVDTQ  227 (532)
T ss_pred             ceeEEEeccccccCHH
Confidence            4789999999999874

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=99.37  E-value=9.2e-12  Score=89.53  Aligned_cols=45  Identities=27%  Similarity=0.326  Sum_probs=40.4

Q ss_pred             CCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            4 GSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      ...+.++++++...|  ..++++||+|||||||+|.++|...+..|.
T Consensus        15 ~~~vl~~i~L~v~~G--EfvsilGpSGcGKSTLLriiAGL~~p~~G~   59 (248)
T COG1116          15 GVEVLEDINLSVEKG--EFVAILGPSGCGKSTLLRLIAGLEKPTSGE   59 (248)
T ss_pred             ceEEeccceeEECCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCce
Confidence            346788999999999  999999999999999999999999887763

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=99.37  E-value=3.8e-12  Score=95.58  Aligned_cols=135  Identities=15%  Similarity=0.052  Sum_probs=83.0

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCc-ceeeEEEEEEEeCCcEEEEEeCCCCCCC
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGV-TSTCEMQRTVLKDGQVVNVIDTPGLFDF   83 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~-t~~~~~~~~~~~~~~~~~~iDtpG~~~~   83 (174)
                      ..+.++++++++.|  ..++++|+||||||||+++|+|...+..|...... .....  .... +.+..++.+.|.+.+.
T Consensus        18 ~~~l~~vs~~i~~G--ei~gllG~NGAGKTTllk~l~gl~~p~~G~i~i~G~~~~~~--~~~~-~~~igy~~~~~~~~~~   92 (293)
T COG1131          18 KTALDGVSFEVEPG--EIFGLLGPNGAGKTTLLKILAGLLKPTSGEILVLGYDVVKE--PAKV-RRRIGYVPQEPSLYPE   92 (293)
T ss_pred             CEEEeceeEEEcCC--eEEEEECCCCCCHHHHHHHHhCCcCCCceEEEEcCEeCccC--HHHH-HhheEEEccCCCCCcc
Confidence            56788999999999  99999999999999999999999876555321111 00000  0011 3456788898887765


Q ss_pred             CCChHHH-----------------------------------------HHHHHHHHHhccCCceEEEEEEeCCCCCCHHH
Q 030630           84 SAGSEFV-----------------------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE  122 (174)
Q Consensus        84 ~~~~~~~-----------------------------------------~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~  122 (174)
                      .+..+.+                                         +++-...+.+...++++++ +..+++++++..
T Consensus        93 lT~~e~l~~~~~l~~~~~~~~~~~~~~~l~~~~L~~~~~~~~~~lS~G~kqrl~ia~aL~~~P~lli-LDEPt~GLDp~~  171 (293)
T COG1131          93 LTVRENLEFFARLYGLSKEEAEERIEELLELFGLEDKANKKVRTLSGGMKQRLSIALALLHDPELLI-LDEPTSGLDPES  171 (293)
T ss_pred             ccHHHHHHHHHHHhCCChhHHHHHHHHHHHHcCCchhhCcchhhcCHHHHHHHHHHHHHhcCCCEEE-ECCCCcCCCHHH
Confidence            5532211                                         1111222223345565444 344455888887


Q ss_pred             -HHHHHHHHHHHhhhhcCcEEEEEeC
Q 030630          123 -EAALHSLQTLFGKKIFDYMIVVFTG  147 (174)
Q Consensus       123 -~~~l~~l~~~~~~~~~~~~~iv~tk  147 (174)
                       .++.+.|++.....  ..++++.||
T Consensus       172 ~~~~~~~l~~l~~~g--~~tvlissH  195 (293)
T COG1131         172 RREIWELLRELAKEG--GVTILLSTH  195 (293)
T ss_pred             HHHHHHHHHHHHhCC--CcEEEEeCC
Confidence             45555566554322  247888888

>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=99.37  E-value=6.7e-12  Score=87.77  Aligned_cols=137  Identities=18%  Similarity=0.146  Sum_probs=81.2

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEE--EEEEeCCcEEEEEeCCCCCCC
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ--RTVLKDGQVVNVIDTPGLFDF   83 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~--~~~~~~~~~~~~iDtpG~~~~   83 (174)
                      .+.++++++.+.+  ..++++|+||+|||||++.|+|..++..|.............  ...+ .....++.+.|.+...
T Consensus        14 ~~l~~i~~~i~~G--~~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~~~-~~~i~~~~q~~~~~~~   90 (178)
T cd03229          14 TVLNDVSLNIEAG--EIVALLGPSGSGKSTLLRCIAGLEEPDSGSILIDGEDLTDLEDELPPL-RRRIGMVFQDFALFPH   90 (178)
T ss_pred             EEEeeeeEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCceEEEECCEEccccchhHHHH-hhcEEEEecCCccCCC
Confidence            4678889999998  999999999999999999999987765553221111000000  0011 2334566677776543


Q ss_pred             CCChHHH-------HHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHH-HHHHHHHhhhhcCcEEEEEeCc
Q 030630           84 SAGSEFV-------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAAL-HSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus        84 ~~~~~~~-------~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l-~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      .+..+..       .++....++....+++.+++ ..++..++...+..+ +.+.+.....  ..++++++|-
T Consensus        91 ~t~~~~l~~~lS~G~~qr~~la~al~~~p~llil-DEP~~~LD~~~~~~l~~~l~~~~~~~--~~tiii~sH~  160 (178)
T cd03229          91 LTVLENIALGLSGGQQQRVALARALAMDPDVLLL-DEPTSALDPITRREVRALLKSLQAQL--GITVVLVTHD  160 (178)
T ss_pred             CCHHHheeecCCHHHHHHHHHHHHHHCCCCEEEE-eCCcccCCHHHHHHHHHHHHHHHHhc--CCEEEEEeCC
Confidence            3322222       34444555666777776655 334447877775444 4444443211  3678888884

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.

>PRK12740 elongation factor G; Reviewed

Probab=99.36  E-value=1e-11  Score=102.99  Aligned_cols=112  Identities=21%  Similarity=0.271  Sum_probs=76.1

Q ss_pred             EcCCCCCHHHHHHHHhCCccc--ccc--------------cCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHH
Q 030630           26 VGRTGNGKSATGNSILGRRAF--KSR--------------ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEF   89 (174)
Q Consensus        26 ~G~~g~GKStlin~l~~~~~~--~~~--------------~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~   89 (174)
                      +|+.++|||||++.|+.....  ..+              ....+.|.........+ ++..+.+|||||..+       
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~-~~~~i~liDtPG~~~-------   72 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEW-KGHKINLIDTPGHVD-------   72 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEE-CCEEEEEEECCCcHH-------
Confidence            599999999999999543211  000              01134555555566667 778899999999875       


Q ss_pred             HHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC
Q 030630           90 VGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                          +...+..++..+|++++++|+++.....+...+..+...   .  .|+++++||+|.....
T Consensus        73 ----~~~~~~~~l~~aD~vllvvd~~~~~~~~~~~~~~~~~~~---~--~p~iiv~NK~D~~~~~  128 (668)
T PRK12740         73 ----FTGEVERALRVLDGAVVVVCAVGGVEPQTETVWRQAEKY---G--VPRIIFVNKMDRAGAD  128 (668)
T ss_pred             ----HHHHHHHHHHHhCeEEEEEeCCCCcCHHHHHHHHHHHHc---C--CCEEEEEECCCCCCCC
Confidence                222222344567999999999877766666665554432   2  5889999999998654

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.36  E-value=6.4e-12  Score=99.26  Aligned_cols=121  Identities=13%  Similarity=0.188  Sum_probs=77.2

Q ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCccccc-ccCCCCcceeeEEEEE---------------EEe--------------
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRRAFKS-RASSSGVTSTCEMQRT---------------VLK--------------   67 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~~~~~-~~~~~~~t~~~~~~~~---------------~~~--------------   67 (174)
                      .+..+|+++|+-.+|||||+++|++.....- .+...+.|....+...               .+.              
T Consensus        32 ~~~~~ig~~GHVDhGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (460)
T PTZ00327         32 QATINIGTIGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGCGH  111 (460)
T ss_pred             CCcEEEEEEccCCCCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCcccccccccccc
Confidence            3458999999999999999999998653211 1111222222211111               000              


Q ss_pred             ---CCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCC-CCHHHHHHHHHHHHHHhhhhcCcEEE
Q 030630           68 ---DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSR-FSQEEEAALHSLQTLFGKKIFDYMIV  143 (174)
Q Consensus        68 ---~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~-~~~~~~~~l~~l~~~~~~~~~~~~~i  143 (174)
                         ..+.+.++||||..+           +.+.+...+..+|.+++|+++.++ ....+.+.+..+.. ++.   +++++
T Consensus       112 ~~~~~~~i~~IDtPGH~~-----------fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~i~~~-lgi---~~iIV  176 (460)
T PTZ00327        112 KMTLKRHVSFVDCPGHDI-----------LMATMLNGAAVMDAALLLIAANESCPQPQTSEHLAAVEI-MKL---KHIII  176 (460)
T ss_pred             cccccceEeeeeCCCHHH-----------HHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHHHHHH-cCC---CcEEE
Confidence               024689999999754           344444445677999999999865 46666666654333 332   47899


Q ss_pred             EEeCcCCCCC
Q 030630          144 VFTGGDELED  153 (174)
Q Consensus       144 v~tk~D~~~~  153 (174)
                      ++||+|+.+.
T Consensus       177 vlNKiDlv~~  186 (460)
T PTZ00327        177 LQNKIDLVKE  186 (460)
T ss_pred             EEecccccCH
Confidence            9999999754

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.36  E-value=2.3e-12  Score=90.07  Aligned_cols=119  Identities=14%  Similarity=0.183  Sum_probs=74.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      ..++++|+++||||+|+-.|...... ..    -.....+.....+ ......++|.||..+       +...+.+..+-
T Consensus        39 ~~Vll~Gl~dSGKT~LF~qL~~gs~~-~T----vtSiepn~a~~r~-gs~~~~LVD~PGH~r-------lR~kl~e~~~~  105 (238)
T KOG0090|consen   39 NAVLLVGLSDSGKTSLFTQLITGSHR-GT----VTSIEPNEATYRL-GSENVTLVDLPGHSR-------LRRKLLEYLKH  105 (238)
T ss_pred             CcEEEEecCCCCceeeeeehhcCCcc-Ce----eeeeccceeeEee-cCcceEEEeCCCcHH-------HHHHHHHHccc
Confidence            68999999999999999777755321 11    1112222222323 455679999999987       22333333321


Q ss_pred             ccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhh----hhcCcEEEEEeCcCCCCCC
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK----KIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~----~~~~~~~iv~tk~D~~~~~  154 (174)
                      . ..+-+++||+|.. -+...-+...+++.+.+-.    .-..|++|+.||.|+..+.
T Consensus       106 ~-~~akaiVFVVDSa-~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tAk  161 (238)
T KOG0090|consen  106 N-YSAKAIVFVVDSA-TFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTAK  161 (238)
T ss_pred             c-ccceeEEEEEecc-ccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhcC
Confidence            1 2678999999987 5555554444444443322    2236899999999998763

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=99.36  E-value=2.8e-12  Score=90.23  Aligned_cols=139  Identities=17%  Similarity=0.152  Sum_probs=87.0

Q ss_pred             CCCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCC
Q 030630            3 GGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   82 (174)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~   82 (174)
                      |.-.+.++++++...+  ..++++||+|||||||+++|.+...++.|.................-+....+++....+++
T Consensus        13 g~~~VLkgi~l~v~~G--evv~iiGpSGSGKSTlLRclN~LE~~~~G~I~i~g~~~~~~~~~~~~R~~vGmVFQ~fnLFP   90 (240)
T COG1126          13 GDKEVLKGISLSVEKG--EVVVIIGPSGSGKSTLLRCLNGLEEPDSGSITVDGEDVGDKKDILKLRRKVGMVFQQFNLFP   90 (240)
T ss_pred             CCeEEecCcceeEcCC--CEEEEECCCCCCHHHHHHHHHCCcCCCCceEEECCEeccchhhHHHHHHhcCeecccccccc
Confidence            5567789999999999  99999999999999999999999888776433222110000000000122334555554444


Q ss_pred             CCCChHHH------------------------------------------HHHHHHHHHhccCCceEEEEEEeCCCCCCH
Q 030630           83 FSAGSEFV------------------------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQ  120 (174)
Q Consensus        83 ~~~~~~~~------------------------------------------~~~~~~~~~~~~~~~~~il~v~~~~~~~~~  120 (174)
                      -.+..+..                                          .++-..++++.+-++++++|--. ++.+++
T Consensus        91 HlTvleNv~lap~~v~~~~k~eA~~~A~~lL~~VGL~~ka~~yP~qLSGGQqQRVAIARALaM~P~vmLFDEP-TSALDP  169 (240)
T COG1126          91 HLTVLENVTLAPVKVKKLSKAEAREKALELLEKVGLADKADAYPAQLSGGQQQRVAIARALAMDPKVMLFDEP-TSALDP  169 (240)
T ss_pred             cchHHHHHHhhhHHHcCCCHHHHHHHHHHHHHHcCchhhhhhCccccCcHHHHHHHHHHHHcCCCCEEeecCC-cccCCH
Confidence            22211111                                          23444556666778887776433 337778


Q ss_pred             HH-HHHHHHHHHHHhhhhcCcEEEEEeC
Q 030630          121 EE-EAALHSLQTLFGKKIFDYMIVVFTG  147 (174)
Q Consensus       121 ~~-~~~l~~l~~~~~~~~~~~~~iv~tk  147 (174)
                      +- .+.++.+.++..+.   -+++++||
T Consensus       170 Elv~EVL~vm~~LA~eG---mTMivVTH  194 (240)
T COG1126         170 ELVGEVLDVMKDLAEEG---MTMIIVTH  194 (240)
T ss_pred             HHHHHHHHHHHHHHHcC---CeEEEEec
Confidence            76 67777777775333   68999999

>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.35  E-value=9.1e-12  Score=82.67  Aligned_cols=125  Identities=18%  Similarity=0.156  Sum_probs=84.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .+++++|+.|+|||.|+..+.....-....-..+......+..+.- +..++.+|||.|...           ++...+.
T Consensus        10 fKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGg-K~vKLQIWDTAGQEr-----------FRSVtRs   77 (214)
T KOG0086|consen   10 FKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGG-KTVKLQIWDTAGQER-----------FRSVTRS   77 (214)
T ss_pred             heeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecC-cEEEEEEeecccHHH-----------HHHHHHH
Confidence            6789999999999999988776543211111122222222223222 445789999999987           7888888


Q ss_pred             ccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhHH
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLE  159 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~  159 (174)
                      .++++.+.++|.|.+++-+... ..|+.-++......  ..++++.||.|+-...+.+..
T Consensus        78 YYRGAAGAlLVYD~TsrdsfnaLtnWL~DaR~lAs~n--IvviL~GnKkDL~~~R~Vtfl  135 (214)
T KOG0086|consen   78 YYRGAAGALLVYDITSRDSFNALTNWLTDARTLASPN--IVVILCGNKKDLDPEREVTFL  135 (214)
T ss_pred             HhccccceEEEEeccchhhHHHHHHHHHHHHhhCCCc--EEEEEeCChhhcChhhhhhHH
Confidence            9999999999999985544443 56666666654333  467788999999766444443

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=99.35  E-value=1.4e-11  Score=94.57  Aligned_cols=130  Identities=15%  Similarity=0.180  Sum_probs=82.1

Q ss_pred             CCCceEEEEEcCCCCCHHHHHHHHhCCcccccc--------------cCCCC---cceeeEE---EEEEEeCC----cEE
Q 030630           17 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSR--------------ASSSG---VTSTCEM---QRTVLKDG----QVV   72 (174)
Q Consensus        17 ~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~--------------~~~~~---~t~~~~~---~~~~~~~~----~~~   72 (174)
                      .+-..-|+++|+.++|||||+|+++++...+.-              .+..+   .|++..+   ..++..-.    .++
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            333478999999999999999999998211110              11223   4555555   33333223    678


Q ss_pred             EEEeCCCCCCCCCChHHHHHH--------------HHHH-----HHhccCCceEEEEEE-eCC------CCCCHHHHHHH
Q 030630           73 NVIDTPGLFDFSAGSEFVGKE--------------IVKC-----IGMAKDGIHAVLVVF-SVR------SRFSQEEEAAL  126 (174)
Q Consensus        73 ~~iDtpG~~~~~~~~~~~~~~--------------~~~~-----~~~~~~~~~~il~v~-~~~------~~~~~~~~~~l  126 (174)
                      .++||+|+.............              +-++     -+....+++..++|. |.+      +.+...+.+++
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            999999998755433322211              0011     111223678888888 664      35566677887


Q ss_pred             HHHHHHHhhhhcCcEEEEEeCcCCC
Q 030630          127 HSLQTLFGKKIFDYMIVVFTGGDEL  151 (174)
Q Consensus       127 ~~l~~~~~~~~~~~~~iv~tk~D~~  151 (174)
                      +.|++..     +|.++++|+.|-.
T Consensus       174 ~eLk~~~-----kPfiivlN~~dp~  193 (492)
T TIGR02836       174 EELKELN-----KPFIILLNSTHPY  193 (492)
T ss_pred             HHHHhcC-----CCEEEEEECcCCC
Confidence            7777764     7999999999943

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.

>PRK07560 elongation factor EF-2; Reviewed

Probab=99.35  E-value=5.2e-12  Score=105.41  Aligned_cols=120  Identities=19%  Similarity=0.274  Sum_probs=78.7

Q ss_pred             CCCceEEEEEcCCCCCHHHHHHHHhCCccccc----c----------cCCCCcceeeEEEEEEE--e-CCcEEEEEeCCC
Q 030630           17 SNGERTVVLVGRTGNGKSATGNSILGRRAFKS----R----------ASSSGVTSTCEMQRTVL--K-DGQVVNVIDTPG   79 (174)
Q Consensus        17 ~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~----~----------~~~~~~t~~~~~~~~~~--~-~~~~~~~iDtpG   79 (174)
                      ..+-+.|+++|+.++|||||+.+|+.......    +          ....+.|.........|  . ++..+.++||||
T Consensus        17 ~~~iRni~iigh~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~i~liDtPG   96 (731)
T PRK07560         17 PEQIRNIGIIAHIDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDTPG   96 (731)
T ss_pred             hhcccEEEEEEeCCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEEEecCCcEEEEEEcCCC
Confidence            34457899999999999999999874321100    0          00112333333333333  1 245689999999


Q ss_pred             CCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630           80 LFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      +.++           ......++..+|++++|+|+.++....+...++.+.+.   .  .|.++++||+|...
T Consensus        97 ~~df-----------~~~~~~~l~~~D~avlVvda~~g~~~~t~~~~~~~~~~---~--~~~iv~iNK~D~~~  153 (731)
T PRK07560         97 HVDF-----------GGDVTRAMRAVDGAIVVVDAVEGVMPQTETVLRQALRE---R--VKPVLFINKVDRLI  153 (731)
T ss_pred             ccCh-----------HHHHHHHHHhcCEEEEEEECCCCCCccHHHHHHHHHHc---C--CCeEEEEECchhhc
Confidence            9872           22333344566999999999878888887777654443   1  36789999999863

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.34  E-value=2.4e-11  Score=86.20  Aligned_cols=116  Identities=18%  Similarity=0.048  Sum_probs=71.0

Q ss_pred             eEEEEEcCCCCCHHHHHH-HHhCCcccccc-cCCCCcceee-E-EE-E--------EEE-eCCcEEEEEeCCCCCCCCCC
Q 030630           21 RTVVLVGRTGNGKSATGN-SILGRRAFKSR-ASSSGVTSTC-E-MQ-R--------TVL-KDGQVVNVIDTPGLFDFSAG   86 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin-~l~~~~~~~~~-~~~~~~t~~~-~-~~-~--------~~~-~~~~~~~~iDtpG~~~~~~~   86 (174)
                      .+|+++|..|+|||||+. .+.+....... .....+|... . .. .        ... .....+.+|||+|....   
T Consensus         3 ~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~~~~---   79 (195)
T cd01873           3 IKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGDHDK---   79 (195)
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCChhh---
Confidence            689999999999999995 55443211010 0111122210 0 00 0        011 02346899999998641   


Q ss_pred             hHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHH--HHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630           87 SEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEE--AALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~--~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                             +   ....+.++|++++|+|.+++-+....  .|++.+.... .  ..|+++|.||+|+..
T Consensus        80 -------~---~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~-~--~~piilvgNK~DL~~  134 (195)
T cd01873          80 -------D---RRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFC-P--RVPVILVGCKLDLRY  134 (195)
T ss_pred             -------h---hcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhC-C--CCCEEEEEEchhccc
Confidence                   1   12357899999999999865554442  4677666543 2  258999999999864

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.

>PTZ00258 GTP-binding protein; Provisional

Probab=99.33  E-value=1.8e-11  Score=94.46  Aligned_cols=90  Identities=19%  Similarity=0.220  Sum_probs=63.3

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCC----------------cEEEEEeCCCCCC
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG----------------QVVNVIDTPGLFD   82 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~----------------~~~~~iDtpG~~~   82 (174)
                      ...+|+++|.+++|||||+|+|++.... .+ ..+..|.........+.+.                ..+.++||||+..
T Consensus        20 ~~~kvgIVG~PNvGKSTLfnaLt~~~~~-v~-n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv~   97 (390)
T PTZ00258         20 NNLKMGIVGLPNVGKSTTFNALCKQQVP-AE-NFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVK   97 (390)
T ss_pred             CCcEEEEECCCCCChHHHHHHHhcCccc-cc-CCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcCc
Confidence            3478999999999999999999987642 22 2345555555555544221                2489999999997


Q ss_pred             CCCChHHHHHHHHHHHHhccCCceEEEEEEeC
Q 030630           83 FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSV  114 (174)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~  114 (174)
                      +......+...+...++    .+|++++|+|+
T Consensus        98 ga~~g~gLg~~fL~~Ir----~aD~il~VVd~  125 (390)
T PTZ00258         98 GASEGEGLGNAFLSHIR----AVDGIYHVVRA  125 (390)
T ss_pred             CCcchhHHHHHHHHHHH----HCCEEEEEEeC
Confidence            65555555555665544    45999999997

>cd01900 YchF YchF subfamily

Probab=99.33  E-value=1.5e-11  Score=91.02  Aligned_cols=86  Identities=20%  Similarity=0.211  Sum_probs=60.3

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCc----------------EEEEEeCCCCCCCCCC
Q 030630           23 VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ----------------VVNVIDTPGLFDFSAG   86 (174)
Q Consensus        23 i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~----------------~~~~iDtpG~~~~~~~   86 (174)
                      ++++|.+++|||||+|+|++.... .+ ..++.|.......+.+.+.+                .+.++|+||+.++...
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-AA-NYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASK   78 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCCc-cc-cccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCCch
Confidence            589999999999999999998752 22 23445545554444442221                4899999999986655


Q ss_pred             hHHHHHHHHHHHHhccCCceEEEEEEeC
Q 030630           87 SEFVGKEIVKCIGMAKDGIHAVLVVFSV  114 (174)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~~il~v~~~  114 (174)
                      ...+..++...++    .+|+++.|+++
T Consensus        79 ~~glg~~fL~~i~----~~D~li~VV~~  102 (274)
T cd01900          79 GEGLGNKFLSHIR----EVDAIAHVVRC  102 (274)
T ss_pred             hhHHHHHHHHHHH----hCCEEEEEEeC
Confidence            5556666665544    55999999986

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.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=99.33  E-value=6.7e-12  Score=91.50  Aligned_cols=45  Identities=31%  Similarity=0.437  Sum_probs=40.3

Q ss_pred             CCCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            3 GGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ++..+.++++|+.+.|  ..++++||||||||||+++|+|..++..|
T Consensus        13 ~~~~il~~ls~~i~~G--~i~~iiGpNG~GKSTLLk~l~g~l~p~~G   57 (258)
T COG1120          13 GGKPILDDLSFSIPKG--EITGILGPNGSGKSTLLKCLAGLLKPKSG   57 (258)
T ss_pred             CCeeEEecceEEecCC--cEEEEECCCCCCHHHHHHHHhccCCCCCC
Confidence            4566789999999999  99999999999999999999998777666

>KOG0394 consensus Ras-related GTPase [General function prediction only]

Probab=99.33  E-value=6.8e-12  Score=85.68  Aligned_cols=121  Identities=15%  Similarity=0.078  Sum_probs=74.8

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      ..+|.++|.+|+|||||+|.........-...+.+.-...+-..+.. +...+.+|||.|..+           +.+.-.
T Consensus         9 lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~-~~vtlQiWDTAGQER-----------FqsLg~   76 (210)
T KOG0394|consen    9 LLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDD-RSVTLQIWDTAGQER-----------FQSLGV   76 (210)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcC-eEEEEEEEecccHHH-----------hhhccc
Confidence            47899999999999999999887654322211222222222222211 234578999999997           444445


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHH-HHHHHhhh-hcCcEEEEEeCcCCCC
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHS-LQTLFGKK-IFDYMIVVFTGGDELE  152 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~-l~~~~~~~-~~~~~~iv~tk~D~~~  152 (174)
                      .+++++|+.+++.|.+..-+.+. ..|-+. |.+....+ ..-|.+|+.||.|.-.
T Consensus        77 aFYRgaDcCvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~  132 (210)
T KOG0394|consen   77 AFYRGADCCVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDG  132 (210)
T ss_pred             ceecCCceEEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCC
Confidence            68999999999998864322222 222222 23322121 2348999999999865

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=99.32  E-value=2.7e-11  Score=99.58  Aligned_cols=120  Identities=21%  Similarity=0.239  Sum_probs=90.8

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcc--ccccc--------------CCCCcceeeEEEEEEEeC-CcEEEEEeCCCCC
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRA--FKSRA--------------SSSGVTSTCEMQRTVLKD-GQVVNVIDTPGLF   81 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~--~~~~~--------------~~~~~t~~~~~~~~~~~~-~~~~~~iDtpG~~   81 (174)
                      .-+.|+++|+..+|||||..+|+-...  ...|.              ...+.|.........| + +..+.+|||||+-
T Consensus         9 ~~RNigI~aHidaGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~~-~~~~~iNlIDTPGHV   87 (697)
T COG0480           9 RIRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLFW-KGDYRINLIDTPGHV   87 (697)
T ss_pred             cceEEEEEeccCCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEEEE-cCceEEEEeCCCCcc
Confidence            448999999999999999988763221  11111              1237788888888888 6 4899999999999


Q ss_pred             CCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCCh
Q 030630           82 DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDND  155 (174)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~  155 (174)
                      ++.       .+..+.++.+    |+.++|+|+.++..+.++..++...+..     .|.++++||+|....+-
T Consensus        88 DFt-------~EV~rslrvl----DgavvVvdaveGV~~QTEtv~rqa~~~~-----vp~i~fiNKmDR~~a~~  145 (697)
T COG0480          88 DFT-------IEVERSLRVL----DGAVVVVDAVEGVEPQTETVWRQADKYG-----VPRILFVNKMDRLGADF  145 (697)
T ss_pred             ccH-------HHHHHHHHhh----cceEEEEECCCCeeecHHHHHHHHhhcC-----CCeEEEEECccccccCh
Confidence            942       3444555544    9999999998899999888876666653     58999999999987643

>KOG0074 consensus GTP-binding ADP-ribosylation factor-like protein ARL3 [General function prediction only]

Probab=99.32  E-value=2e-11  Score=80.06  Aligned_cols=131  Identities=15%  Similarity=0.119  Sum_probs=91.8

Q ss_pred             cCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHH
Q 030630           13 LTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGK   92 (174)
Q Consensus        13 ~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~   92 (174)
                      +.+++.+..+++++|--++|||||++.|.+..+..-     .+|...+...+.+...-.+.++|.-|.-.          
T Consensus        10 ~ks~t~rEirilllGldnAGKTT~LKqL~sED~~hl-----tpT~GFn~k~v~~~g~f~LnvwDiGGqr~----------   74 (185)
T KOG0074|consen   10 CKSRTRREIRILLLGLDNAGKTTFLKQLKSEDPRHL-----TPTNGFNTKKVEYDGTFHLNVWDIGGQRG----------   74 (185)
T ss_pred             hcCCCcceEEEEEEecCCCcchhHHHHHccCChhhc-----cccCCcceEEEeecCcEEEEEEecCCccc----------
Confidence            445667789999999999999999999999875322     23333444455553446789999999876          


Q ss_pred             HHHHHHHhccCCceEEEEEEeCCCC--CCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhHHHHhc
Q 030630           93 EIVKCIGMAKDGIHAVLVVFSVRSR--FSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLG  163 (174)
Q Consensus        93 ~~~~~~~~~~~~~~~il~v~~~~~~--~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~  163 (174)
                       ++.++..++...|.+|||+|.++.  ++....+..+.+.+..-..  -|+.|.-||-|++..  ...++.-.
T Consensus        75 -IRpyWsNYyenvd~lIyVIDS~D~krfeE~~~el~ELleeeKl~~--vpvlIfankQdllta--a~~eeia~  142 (185)
T KOG0074|consen   75 -IRPYWSNYYENVDGLIYVIDSTDEKRFEEISEELVELLEEEKLAE--VPVLIFANKQDLLTA--AKVEEIAL  142 (185)
T ss_pred             -cchhhhhhhhccceEEEEEeCCchHhHHHHHHHHHHHhhhhhhhc--cceeehhhhhHHHhh--cchHHHHH
Confidence             888999999999999999997542  2222244444444432222  488999999999876  34444433

>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=99.31  E-value=4.3e-11  Score=83.35  Aligned_cols=135  Identities=17%  Similarity=0.103  Sum_probs=80.7

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCC
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~   85 (174)
                      .+.++++++.+.+  ..++++|+||+|||||++.|+|...+..|........... ..... .....++.+.|.+....+
T Consensus        14 ~~l~~~~~~i~~G--e~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~g~~~~~-~~~~~-~~~i~~~~q~~~~~~~~t   89 (173)
T cd03230          14 TALDDISLTVEKG--EIYGLLGPNGAGKTTLIKIILGLLKPDSGEIKVLGKDIKK-EPEEV-KRRIGYLPEEPSLYENLT   89 (173)
T ss_pred             eeeeeeEEEEcCC--cEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECCEEccc-chHhh-hccEEEEecCCccccCCc
Confidence            4678889999998  9999999999999999999999876655532111110000 00011 233456666666654333


Q ss_pred             ChHHH-----HHHHHHHHHhccCCceEEEEEEeCCCCCCHHHH-HHHHHHHHHHhhhhcCcEEEEEeCc
Q 030630           86 GSEFV-----GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEE-AALHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus        86 ~~~~~-----~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~-~~l~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      ..+.+     .++....++..+.+++++++ ..++..++.... ...+.|.+.. .+  ..+++++||-
T Consensus        90 v~~~~~LS~G~~qrv~laral~~~p~illl-DEPt~~LD~~~~~~l~~~l~~~~-~~--g~tiii~th~  154 (173)
T cd03230          90 VRENLKLSGGMKQRLALAQALLHDPELLIL-DEPTSGLDPESRREFWELLRELK-KE--GKTILLSSHI  154 (173)
T ss_pred             HHHHhhcCHHHHHHHHHHHHHHcCCCEEEE-eCCccCCCHHHHHHHHHHHHHHH-HC--CCEEEEECCC
Confidence            22221     23344555666777776554 444447888774 4444455442 22  3678888874

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.

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=99.30  E-value=4.7e-11  Score=86.77  Aligned_cols=43  Identities=28%  Similarity=0.353  Sum_probs=38.6

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      .+.++++++.+.+  ..++++||||+|||||+++++|..++..|.
T Consensus        18 ~vl~~i~l~v~~G--~~~~iiGPNGaGKSTLlK~iLGll~p~~G~   60 (254)
T COG1121          18 PVLEDISLSVEKG--EITALIGPNGAGKSTLLKAILGLLKPSSGE   60 (254)
T ss_pred             eeeeccEEEEcCC--cEEEEECCCCCCHHHHHHHHhCCCcCCcce
Confidence            4788999999999  999999999999999999999977666663

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=99.30  E-value=4e-11  Score=91.70  Aligned_cols=88  Identities=19%  Similarity=0.207  Sum_probs=60.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCC----------------cEEEEEeCCCCCCCC
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG----------------QVVNVIDTPGLFDFS   84 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~----------------~~~~~iDtpG~~~~~   84 (174)
                      .+++++|.+++|||||+|+|++... ..+ ..+..|.........+.+.                ..+.++|+||+.++.
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~~-~v~-nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~a   80 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAGA-EAA-NYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKGA   80 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCC-eec-ccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCCC
Confidence            6899999999999999999999773 222 2244454444433333221                248999999999865


Q ss_pred             CChHHHHHHHHHHHHhccCCceEEEEEEeC
Q 030630           85 AGSEFVGKEIVKCIGMAKDGIHAVLVVFSV  114 (174)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~il~v~~~  114 (174)
                      .....+..++...++    ++|++++|+|+
T Consensus        81 ~~g~glg~~fL~~i~----~aD~li~VVd~  106 (364)
T PRK09601         81 SKGEGLGNQFLANIR----EVDAIVHVVRC  106 (364)
T ss_pred             ChHHHHHHHHHHHHH----hCCEEEEEEeC
Confidence            544555555555544    55999999998

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=99.30  E-value=1.1e-11  Score=88.72  Aligned_cols=140  Identities=17%  Similarity=0.130  Sum_probs=84.3

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEE---EEEEeCCcEEEEEeCCCCCC
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ---RTVLKDGQVVNVIDTPGLFD   82 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~---~~~~~~~~~~~~iDtpG~~~   82 (174)
                      .+.++++++++.|  ..++|+||+|||||||+|.|.+...++.|.............   ...+++....+++....+.+
T Consensus        19 ~~L~~v~l~i~~G--e~vaI~GpSGSGKSTLLniig~ld~pt~G~v~i~g~d~~~l~~~~~~~~R~~~iGfvFQ~~nLl~   96 (226)
T COG1136          19 EALKDVNLEIEAG--EFVAIVGPSGSGKSTLLNLLGGLDKPTSGEVLINGKDLTKLSEKELAKLRRKKIGFVFQNFNLLP   96 (226)
T ss_pred             EecccceEEEcCC--CEEEEECCCCCCHHHHHHHHhcccCCCCceEEECCEEcCcCCHHHHHHHHHHhEEEECccCCCCC
Confidence            4678899999999  999999999999999999999988776654222111000000   00111233455555555554


Q ss_pred             CCCChHHH------------------------------------------HHHHHHHHHhccCCceEEEEEEeCCCCCCH
Q 030630           83 FSAGSEFV------------------------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQ  120 (174)
Q Consensus        83 ~~~~~~~~------------------------------------------~~~~~~~~~~~~~~~~~il~v~~~~~~~~~  120 (174)
                      ..+..+.+                                          .++-..++++....+. +|+...++..++.
T Consensus        97 ~ltv~ENv~lpl~~~~~~~~~~~~~~~~l~~~lgl~~~~~~~~p~eLSGGqqQRVAIARAL~~~P~-iilADEPTgnLD~  175 (226)
T COG1136          97 DLTVLENVELPLLIAGKSAGRRKRAAEELLEVLGLEDRLLKKKPSELSGGQQQRVAIARALINNPK-IILADEPTGNLDS  175 (226)
T ss_pred             CCCHHHHHHhHHHHcCCChhHHHHHHHHHHHhcCChhhhccCCchhcCHHHHHHHHHHHHHhcCCC-eEEeeCccccCCh
Confidence            43322221                                          1223334444455555 4445555557777


Q ss_pred             HH-HHHHHHHHHHHhhhhcCcEEEEEeCcCC
Q 030630          121 EE-EAALHSLQTLFGKKIFDYMIVVFTGGDE  150 (174)
Q Consensus       121 ~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~  150 (174)
                      .. ...++.+.+...+.  ..++|++||-..
T Consensus       176 ~t~~~V~~ll~~~~~~~--g~tii~VTHd~~  204 (226)
T COG1136         176 KTAKEVLELLRELNKER--GKTIIMVTHDPE  204 (226)
T ss_pred             HHHHHHHHHHHHHHHhc--CCEEEEEcCCHH
Confidence            76 67777777765443  468999999544

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=99.26  E-value=7.5e-12  Score=80.36  Aligned_cols=115  Identities=19%  Similarity=0.234  Sum_probs=74.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .|++++|+.|+|||||.++|.|....-           ...+.++| ++.  ..|||||-.=       ..+.+...+..
T Consensus         2 Kri~~vG~~gcGKTtL~q~L~G~~~ly-----------kKTQAve~-~d~--~~IDTPGEy~-------~~~~~Y~aL~t   60 (148)
T COG4917           2 KRIAFVGQVGCGKTTLFQSLYGNDTLY-----------KKTQAVEF-NDK--GDIDTPGEYF-------EHPRWYHALIT   60 (148)
T ss_pred             ceeEEecccccCchhHHHHhhcchhhh-----------cccceeec-cCc--cccCCchhhh-------hhhHHHHHHHH
Confidence            689999999999999999999876321           12233444 222  3689999663       23445555556


Q ss_pred             ccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC-ChhhHHHHhcc
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED-NDETLEDYLGR  164 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~-~~~~~~~~~~~  164 (174)
                      ....+|+++++-.+.++.+.-..-+    ...    ..+++|-|+||+|+..+ +....+.++..
T Consensus        61 t~~dadvi~~v~~and~~s~f~p~f----~~~----~~k~vIgvVTK~DLaed~dI~~~~~~L~e  117 (148)
T COG4917          61 TLQDADVIIYVHAANDPESRFPPGF----LDI----GVKKVIGVVTKADLAEDADISLVKRWLRE  117 (148)
T ss_pred             HhhccceeeeeecccCccccCCccc----ccc----cccceEEEEecccccchHhHHHHHHHHHH
Confidence            6778899999988765433222222    111    12469999999999943 32344666655

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=99.26  E-value=9.3e-11  Score=84.25  Aligned_cols=43  Identities=28%  Similarity=0.277  Sum_probs=38.2

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++|+.+.+  ..++++|+||+|||||++.|+|...+..|
T Consensus        13 ~~il~~vs~~i~~G--e~~~i~G~nGsGKSTLl~~l~G~~~p~~G   55 (213)
T cd03259          13 VRALDDLSLTVEPG--EFLALLGPSGCGKTTLLRLIAGLERPDSG   55 (213)
T ss_pred             eeeecceeEEEcCC--cEEEEECCCCCCHHHHHHHHhCCCCCCCe
Confidence            34778899999999  99999999999999999999998776665

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.

>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.25  E-value=8.4e-11  Score=80.50  Aligned_cols=119  Identities=14%  Similarity=0.082  Sum_probs=87.3

Q ss_pred             CCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHH
Q 030630           16 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIV   95 (174)
Q Consensus        16 ~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~   95 (174)
                      ...++.+|+++|--+|||||++..+-..+..+     ..+|...++-.+.+ ++..+.+||.-|...           ++
T Consensus        13 ~~~~e~~IlmlGLD~AGKTTILykLk~~E~vt-----tvPTiGfnVE~v~y-kn~~f~vWDvGGq~k-----------~R   75 (181)
T KOG0070|consen   13 FGKKEMRILMVGLDAAGKTTILYKLKLGEIVT-----TVPTIGFNVETVEY-KNISFTVWDVGGQEK-----------LR   75 (181)
T ss_pred             cCcceEEEEEEeccCCCceeeeEeeccCCccc-----CCCccccceeEEEE-cceEEEEEecCCCcc-----------cc
Confidence            34456899999999999999998876554432     24666677777777 789999999999987           77


Q ss_pred             HHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhh--hcCcEEEEEeCcCCCCC
Q 030630           96 KCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELED  153 (174)
Q Consensus        96 ~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~--~~~~~~iv~tk~D~~~~  153 (174)
                      ..++..+...+++|||+|.+++.-..+  .-+.+...+.+.  ...|+++..||.|....
T Consensus        76 ~lW~~Y~~~t~~lIfVvDS~Dr~Ri~e--ak~eL~~~l~~~~l~~~~llv~aNKqD~~~a  133 (181)
T KOG0070|consen   76 PLWKHYFQNTQGLIFVVDSSDRERIEE--AKEELHRMLAEPELRNAPLLVFANKQDLPGA  133 (181)
T ss_pred             cchhhhccCCcEEEEEEeCCcHHHHHH--HHHHHHHHHcCcccCCceEEEEechhhcccc
Confidence            777888899999999999875422222  222333333332  23689999999998765

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=99.25  E-value=3.1e-11  Score=95.38  Aligned_cols=129  Identities=19%  Similarity=0.221  Sum_probs=90.5

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCccccc-ccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKS-RASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      +.+++++||+|+||||||++|........ .....++|..    .   .+.+++++..+|.-.          ..+++.+
T Consensus        69 PfIvavvGPpGtGKsTLirSlVrr~tk~ti~~i~GPiTvv----s---gK~RRiTflEcp~Dl----------~~miDva  131 (1077)
T COG5192          69 PFIVAVVGPPGTGKSTLIRSLVRRFTKQTIDEIRGPITVV----S---GKTRRITFLECPSDL----------HQMIDVA  131 (1077)
T ss_pred             CeEEEeecCCCCChhHHHHHHHHHHHHhhhhccCCceEEe----e---cceeEEEEEeChHHH----------HHHHhHH
Confidence            37788999999999999999987532111 1111222221    1   167889999999322          3366666


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhHHHHhcccCCCCccccC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKVCF  174 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~~~~~~l~~~~  174 (174)
                      +.+    |.+++++|+.-++..++.++++.++.- |.   +.++-|+||.|+...+ .+++...+...++.|-++|
T Consensus       132 KIa----DLVlLlIdgnfGfEMETmEFLnil~~H-Gm---PrvlgV~ThlDlfk~~-stLr~~KKrlkhRfWtEiy  198 (1077)
T COG5192         132 KIA----DLVLLLIDGNFGFEMETMEFLNILISH-GM---PRVLGVVTHLDLFKNP-STLRSIKKRLKHRFWTEIY  198 (1077)
T ss_pred             Hhh----heeEEEeccccCceehHHHHHHHHhhc-CC---CceEEEEeecccccCh-HHHHHHHHHHhhhHHHHHc
Confidence            655    999999999889999998888877764 33   4789999999998764 5666666665666665543

>KOG0075 consensus GTP-binding ADP-ribosylation factor-like protein [General function prediction only]

Probab=99.25  E-value=4.4e-11  Score=78.91  Aligned_cols=124  Identities=15%  Similarity=0.062  Sum_probs=82.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      ..+.++|-.+||||||+|.++..... .   ...+|...+...+.- ....+.++|.||...           ++..+..
T Consensus        21 mel~lvGLq~sGKtt~Vn~ia~g~~~-e---dmiptvGfnmrk~tk-gnvtiklwD~gGq~r-----------frsmWer   84 (186)
T KOG0075|consen   21 MELSLVGLQNSGKTTLVNVIARGQYL-E---DMIPTVGFNMRKVTK-GNVTIKLWDLGGQPR-----------FRSMWER   84 (186)
T ss_pred             eeEEEEeeccCCcceEEEEEeeccch-h---hhcccccceeEEecc-CceEEEEEecCCCcc-----------HHHHHHH
Confidence            68899999999999999998864421 1   123344444444432 456789999999998           6777777


Q ss_pred             ccCCceEEEEEEeCCCC--CCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhHHHHhcc
Q 030630          101 AKDGIHAVLVVFSVRSR--FSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGR  164 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~--~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~  164 (174)
                      +.++.++++|++|+.++  ++..-.+....+...  .-...|++++.||.|+..+-  .-.+.+.+
T Consensus        85 ycR~v~aivY~VDaad~~k~~~sr~EL~~LL~k~--~l~gip~LVLGnK~d~~~AL--~~~~li~r  146 (186)
T KOG0075|consen   85 YCRGVSAIVYVVDAADPDKLEASRSELHDLLDKP--SLTGIPLLVLGNKIDLPGAL--SKIALIER  146 (186)
T ss_pred             HhhcCcEEEEEeecCCcccchhhHHHHHHHhcch--hhcCCcEEEecccccCcccc--cHHHHHHH
Confidence            88899999999999742  222223333333321  11236999999999997662  33444433

>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]

Probab=99.25  E-value=3.1e-11  Score=81.02  Aligned_cols=123  Identities=16%  Similarity=0.062  Sum_probs=85.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEE--EEEEe--CCcEEEEEeCCCCCCCCCChHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ--RTVLK--DGQVVNVIDTPGLFDFSAGSEFVGKEIVK   96 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~--~~~~~--~~~~~~~iDtpG~~~~~~~~~~~~~~~~~   96 (174)
                      .|..++|.+-+|||+|+...+....+.-  +  .+|....+.  -++..  ....+.+|||+|..+           ++.
T Consensus         9 frlivigdstvgkssll~~ft~gkfael--s--dptvgvdffarlie~~pg~riklqlwdtagqer-----------frs   73 (213)
T KOG0091|consen    9 FRLIVIGDSTVGKSSLLRYFTEGKFAEL--S--DPTVGVDFFARLIELRPGYRIKLQLWDTAGQER-----------FRS   73 (213)
T ss_pred             EEEEEEcCCcccHHHHHHHHhcCccccc--C--CCccchHHHHHHHhcCCCcEEEEEEeeccchHH-----------HHH
Confidence            7899999999999999999987764321  1  222222211  11121  234678999999987           777


Q ss_pred             HHHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhH
Q 030630           97 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETL  158 (174)
Q Consensus        97 ~~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~  158 (174)
                      +.+..++..=++++|+|.+++-+.+. ..|++..+-..+.+.+.-..+|.+|.|+......+.
T Consensus        74 itksyyrnsvgvllvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRqVt~  136 (213)
T KOG0091|consen   74 ITKSYYRNSVGVLLVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQVTA  136 (213)
T ss_pred             HHHHHhhcccceEEEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhhhccccH
Confidence            88888888899999999987766666 677777776665343334568889999875443444

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=99.25  E-value=8.7e-11  Score=92.30  Aligned_cols=131  Identities=23%  Similarity=0.319  Sum_probs=92.2

Q ss_pred             CCCCceEEEEEcCCCCCHHHHHHHHhCCccc---ccc----------cCCCCcceeeEEEEEEEeCC--cEEEEEeCCCC
Q 030630           16 PSNGERTVVLVGRTGNGKSATGNSILGRRAF---KSR----------ASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGL   80 (174)
Q Consensus        16 ~~~~~~~i~i~G~~g~GKStlin~l~~~~~~---~~~----------~~~~~~t~~~~~~~~~~~~~--~~~~~iDtpG~   80 (174)
                      |..+-+.++|+.+-..|||||...|+.....   ..+          +...++|......++.|..+  ..+.+|||||+
T Consensus        56 P~~~iRNfsIIAHVDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIkaQtasify~~~~~ylLNLIDTPGH  135 (650)
T KOG0462|consen   56 PVENIRNFSIIAHVDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKAQTASIFYKDGQSYLLNLIDTPGH  135 (650)
T ss_pred             chhhccceEEEEEecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEeeeeEEEEEcCCceEEEeecCCCc
Confidence            3355688999999999999999998765431   111          12347788777777777331  57899999999


Q ss_pred             CCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhHHH
Q 030630           81 FDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLED  160 (174)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~  160 (174)
                      -++.       .+..+.+..+    +++|+++|+.++...++...+....+..     -.++.|+||+|+...+.+.++.
T Consensus       136 vDFs-------~EVsRslaac----~G~lLvVDA~qGvqAQT~anf~lAfe~~-----L~iIpVlNKIDlp~adpe~V~~  199 (650)
T KOG0462|consen  136 VDFS-------GEVSRSLAAC----DGALLVVDASQGVQAQTVANFYLAFEAG-----LAIIPVLNKIDLPSADPERVEN  199 (650)
T ss_pred             cccc-------ceehehhhhc----CceEEEEEcCcCchHHHHHHHHHHHHcC-----CeEEEeeeccCCCCCCHHHHHH
Confidence            9964       2233444444    9999999999888888866554433331     4789999999998876555544


Q ss_pred             Hh
Q 030630          161 YL  162 (174)
Q Consensus       161 ~~  162 (174)
                      -+
T Consensus       200 q~  201 (650)
T KOG0462|consen  200 QL  201 (650)
T ss_pred             HH
Confidence            33

>PRK13536 nodulation factor exporter subunit NodI; Provisional

Probab=99.25  E-value=6.8e-11  Score=90.56  Aligned_cols=43  Identities=28%  Similarity=0.373  Sum_probs=38.4

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++|+.+.|  ..++++|+||+|||||++.|+|...+..|
T Consensus        54 ~~~l~~is~~i~~G--ei~gLlGpNGaGKSTLl~~L~Gl~~p~~G   96 (340)
T PRK13536         54 KAVVNGLSFTVASG--ECFGLLGPNGAGKSTIARMILGMTSPDAG   96 (340)
T ss_pred             EEEEeeeEEEEcCC--CEEEEECCCCCCHHHHHHHHHcCCCCCce
Confidence            34678899999999  99999999999999999999998877665

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=99.24  E-value=6.3e-11  Score=81.71  Aligned_cols=127  Identities=12%  Similarity=0.086  Sum_probs=73.6

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCC
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~   85 (174)
                      .+.++++++.+.+  ..++++|+||+|||||++.|+|..++..|.......................++.+   +..   
T Consensus        14 ~vl~~i~~~i~~G--e~~~l~G~nGsGKSTLl~~i~G~~~~~~G~v~~~g~~~~~~~~~~~~~~~i~~~~q---LS~---   85 (163)
T cd03216          14 KALDGVSLSVRRG--EVHALLGENGAGKSTLMKILSGLYKPDSGEILVDGKEVSFASPRDARRAGIAMVYQ---LSV---   85 (163)
T ss_pred             EEEeeeEEEEeCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECCEECCcCCHHHHHhcCeEEEEe---cCH---
Confidence            4678889999999  99999999999999999999998876555221111000000000000112333333   221   


Q ss_pred             ChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHH-HHHHHHHHHhhhhcCcEEEEEeCc
Q 030630           86 GSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEA-ALHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~-~l~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                          -.++....++....+++++++ ..+++.++...++ ..+.+.+.. ..  ..++++++|-
T Consensus        86 ----G~~qrl~laral~~~p~illl-DEP~~~LD~~~~~~l~~~l~~~~-~~--~~tiii~sh~  141 (163)
T cd03216          86 ----GERQMVEIARALARNARLLIL-DEPTAALTPAEVERLFKVIRRLR-AQ--GVAVIFISHR  141 (163)
T ss_pred             ----HHHHHHHHHHHHhcCCCEEEE-ECCCcCCCHHHHHHHHHHHHHHH-HC--CCEEEEEeCC
Confidence                123344555556677776655 4444478887744 445554442 22  3677888875

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.

>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=99.24  E-value=8.7e-11  Score=85.46  Aligned_cols=42  Identities=26%  Similarity=0.275  Sum_probs=37.6

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++|+...+  .+++++|+||+|||||++.|+|...+..|
T Consensus        14 ~~l~~vs~~i~~G--e~~~l~G~nGsGKSTLl~~l~Gl~~p~~G   55 (232)
T cd03218          14 KVVNGVSLSVKQG--EIVGLLGPNGAGKTTTFYMIVGLVKPDSG   55 (232)
T ss_pred             EeeccceeEecCC--cEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            4678889999998  99999999999999999999998776665

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.

>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=99.24  E-value=7.5e-11  Score=82.12  Aligned_cols=135  Identities=15%  Similarity=0.115  Sum_probs=77.8

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCC
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~   85 (174)
                      .+.++++++++.+  ..++++|++|+|||||++.|+|...+..|................+ .....++.+.|.+... +
T Consensus        16 ~~l~~~~~~i~~G--e~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~-~~~i~~~~q~~~~~~~-t   91 (173)
T cd03246          16 PVLRNVSFSIEPG--ESLAIIGPSGSGKSTLARLILGLLRPTSGRVRLDGADISQWDPNEL-GDHVGYLPQDDELFSG-S   91 (173)
T ss_pred             cceeeeEEEECCC--CEEEEECCCCCCHHHHHHHHHhccCCCCCeEEECCEEcccCCHHHH-HhheEEECCCCccccC-c
Confidence            3678889999998  9999999999999999999999877655532111100000000000 1223444555544431 1


Q ss_pred             ChHH----HHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHH-HHHHHHHHhhhhcCcEEEEEeCc
Q 030630           86 GSEF----VGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAA-LHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus        86 ~~~~----~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~-l~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      ..+.    =.++....++....+++++++ ..++..++...+.. .+.+.+.. ..  ..++++++|-
T Consensus        92 v~~~lLS~G~~qrv~la~al~~~p~~lll-DEPt~~LD~~~~~~l~~~l~~~~-~~--~~tii~~sh~  155 (173)
T cd03246          92 IAENILSGGQRQRLGLARALYGNPRILVL-DEPNSHLDVEGERALNQAIAALK-AA--GATRIVIAHR  155 (173)
T ss_pred             HHHHCcCHHHHHHHHHHHHHhcCCCEEEE-ECCccccCHHHHHHHHHHHHHHH-hC--CCEEEEEeCC
Confidence            1111    123344455666777885554 44454888887544 45554442 22  3578888884

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

>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.24  E-value=6.1e-10  Score=73.02  Aligned_cols=129  Identities=16%  Similarity=0.177  Sum_probs=90.5

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHH
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~   98 (174)
                      ++.+++.+|-.++||||++..|.-..+     ...-+|...++..+.| ++-.+.++|.-|...           ++..+
T Consensus        16 KE~~ilmlGLd~aGKTtiLyKLkl~~~-----~~~ipTvGFnvetVty-kN~kfNvwdvGGqd~-----------iRplW   78 (180)
T KOG0071|consen   16 KEMRILMLGLDAAGKTTILYKLKLGQS-----VTTIPTVGFNVETVTY-KNVKFNVWDVGGQDK-----------IRPLW   78 (180)
T ss_pred             ccceEEEEecccCCceehhhHHhcCCC-----cccccccceeEEEEEe-eeeEEeeeeccCchh-----------hhHHH
Confidence            358999999999999999988875432     2223455556666666 788999999999887           88899


Q ss_pred             HhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhh-h-cCcEEEEEeCcCCCCCCh-hhHHHHhcccC
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK-I-FDYMIVVFTGGDELEDND-ETLEDYLGREC  166 (174)
Q Consensus        99 ~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~-~-~~~~~iv~tk~D~~~~~~-~~~~~~~~~~~  166 (174)
                      +.++.+..++|||+|..++ +..+ +.-+.+....+.+ . ..+++|+.||-|+.++-. ..+.+|++...
T Consensus        79 rhYy~gtqglIFV~Dsa~~-dr~e-eAr~ELh~ii~~~em~~~~~LvlANkQDlp~A~~pqei~d~leLe~  147 (180)
T KOG0071|consen   79 RHYYTGTQGLIFVVDSADR-DRIE-EARNELHRIINDREMRDAIILILANKQDLPDAMKPQEIQDKLELER  147 (180)
T ss_pred             HhhccCCceEEEEEeccch-hhHH-HHHHHHHHHhCCHhhhcceEEEEecCcccccccCHHHHHHHhcccc
Confidence            9999999999999998655 2222 2223344443332 1 246788899999976532 34667766543

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=99.24  E-value=4.4e-11  Score=90.36  Aligned_cols=44  Identities=16%  Similarity=0.095  Sum_probs=38.7

Q ss_pred             CCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            4 GSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      +..+.++++|+++.|  ..++++|+||||||||++.|+|...+..|
T Consensus         5 ~~~~l~~vs~~i~~G--e~~~l~G~NGaGKSTLl~~l~Gl~~p~~G   48 (302)
T TIGR01188         5 DFKAVDGVNFKVREG--EVFGFLGPNGAGKTTTIRMLTTLLRPTSG   48 (302)
T ss_pred             CeeEEeeeeEEEcCC--cEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            345778899999998  99999999999999999999998876665

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.

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=99.23  E-value=2e-10  Score=82.51  Aligned_cols=43  Identities=33%  Similarity=0.347  Sum_probs=38.0

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++.+.+  ..++++|+||+|||||++.|+|...+..|
T Consensus        13 ~~~l~~is~~i~~G--e~~~l~G~nGsGKSTLl~~l~G~~~~~~G   55 (213)
T cd03301          13 VTALDDLNLDIADG--EFVVLLGPSGCGKTTTLRMIAGLEEPTSG   55 (213)
T ss_pred             eeeeeceEEEEcCC--cEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            35678899999998  99999999999999999999998766555

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.

>COG1125 OpuBA ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=99.23  E-value=2.4e-11  Score=87.51  Aligned_cols=80  Identities=25%  Similarity=0.257  Sum_probs=55.9

Q ss_pred             CCCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCC
Q 030630            3 GGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   82 (174)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~   82 (174)
                      ++..+.++.+++.+.+  ..++++|++||||||++++|.+...+++|................+ +....|++.--|+++
T Consensus        12 ~~~~av~~v~l~I~~g--ef~vliGpSGsGKTTtLkMINrLiept~G~I~i~g~~i~~~d~~~L-Rr~IGYviQqigLFP   88 (309)
T COG1125          12 GNKKAVDDVNLTIEEG--EFLVLIGPSGSGKTTTLKMINRLIEPTSGEILIDGEDISDLDPVEL-RRKIGYVIQQIGLFP   88 (309)
T ss_pred             CCceeeeeeeEEecCC--eEEEEECCCCCcHHHHHHHHhcccCCCCceEEECCeecccCCHHHH-HHhhhhhhhhcccCC
Confidence            4567788999999999  9999999999999999999999887777643332222222222222 234567777777776


Q ss_pred             CCC
Q 030630           83 FSA   85 (174)
Q Consensus        83 ~~~   85 (174)
                      ..+
T Consensus        89 h~T   91 (309)
T COG1125          89 HLT   91 (309)
T ss_pred             Ccc
Confidence            443

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.23  E-value=1.4e-10  Score=89.71  Aligned_cols=120  Identities=22%  Similarity=0.383  Sum_probs=88.5

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcc-cccc-------------cCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCC
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRA-FKSR-------------ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~-~~~~-------------~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~   85 (174)
                      -+.|+|+.+...|||||+..|+.+.. |...             ....++|.-.+...+.| ++..+.++||||+-++..
T Consensus         5 iRNIAIIAHVDHGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTav~~-~~~~INIvDTPGHADFGG   83 (603)
T COG1217           5 IRNIAIIAHVDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTAVNY-NGTRINIVDTPGHADFGG   83 (603)
T ss_pred             cceeEEEEEecCCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEeccceeec-CCeEEEEecCCCcCCccc
Confidence            37899999999999999999987642 1111             11236777777778888 889999999999998653


Q ss_pred             ChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChh
Q 030630           86 GSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDE  156 (174)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~  156 (174)
                             +.-+.+..    +|.+++++|+.++.-++++..++...+.   .  -+-|+|+||.|...+...
T Consensus        84 -------EVERvl~M----VDgvlLlVDA~EGpMPQTrFVlkKAl~~---g--L~PIVVvNKiDrp~Arp~  138 (603)
T COG1217          84 -------EVERVLSM----VDGVLLLVDASEGPMPQTRFVLKKALAL---G--LKPIVVINKIDRPDARPD  138 (603)
T ss_pred             -------hhhhhhhh----cceEEEEEEcccCCCCchhhhHHHHHHc---C--CCcEEEEeCCCCCCCCHH
Confidence                   23333333    3999999999888889998876544443   2  255888999999876433

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=99.23  E-value=9.2e-11  Score=88.73  Aligned_cols=43  Identities=21%  Similarity=0.273  Sum_probs=38.1

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++|+.+.|  ..++++|+||||||||++.|+|...+..|
T Consensus        20 ~~~l~~vsl~i~~G--ei~gllGpNGaGKSTLl~~l~Gl~~p~~G   62 (306)
T PRK13537         20 KLVVDGLSFHVQRG--ECFGLLGPNGAGKTTTLRMLLGLTHPDAG   62 (306)
T ss_pred             eEEEecceEEEeCC--cEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            34678899999998  89999999999999999999998877665

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=99.22  E-value=2.2e-10  Score=81.62  Aligned_cols=43  Identities=16%  Similarity=0.208  Sum_probs=37.8

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++++.+  .+++++|+||+|||||++.|+|..++..|
T Consensus        13 ~~~l~~isl~i~~G--e~~~i~G~nGsGKSTLl~~l~G~~~~~~G   55 (201)
T cd03231          13 RALFSGLSFTLAAG--EALQVTGPNGSGKTTLLRILAGLSPPLAG   55 (201)
T ss_pred             ceeeccceEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            34678889999988  99999999999999999999998876655

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.

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=99.22  E-value=7.9e-11  Score=89.08  Aligned_cols=72  Identities=21%  Similarity=0.217  Sum_probs=50.6

Q ss_pred             cccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCC
Q 030630            7 IDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   83 (174)
Q Consensus         7 ~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~   83 (174)
                      +.++++++...|  ..++++||||||||||+++|+|...+++|....+....+....   .+....+++..+-+++.
T Consensus        18 ~l~~i~l~i~~G--ef~vllGPSGcGKSTlLr~IAGLe~~~~G~I~i~g~~vt~l~P---~~R~iamVFQ~yALyPh   89 (338)
T COG3839          18 VLKDVNLDIEDG--EFVVLLGPSGCGKSTLLRMIAGLEEPTSGEILIDGRDVTDLPP---EKRGIAMVFQNYALYPH   89 (338)
T ss_pred             eeecceEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCEECCCCCh---hHCCEEEEeCCccccCC
Confidence            678899999999  9999999999999999999999998877754333222222111   12234456666655553

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=99.22  E-value=8.5e-11  Score=82.50  Aligned_cols=136  Identities=12%  Similarity=0.094  Sum_probs=75.7

Q ss_pred             cccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCC---CCCCC
Q 030630            7 IDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTP---GLFDF   83 (174)
Q Consensus         7 ~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtp---G~~~~   83 (174)
                      +.++++++.+.+  ..++++|+||+|||||++.|+|...+..|.......................++.+.|   ++...
T Consensus        15 ~l~~vs~~i~~G--~~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~~~~~i~~~~q~~~~~~~~~~   92 (182)
T cd03215          15 AVRDVSFEVRAG--EIVGIAGLVGNGQTELAEALFGLRPPASGEITLDGKPVTRRSPRDAIRAGIAYVPEDRKREGLVLD   92 (182)
T ss_pred             eecceEEEEcCC--cEEEEECCCCCCHHHHHHHHhCCCCCCCceEEECCEECCccCHHHHHhCCeEEecCCcccCcccCC
Confidence            457788888888  9999999999999999999999987666532111100000000000012334445443   33432


Q ss_pred             CCChHHHH---------HHHHHHHHhccCCceEEEEEEeCCCCCCHHHHH-HHHHHHHHHhhhhcCcEEEEEeCc
Q 030630           84 SAGSEFVG---------KEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEA-ALHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus        84 ~~~~~~~~---------~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~-~l~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      .+..+.+.         ++....++....+++++++ ..++..++...++ ..+.+.+.. ..  ..++++++|-
T Consensus        93 ~t~~e~l~~~~~LS~G~~qrl~la~al~~~p~llll-DEP~~~LD~~~~~~l~~~l~~~~-~~--~~tiii~sh~  163 (182)
T cd03215          93 LSVAENIALSSLLSGGNQQKVVLARWLARDPRVLIL-DEPTRGVDVGAKAEIYRLIRELA-DA--GKAVLLISSE  163 (182)
T ss_pred             CcHHHHHHHHhhcCHHHHHHHHHHHHHccCCCEEEE-CCCCcCCCHHHHHHHHHHHHHHH-HC--CCEEEEEeCC
Confidence            22222221         1233444556677775554 4444478887744 444444442 22  3678888885

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.

>COG1135 AbcC ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=99.22  E-value=6e-11  Score=87.62  Aligned_cols=136  Identities=18%  Similarity=0.114  Sum_probs=89.0

Q ss_pred             cccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEE--EeCCcEEEEEeCCCCCCCC
Q 030630            7 IDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTV--LKDGQVVNVIDTPGLFDFS   84 (174)
Q Consensus         7 ~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~--~~~~~~~~~iDtpG~~~~~   84 (174)
                      ..++++++.+.|  .+++++|.+|+|||||++.+.+...|++|........-.......  ..+.+..+++.-+.+....
T Consensus        21 al~~vsL~I~~G--eI~GIIG~SGAGKSTLiR~iN~Le~PtsG~v~v~G~di~~l~~~~Lr~~R~~IGMIFQhFnLLssr   98 (339)
T COG1135          21 ALDDVSLEIPKG--EIFGIIGYSGAGKSTLLRLINLLERPTSGSVFVDGQDLTALSEAELRQLRQKIGMIFQHFNLLSSR   98 (339)
T ss_pred             eeccceEEEcCC--cEEEEEcCCCCcHHHHHHHHhccCCCCCceEEEcCEecccCChHHHHHHHhhccEEeccccccccc
Confidence            467889999999  999999999999999999999998887764322211111110000  0123445666766666544


Q ss_pred             CChHHH-----------------------------------------HHHHHHHHHhccCCceEEEEEEeCCCCCCHHH-
Q 030630           85 AGSEFV-----------------------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-  122 (174)
Q Consensus        85 ~~~~~~-----------------------------------------~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~-  122 (174)
                      +..+.+                                         .++-..++++.+.+|+ ++++..+++.+++.+ 
T Consensus        99 TV~~NvA~PLeiag~~k~ei~~RV~elLelVgL~dk~~~yP~qLSGGQKQRVaIARALa~~P~-iLL~DEaTSALDP~TT  177 (339)
T COG1135          99 TVFENVAFPLELAGVPKAEIKQRVAELLELVGLSDKADRYPAQLSGGQKQRVAIARALANNPK-ILLCDEATSALDPETT  177 (339)
T ss_pred             hHHhhhhhhHhhcCCCHHHHHHHHHHHHHHcCChhhhccCchhcCcchhhHHHHHHHHhcCCC-EEEecCccccCChHHH
Confidence            322211                                         2344455555556666 666888887899987 


Q ss_pred             HHHHHHHHHHHhhhhcCcEEEEEeC
Q 030630          123 EAALHSLQTLFGKKIFDYMIVVFTG  147 (174)
Q Consensus       123 ~~~l~~l~~~~~~~~~~~~~iv~tk  147 (174)
                      ..+++.|++...+-  .-+++++||
T Consensus       178 ~sIL~LL~~In~~l--glTIvlITH  200 (339)
T COG1135         178 QSILELLKDINREL--GLTIVLITH  200 (339)
T ss_pred             HHHHHHHHHHHHHc--CCEEEEEec
Confidence            67777777775433  578899999

>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=99.22  E-value=1e-10  Score=85.29  Aligned_cols=42  Identities=21%  Similarity=0.283  Sum_probs=37.6

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.+++++++..|  ..++++|+||+|||||++.|+|...+..|
T Consensus        14 ~~l~~vs~~i~~G--e~~~l~G~nGsGKSTLl~~l~G~~~p~~G   55 (235)
T cd03261          14 TVLKGVDLDVRRG--EILAIIGPSGSGKSTLLRLIVGLLRPDSG   55 (235)
T ss_pred             EEEeeeEEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            4678889999999  99999999999999999999998876655

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.

>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=99.22  E-value=1.3e-10  Score=83.69  Aligned_cols=43  Identities=26%  Similarity=0.210  Sum_probs=38.3

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++|+++.+  ..++++|+||+|||||++.|+|..++..|
T Consensus        17 ~~il~~~s~~i~~G--~~~~l~G~nGsGKSTLl~~i~Gl~~~~~G   59 (218)
T cd03255          17 VQALKGVSLSIEKG--EFVAIVGPSGSGKSTLLNILGGLDRPTSG   59 (218)
T ss_pred             eeEEeeeEEEEcCC--CEEEEEcCCCCCHHHHHHHHhCCcCCCce
Confidence            34788899999999  99999999999999999999999876655

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.

>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=99.22  E-value=2.2e-10  Score=82.77  Aligned_cols=42  Identities=31%  Similarity=0.297  Sum_probs=37.4

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++++.+.+  ..++++|+||+|||||++.|+|...+..|
T Consensus        18 ~il~~vs~~i~~G--~~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   59 (220)
T cd03293          18 TALEDISLSVEEG--EFVALVGPSGCGKSTLLRIIAGLERPTSG   59 (220)
T ss_pred             EEEeceeEEEeCC--cEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            4678899999999  99999999999999999999998766555

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.

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=99.22  E-value=2.2e-10  Score=84.57  Aligned_cols=43  Identities=26%  Similarity=0.387  Sum_probs=38.1

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++|++..|  .+++|+|+||+|||||++.|+|...+..|
T Consensus        25 ~~il~~isl~i~~G--e~~~I~G~NGsGKSTLlk~l~Gl~~p~~G   67 (257)
T PRK11247         25 RTVLNQLDLHIPAG--QFVAVVGRSGCGKSTLLRLLAGLETPSAG   67 (257)
T ss_pred             cceeeeeEEEEcCC--CEEEEECCCCCCHHHHHHHHhcCCCCCCe
Confidence            45678899999998  99999999999999999999998766555

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=99.22  E-value=7.7e-11  Score=81.92  Aligned_cols=134  Identities=20%  Similarity=0.173  Sum_probs=76.4

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCC
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~   85 (174)
                      .+.++++++++.+  ..++++|+||+|||||++.|+|..++..|................+ .....++.+.|.+.+. +
T Consensus        16 ~~l~~i~~~i~~G--~~~~l~G~nGsGKstLl~~i~G~~~~~~G~i~~~g~~~~~~~~~~~-~~~i~~~~~~~~~~~~-t   91 (171)
T cd03228          16 PVLKDVSLTIKPG--EKVAIVGPSGSGKSTLLKLLLRLYDPTSGEILIDGVDLRDLDLESL-RKNIAYVPQDPFLFSG-T   91 (171)
T ss_pred             ccccceEEEEcCC--CEEEEECCCCCCHHHHHHHHHcCCCCCCCEEEECCEEhhhcCHHHH-HhhEEEEcCCchhccc-h
Confidence            4788899999999  9999999999999999999999887655522111100000000000 1123344555544431 1


Q ss_pred             ChHH----HHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHH-HHHHHHHHHhhhhcCcEEEEEeCc
Q 030630           86 GSEF----VGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEA-ALHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus        86 ~~~~----~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~-~l~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      ..+.    -.++....++....+++++++ ...++.++..... ..+.+.+. ..   ..+++++||.
T Consensus        92 ~~e~lLS~G~~~rl~la~al~~~p~llll-DEP~~gLD~~~~~~l~~~l~~~-~~---~~tii~~sh~  154 (171)
T cd03228          92 IRENILSGGQRQRIAIARALLRDPPILIL-DEATSALDPETEALILEALRAL-AK---GKTVIVIAHR  154 (171)
T ss_pred             HHHHhhCHHHHHHHHHHHHHhcCCCEEEE-ECCCcCCCHHHHHHHHHHHHHh-cC---CCEEEEEecC
Confidence            1111    122334445556677775554 3444478877744 44444443 22   3577777875

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.

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=99.22  E-value=1.8e-10  Score=82.33  Aligned_cols=44  Identities=16%  Similarity=0.166  Sum_probs=38.5

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      ..+.++++++++.+  .+++++|+||+|||||++.|+|...+..|.
T Consensus        14 ~~~l~~vs~~i~~G--e~~~l~G~nGsGKSTLl~~l~G~~~p~~G~   57 (204)
T PRK13538         14 RILFSGLSFTLNAG--ELVQIEGPNGAGKTSLLRILAGLARPDAGE   57 (204)
T ss_pred             EEEEecceEEECCC--cEEEEECCCCCCHHHHHHHHhCCCCCCCcE
Confidence            34678899999999  999999999999999999999988766653

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=99.21  E-value=1.4e-10  Score=83.31  Aligned_cols=43  Identities=21%  Similarity=0.200  Sum_probs=38.0

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++++.+  .+++++|+||+|||||++.|+|...+..|
T Consensus        15 ~~il~~is~~i~~G--~~~~l~G~nGsGKSTLl~~i~Gl~~~~~G   57 (214)
T TIGR02673        15 VAALHDVSLHIRKG--EFLFLTGPSGAGKTTLLKLLYGALTPSRG   57 (214)
T ss_pred             ceeecceeEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            35788899999999  99999999999999999999998766555

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.

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=99.21  E-value=2.3e-10  Score=85.10  Aligned_cols=43  Identities=23%  Similarity=0.178  Sum_probs=38.0

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++.+.+  ..++|+|+||+|||||++.|+|..++..|
T Consensus        37 ~~il~~is~~i~~G--e~~~l~G~nGsGKSTLl~~L~Gl~~p~~G   79 (269)
T cd03294          37 TVGVNDVSLDVREG--EIFVIMGLSGSGKSTLLRCINRLIEPTSG   79 (269)
T ss_pred             ceEeeeeEEEEcCC--CEEEEECCCCCCHHHHHHHHhcCCCCCCe
Confidence            34678899999998  99999999999999999999998876555

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.

>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=99.20  E-value=1.6e-10  Score=83.42  Aligned_cols=43  Identities=16%  Similarity=0.067  Sum_probs=37.9

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.+++++++..+  ..++++|+||+|||||++.|+|..++..|
T Consensus        13 ~~il~~vs~~i~~G--e~~~i~G~nGsGKSTLl~~i~G~~~~~~G   55 (220)
T cd03265          13 FEAVRGVSFRVRRG--EIFGLLGPNGAGKTTTIKMLTTLLKPTSG   55 (220)
T ss_pred             EEeeeceeEEECCC--CEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            34678889999988  99999999999999999999998766555

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.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=99.20  E-value=1.1e-10  Score=83.97  Aligned_cols=42  Identities=29%  Similarity=0.325  Sum_probs=37.5

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++++++.+  ..++++|+||+|||||++.|+|...+..|
T Consensus        17 ~il~~isl~i~~G--e~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   58 (216)
T TIGR00960        17 PALDNLNFHITKG--EMVFLVGHSGAGKSTFLKLILGIEKPTRG   58 (216)
T ss_pred             eEEEeeEEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            3778899999999  99999999999999999999998766555

>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=99.20  E-value=1.7e-10  Score=83.17  Aligned_cols=42  Identities=21%  Similarity=0.217  Sum_probs=37.9

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++++++.+  ..++++|+||+|||||++.|+|..++..|
T Consensus        19 ~il~~~sl~i~~G--e~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   60 (218)
T cd03266          19 QAVDGVSFTVKPG--EVTGLLGPNGAGKTTTLRMLAGLLEPDAG   60 (218)
T ss_pred             eeecceEEEEcCC--cEEEEECCCCCCHHHHHHHHhCCcCCCCc
Confidence            4788999999998  99999999999999999999998876665

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.

>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=99.20  E-value=5.7e-10  Score=77.18  Aligned_cols=122  Identities=15%  Similarity=0.130  Sum_probs=71.8

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCC
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~   85 (174)
                      .+.++++++...+  .+++++|+||+|||||++.|+|...+..|.......            ....++.+.|.+.. .+
T Consensus        15 ~~l~~i~l~i~~G--e~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~------------~~i~~~~q~~~~~~-~t   79 (166)
T cd03223          15 VLLKDLSFEIKPG--DRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEG------------EDLLFLPQRPYLPL-GT   79 (166)
T ss_pred             eeeecCeEEECCC--CEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCC------------ceEEEECCCCcccc-cc
Confidence            4678889999998  999999999999999999999987665553211110            11112222222211 00


Q ss_pred             ChH-----------HHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHH-HHHHHHHhhhhcCcEEEEEeCcC
Q 030630           86 GSE-----------FVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAAL-HSLQTLFGKKIFDYMIVVFTGGD  149 (174)
Q Consensus        86 ~~~-----------~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l-~~l~~~~~~~~~~~~~iv~tk~D  149 (174)
                      ..+           .-.++....++....+++.+++- .+++.++....+.+ +.+.+.      ..+++++||-.
T Consensus        80 v~~nl~~~~~~~LS~G~~~rv~laral~~~p~~lllD-EPt~~LD~~~~~~l~~~l~~~------~~tiiivsh~~  148 (166)
T cd03223          80 LREQLIYPWDDVLSGGEQQRLAFARLLLHKPKFVFLD-EATSALDEESEDRLYQLLKEL------GITVISVGHRP  148 (166)
T ss_pred             HHHHhhccCCCCCCHHHHHHHHHHHHHHcCCCEEEEE-CCccccCHHHHHHHHHHHHHh------CCEEEEEeCCh
Confidence            001           11233444555566778766653 33447777765444 333332      36788888863

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

>PRK10908 cell division protein FtsE; Provisional

Probab=99.20  E-value=2.1e-10  Score=82.98  Aligned_cols=43  Identities=19%  Similarity=0.163  Sum_probs=38.1

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++++.+  ..++++|+||+|||||++.|+|..++..|
T Consensus        15 ~~~l~~vsl~i~~G--e~~~i~G~nGsGKSTLl~~l~G~~~~~~G   57 (222)
T PRK10908         15 RQALQGVTFHMRPG--EMAFLTGHSGAGKSTLLKLICGIERPSAG   57 (222)
T ss_pred             CeEEeeeeEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            35678889999988  99999999999999999999998876665

>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=99.20  E-value=3.4e-10  Score=82.65  Aligned_cols=45  Identities=20%  Similarity=0.164  Sum_probs=38.9

Q ss_pred             CCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            4 GSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      ...+.++++++++.+  ..++|+|+||+|||||++.|+|...+..|.
T Consensus        33 ~~~il~~vs~~i~~G--e~~~i~G~NGsGKSTLl~~i~Gl~~p~~G~   77 (236)
T cd03267          33 EVEALKGISFTIEKG--EIVGFIGPNGAGKTTTLKILSGLLQPTSGE   77 (236)
T ss_pred             CeeeeeceeEEEcCC--CEEEEECCCCCCHHHHHHHHhCCcCCCceE
Confidence            345788899999998  999999999999999999999987666653

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.

>KOG0088 consensus GTPase Rab21, small G protein superfamily [General function prediction only]

Probab=99.19  E-value=2.9e-11  Score=80.77  Aligned_cols=121  Identities=18%  Similarity=0.186  Sum_probs=83.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccc-cCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSR-ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .+++++|.-=+|||||+-..+... |+.. .++...........+.. ..-.+.+|||.|..+++           ..-.
T Consensus        14 FK~VLLGEGCVGKtSLVLRy~Enk-Fn~kHlsTlQASF~~kk~n~ed-~ra~L~IWDTAGQErfH-----------ALGP   80 (218)
T KOG0088|consen   14 FKIVLLGEGCVGKTSLVLRYVENK-FNCKHLSTLQASFQNKKVNVED-CRADLHIWDTAGQERFH-----------ALGP   80 (218)
T ss_pred             eEEEEEcCCccchhHHHHHHHHhh-cchhhHHHHHHHHhhccccccc-ceeeeeeeeccchHhhh-----------ccCc
Confidence            789999999999999987666543 2222 11122222222222322 33467899999998743           2234


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChh
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDE  156 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~  156 (174)
                      .++++.+++++|+|.+++-+..- ..|+..|+..+|..  ...+||.||.|+-+....
T Consensus        81 IYYRgSnGalLVyDITDrdSFqKVKnWV~Elr~mlGne--i~l~IVGNKiDLEeeR~V  136 (218)
T KOG0088|consen   81 IYYRGSNGALLVYDITDRDSFQKVKNWVLELRTMLGNE--IELLIVGNKIDLEEERQV  136 (218)
T ss_pred             eEEeCCCceEEEEeccchHHHHHHHHHHHHHHHHhCCe--eEEEEecCcccHHHhhhh
Confidence            57889999999999986655544 78888899998887  588999999999765433

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=99.19  E-value=2.1e-10  Score=82.21  Aligned_cols=43  Identities=28%  Similarity=0.275  Sum_probs=37.6

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++..++  ..++++|+||+|||||++.|+|..++..|
T Consensus        13 ~~~l~~v~~~i~~G--~~~~i~G~nGsGKSTLl~~l~G~~~~~~G   55 (210)
T cd03269          13 VTALDDISFSVEKG--EIFGLLGPNGAGKTTTIRMILGIILPDSG   55 (210)
T ss_pred             EEEEeeeEEEEcCC--cEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            34678889999988  99999999999999999999998766555

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.

>cd01858 NGP_1 NGP-1

Probab=99.19  E-value=7.5e-11  Score=80.82  Aligned_cols=56  Identities=23%  Similarity=0.332  Sum_probs=39.9

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCC
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   80 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~   80 (174)
                      ..+++++|.+|+|||||+|+|.+......+. ..+.|.....  +.  ....++++||||+
T Consensus       102 ~~~v~~~G~~nvGKStliN~l~~~~~~~~~~-~~g~T~~~~~--~~--~~~~~~liDtPGi  157 (157)
T cd01858         102 QISVGFIGYPNVGKSSIINTLRSKKVCKVAP-IPGETKVWQY--IT--LMKRIYLIDCPGV  157 (157)
T ss_pred             ceEEEEEeCCCCChHHHHHHHhcCCceeeCC-CCCeeEeEEE--EE--cCCCEEEEECcCC
Confidence            4788999999999999999999977654443 2333443322  21  3455899999996

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.

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=99.19  E-value=1.8e-10  Score=91.01  Aligned_cols=123  Identities=17%  Similarity=0.243  Sum_probs=87.0

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccccccCC-CCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHH
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASS-SGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~-~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~   97 (174)
                      +..||+++|..|+||||||-+|+....+..-... ...+....+    .+......++||+.-.+           -+.+
T Consensus         8 kdVRIvliGD~G~GKtSLImSL~~eef~~~VP~rl~~i~IPadv----tPe~vpt~ivD~ss~~~-----------~~~~   72 (625)
T KOG1707|consen    8 KDVRIVLIGDEGVGKTSLIMSLLEEEFVDAVPRRLPRILIPADV----TPENVPTSIVDTSSDSD-----------DRLC   72 (625)
T ss_pred             cceEEEEECCCCccHHHHHHHHHhhhccccccccCCccccCCcc----CcCcCceEEEecccccc-----------hhHH
Confidence            3479999999999999999999998765443221 122222221    12344578999985554           2333


Q ss_pred             HHhccCCceEEEEEEeCCC--CCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChh
Q 030630           98 IGMAKDGIHAVLVVFSVRS--RFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDE  156 (174)
Q Consensus        98 ~~~~~~~~~~il~v~~~~~--~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~  156 (174)
                      +...++++|+++++...++  .++.....|+-.+++.++...+.|+|+|.||.|.....-.
T Consensus        73 l~~EirkA~vi~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~  133 (625)
T KOG1707|consen   73 LRKEIRKADVICLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENN  133 (625)
T ss_pred             HHHHHhhcCEEEEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCcccccc
Confidence            3344566799999987763  4556668999999999888777899999999999876433

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.19  E-value=7.1e-10  Score=86.38  Aligned_cols=89  Identities=19%  Similarity=0.107  Sum_probs=58.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEE--------------------e---CCcEEEEEeC
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL--------------------K---DGQVVNVIDT   77 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~--------------------~---~~~~~~~iDt   77 (174)
                      .+|+++|.+++|||||+|+|++.... .+ ..+..|..........                    .   ....+.++||
T Consensus         2 ~kigivG~pnvGKSTlfn~Lt~~~~~-~~-~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~   79 (396)
T PRK09602          2 ITIGLVGKPNVGKSTFFNAATLADVE-IA-NYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDV   79 (396)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCccc-cc-CCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEc
Confidence            57999999999999999999987642 21 2233333333322110                    0   1235789999


Q ss_pred             CCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCC
Q 030630           78 PGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVR  115 (174)
Q Consensus        78 pG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~  115 (174)
                      ||+..+......+...+.+.++    .+|++++|+|+.
T Consensus        80 aGl~~ga~~g~glg~~fL~~ir----~ad~ll~Vvd~~  113 (396)
T PRK09602         80 AGLVPGAHEGRGLGNQFLDDLR----QADALIHVVDAS  113 (396)
T ss_pred             CCcCCCccchhhHHHHHHHHHH----HCCEEEEEEeCC
Confidence            9998765444445555665555    449999999985

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=99.19  E-value=4.3e-10  Score=80.91  Aligned_cols=43  Identities=14%  Similarity=0.242  Sum_probs=38.1

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++.+.|  .+++++|+||+|||||++.|+|...+..|
T Consensus        24 ~~il~~vs~~i~~G--e~~~i~G~nGsGKSTLl~~i~G~~~~~~G   66 (214)
T PRK13543         24 EPVFGPLDFHVDAG--EALLVQGDNGAGKTTLLRVLAGLLHVESG   66 (214)
T ss_pred             ceeeecceEEECCC--CEEEEEcCCCCCHHHHHHHHhCCCCCCCe
Confidence            35678889999998  99999999999999999999998876665

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=99.19  E-value=3.7e-10  Score=80.07  Aligned_cols=134  Identities=13%  Similarity=0.066  Sum_probs=78.3

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCc--ccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCC
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRR--AFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   82 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~--~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~   82 (174)
                      ..+.++++++.+.+  ..++++|+||+|||||++.|+|..  .+..|........ ..  ...+ .....++.+.|.+..
T Consensus        22 ~~~l~~~~~~i~~G--e~~~l~G~nGsGKStLl~~i~Gl~~~~~~~G~i~~~g~~-~~--~~~~-~~~i~~~~q~~~~~~   95 (194)
T cd03213          22 KQLLKNVSGKAKPG--ELTAIMGPSGAGKSTLLNALAGRRTGLGVSGEVLINGRP-LD--KRSF-RKIIGYVPQDDILHP   95 (194)
T ss_pred             ccceecceEEEcCC--cEEEEECCCCCCHHHHHHHHhCCCCCCCCceEEEECCEe-Cc--hHhh-hheEEEccCcccCCC
Confidence            35788999999998  999999999999999999999987  6555422111100 00  0011 223345556666554


Q ss_pred             CCCChHHH------------HHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHH-HHHHHHHHhhhhcCcEEEEEeCc
Q 030630           83 FSAGSEFV------------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAA-LHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus        83 ~~~~~~~~------------~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~-l~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      ..+..+..            .++....++..+.+++++++ ..+++.++....+. .+.+.+. ...  ..++++++|.
T Consensus        96 ~~t~~~~i~~~~~~~~LS~G~~qrv~laral~~~p~illl-DEP~~~LD~~~~~~l~~~l~~~-~~~--~~tiii~sh~  170 (194)
T cd03213          96 TLTVRETLMFAAKLRGLSGGERKRVSIALELVSNPSLLFL-DEPTSGLDSSSALQVMSLLRRL-ADT--GRTIICSIHQ  170 (194)
T ss_pred             CCcHHHHHHHHHHhccCCHHHHHHHHHHHHHHcCCCEEEE-eCCCcCCCHHHHHHHHHHHHHH-HhC--CCEEEEEecC
Confidence            32222211            12223344555667775554 44445888887544 4444443 222  4678888885

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.

>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI

Probab=99.19  E-value=2.1e-10  Score=86.71  Aligned_cols=43  Identities=23%  Similarity=0.329  Sum_probs=38.2

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++|+.+.|  .+++++|+||||||||++.|+|...+..|
T Consensus        17 ~~~l~~vsl~i~~G--e~~~l~G~NGaGKSTLl~~l~Gl~~p~~G   59 (303)
T TIGR01288        17 KVVVNDLSFTIARG--ECFGLLGPNGAGKSTIARMLLGMISPDRG   59 (303)
T ss_pred             eEEEcceeEEEcCC--cEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            34678999999999  99999999999999999999998766555

This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=99.19  E-value=2.2e-10  Score=81.97  Aligned_cols=43  Identities=28%  Similarity=0.297  Sum_probs=37.9

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++|+.+.+  ..++++|+||+|||||++.|+|..++..|
T Consensus        13 ~~~l~~~~~~i~~G--~~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   55 (208)
T cd03268          13 KRVLDDISLHVKKG--EIYGFLGPNGAGKTTTMKIILGLIKPDSG   55 (208)
T ss_pred             eEeEeeeEEEEcCC--cEEEEECCCCCCHHHHHHHHhCCcCCCce
Confidence            34678889999998  99999999999999999999998776665

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.

>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=99.19  E-value=3.9e-10  Score=76.20  Aligned_cols=112  Identities=19%  Similarity=0.168  Sum_probs=68.4

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCC
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~   85 (174)
                      .+.++++++.+.+  ..++++|+||+|||||++.|+|..++..|......    .        ....++.+   +..   
T Consensus        14 ~~l~~~~~~~~~G--e~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~~----~--------~~i~~~~~---lS~---   73 (144)
T cd03221          14 LLLKDISLTINPG--DRIGLVGRNGAGKSTLLKLIAGELEPDEGIVTWGS----T--------VKIGYFEQ---LSG---   73 (144)
T ss_pred             eEEEeeEEEECCC--CEEEEECCCCCCHHHHHHHHcCCCCCCceEEEECC----e--------EEEEEEcc---CCH---
Confidence            4678889999998  99999999999999999999998765544211110    0        01112222   221   


Q ss_pred             ChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHH-HHHHHHHhhhhcCcEEEEEeCc
Q 030630           86 GSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAAL-HSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l-~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                        .  .++....++....+++.+++- .+...++......+ +.+++.      ..++++++|.
T Consensus        74 --G--~~~rv~laral~~~p~illlD-EP~~~LD~~~~~~l~~~l~~~------~~til~~th~  126 (144)
T cd03221          74 --G--EKMRLALAKLLLENPNLLLLD-EPTNHLDLESIEALEEALKEY------PGTVILVSHD  126 (144)
T ss_pred             --H--HHHHHHHHHHHhcCCCEEEEe-CCccCCCHHHHHHHHHHHHHc------CCEEEEEECC
Confidence              1  233444455566777766653 33347777765444 333332      3578888875

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.

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=99.18  E-value=1.8e-10  Score=83.21  Aligned_cols=43  Identities=26%  Similarity=0.277  Sum_probs=38.3

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++.+.+  ..++++|+||+|||||++.|+|...+..|
T Consensus        15 ~~il~~is~~i~~G--e~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   57 (220)
T cd03263          15 KPAVDDLSLNVYKG--EIFGLLGHNGAGKTTTLKMLTGELRPTSG   57 (220)
T ss_pred             ceeecceEEEEcCC--cEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            34788999999999  99999999999999999999998876655

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.

>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=99.18  E-value=1.4e-10  Score=92.09  Aligned_cols=136  Identities=22%  Similarity=0.189  Sum_probs=80.8

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCC
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~   85 (174)
                      -...+.+++.+.+  .+++++|++|+|||||++.|+|..++..|........-.+.....| +++...+-+-|-+..+..
T Consensus       335 ~~l~~l~~t~~~g--~~talvG~SGaGKSTLl~lL~G~~~~~~G~I~vng~~l~~l~~~~~-~k~i~~v~Q~p~lf~gTi  411 (559)
T COG4988         335 PALSDLNLTIKAG--QLTALVGASGAGKSTLLNLLLGFLAPTQGEIRVNGIDLRDLSPEAW-RKQISWVSQNPYLFAGTI  411 (559)
T ss_pred             cccCCceeEecCC--cEEEEECCCCCCHHHHHHHHhCcCCCCCceEEECCccccccCHHHH-HhHeeeeCCCCccccccH
Confidence            3567889999999  9999999999999999999999988766654333222222222222 222333344444332111


Q ss_pred             -----------ChHHH---------------------------------HHHHHHHHHhccCCceEEEEEEeCCCCCCHH
Q 030630           86 -----------GSEFV---------------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE  121 (174)
Q Consensus        86 -----------~~~~~---------------------------------~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~  121 (174)
                                 +.+.+                                 ..+-...++....+++++++- .++.+++.+
T Consensus       412 reNi~l~~~~~s~e~i~~al~~a~l~~~v~~p~GLdt~ige~G~~LSgGQ~QRlaLARAll~~~~l~llD-EpTA~LD~e  490 (559)
T COG4988         412 RENILLARPDASDEEIIAALDQAGLLEFVPKPDGLDTVIGEGGAGLSGGQAQRLALARALLSPASLLLLD-EPTAHLDAE  490 (559)
T ss_pred             HHHhhccCCcCCHHHHHHHHHHhcHHHhhcCCCcccchhccCCCCCCHHHHHHHHHHHHhcCCCCEEEec-CCccCCCHh
Confidence                       00100                                 122334445556666655543 445589888


Q ss_pred             HHH-HHHHHHHHHhhhhcCcEEEEEeCcC
Q 030630          122 EEA-ALHSLQTLFGKKIFDYMIVVFTGGD  149 (174)
Q Consensus       122 ~~~-~l~~l~~~~~~~~~~~~~iv~tk~D  149 (174)
                      +++ +++.|.+.. +   ..+++++||-.
T Consensus       491 tE~~i~~~l~~l~-~---~ktvl~itHrl  515 (559)
T COG4988         491 TEQIILQALQELA-K---QKTVLVITHRL  515 (559)
T ss_pred             HHHHHHHHHHHHH-h---CCeEEEEEcCh
Confidence            854 445555543 2   36888999944

>COG3845 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]

Probab=99.18  E-value=9.2e-11  Score=91.29  Aligned_cols=134  Identities=15%  Similarity=0.123  Sum_probs=80.5

Q ss_pred             ccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeC------CcEEEEEeCCCCC
Q 030630            8 DDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD------GQVVNVIDTPGLF   81 (174)
Q Consensus         8 ~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~------~~~~~~iDtpG~~   81 (174)
                      .++++++...+  ...+++|.||+|||||++.|.|...|++|.............+.+-.+      .+.|.++|+--..
T Consensus        20 nd~V~l~v~~G--eIHaLLGENGAGKSTLm~iL~G~~~P~~GeI~v~G~~v~~~sP~dA~~~GIGMVhQHF~Lv~~lTV~   97 (501)
T COG3845          20 NDDVSLSVKKG--EIHALLGENGAGKSTLMKILFGLYQPDSGEIRVDGKEVRIKSPRDAIRLGIGMVHQHFMLVPTLTVA   97 (501)
T ss_pred             cCceeeeecCC--cEEEEeccCCCCHHHHHHHHhCcccCCcceEEECCEEeccCCHHHHHHcCCcEEeeccccccccchh
Confidence            67788888888  999999999999999999999999888774322111000000000000      1234444443222


Q ss_pred             CCCC-----------ChHHH---------------------------HHHHHHHHHhccCCceEEEEEEeCCCCCCHHH-
Q 030630           82 DFSA-----------GSEFV---------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-  122 (174)
Q Consensus        82 ~~~~-----------~~~~~---------------------------~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~-  122 (174)
                      ++-.           .....                           .++..++++..+++++.+|+--+ +.-+++.+ 
T Consensus        98 ENiiLg~e~~~~~~~~~~~~~~~i~~l~~~yGl~vdp~~~V~dLsVG~qQRVEIlKaLyr~a~iLILDEP-TaVLTP~E~  176 (501)
T COG3845          98 ENIILGLEPSKGGLIDRRQARARIKELSERYGLPVDPDAKVADLSVGEQQRVEILKALYRGARLLILDEP-TAVLTPQEA  176 (501)
T ss_pred             hhhhhcCccccccccCHHHHHHHHHHHHHHhCCCCCccceeecCCcchhHHHHHHHHHhcCCCEEEEcCC-cccCCHHHH
Confidence            1100           00000                           46667788888899997776444 44788887 


Q ss_pred             HHHHHHHHHHHhhhhcCcEEEEEeC
Q 030630          123 EAALHSLQTLFGKKIFDYMIVVFTG  147 (174)
Q Consensus       123 ~~~l~~l~~~~~~~~~~~~~iv~tk  147 (174)
                      .+.++.++++. ..  ...+|++||
T Consensus       177 ~~lf~~l~~l~-~~--G~tIi~ITH  198 (501)
T COG3845         177 DELFEILRRLA-AE--GKTIIFITH  198 (501)
T ss_pred             HHHHHHHHHHH-HC--CCEEEEEec
Confidence            56677777654 33  356777777

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=99.18  E-value=3.7e-10  Score=80.29  Aligned_cols=43  Identities=16%  Similarity=0.169  Sum_probs=37.8

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++...+  ..++++|+||+|||||++.|+|...+..|
T Consensus        13 ~~~l~~vsl~i~~G--e~~~i~G~nGsGKSTLl~~l~G~~~~~~G   55 (198)
T TIGR01189        13 RMLFEGLSFTLNAG--EALQVTGPNGIGKTTLLRILAGLLRPDSG   55 (198)
T ss_pred             EEEEeeeeEEEcCC--cEEEEECCCCCCHHHHHHHHhCCCCCCcc
Confidence            34678889999998  99999999999999999999998766555

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.

>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=99.18  E-value=1.8e-10  Score=83.24  Aligned_cols=42  Identities=33%  Similarity=0.412  Sum_probs=37.4

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++|+...+  ..++++|+||+|||||++.|+|...+..|
T Consensus        14 ~~l~~vs~~i~~G--e~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   55 (222)
T cd03224          14 QILFGVSLTVPEG--EIVALLGRNGAGKTTLLKTIMGLLPPRSG   55 (222)
T ss_pred             eEeeeeeEEEcCC--eEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            4678889999998  99999999999999999999998876555

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.

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=99.18  E-value=6.4e-10  Score=82.11  Aligned_cols=43  Identities=28%  Similarity=0.360  Sum_probs=38.0

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++++.|  .+++|+|+||+|||||++.|+|...+..|
T Consensus        14 ~~il~~vs~~i~~G--e~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   56 (255)
T PRK11248         14 KPALEDINLTLESG--ELLVVLGPSGCGKTTLLNLIAGFVPYQHG   56 (255)
T ss_pred             eeeEeeeeEEECCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            34678899999999  99999999999999999999998776555

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=99.17  E-value=1.5e-10  Score=92.82  Aligned_cols=48  Identities=27%  Similarity=0.339  Sum_probs=41.8

Q ss_pred             CCCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCC
Q 030630            3 GGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASS   52 (174)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~   52 (174)
                      |...+.++.++++..+  .|+++||+||+|||||++.|+|...+..|...
T Consensus        14 g~~~l~~~~~l~~~~G--~riGLvG~NGaGKSTLLkilaG~~~~~~G~i~   61 (530)
T COG0488          14 GDRPLLENVSLTLNPG--ERIGLVGRNGAGKSTLLKILAGELEPDSGEVT   61 (530)
T ss_pred             CCceeecCCcceeCCC--CEEEEECCCCCCHHHHHHHHcCCCcCCCCeEe
Confidence            5566788999999999  99999999999999999999999877666433

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=99.17  E-value=1.7e-10  Score=83.84  Aligned_cols=42  Identities=26%  Similarity=0.389  Sum_probs=37.7

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++|+++.+  ..++++|+||+|||||++.|+|...+..|
T Consensus        14 ~~l~~vs~~i~~G--e~~~l~G~nGsGKSTLl~~l~G~~~~~~G   55 (230)
T TIGR03410        14 HILRGVSLEVPKG--EVTCVLGRNGVGKTTLLKTLMGLLPVKSG   55 (230)
T ss_pred             EEecceeeEECCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCC
Confidence            4678899999998  99999999999999999999999876665

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.

>COG4152 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=99.17  E-value=1.2e-10  Score=83.45  Aligned_cols=136  Identities=13%  Similarity=0.123  Sum_probs=85.9

Q ss_pred             CCCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCC
Q 030630            3 GGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   82 (174)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~   82 (174)
                      |...+.++++|+.+++  ...+++|+|||||||++++|++...+..|...-.    -....... .++..++..--|+++
T Consensus        13 g~k~av~~isf~v~~G--~i~GllG~NGAGKTTtfRmILglle~~~G~I~~~----g~~~~~~~-~~rIGyLPEERGLy~   85 (300)
T COG4152          13 GDKKAVDNISFEVPPG--EIFGLLGPNGAGKTTTFRMILGLLEPTEGEITWN----GGPLSQEI-KNRIGYLPEERGLYP   85 (300)
T ss_pred             CceeeecceeeeecCC--eEEEeecCCCCCccchHHHHhccCCccCceEEEc----Ccchhhhh-hhhcccChhhhccCc
Confidence            3445678999999999  9999999999999999999999887655532111    11111111 356677888888876


Q ss_pred             CCCChHHH-----------------------------------------HHHHHHHHHhccCCceEEEEEEeCCCCCCHH
Q 030630           83 FSAGSEFV-----------------------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE  121 (174)
Q Consensus        83 ~~~~~~~~-----------------------------------------~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~  121 (174)
                      ..+..+.+                                         +++-...+....-+++.+|+--+-+ ++++.
T Consensus        86 k~tv~dql~yla~LkGm~~~e~~~~~~~wLer~~i~~~~~~kIk~LSKGnqQKIQfisaviHePeLlILDEPFS-GLDPV  164 (300)
T COG4152          86 KMTVEDQLKYLAELKGMPKAEIQKKLQAWLERLEIVGKKTKKIKELSKGNQQKIQFISAVIHEPELLILDEPFS-GLDPV  164 (300)
T ss_pred             cCcHHHHHHHHHHhcCCcHHHHHHHHHHHHHhccccccccchHHHhhhhhhHHHHHHHHHhcCCCEEEecCCcc-CCChh
Confidence            54433322                                         2223333344456788777754445 66666


Q ss_pred             HHHHHHHHHHHHhhhhcCcEEEEEeCc
Q 030630          122 EEAALHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus       122 ~~~~l~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      ..+.++...-.....  ..+++..||.
T Consensus       165 N~elLk~~I~~lk~~--GatIifSsH~  189 (300)
T COG4152         165 NVELLKDAIFELKEE--GATIIFSSHR  189 (300)
T ss_pred             hHHHHHHHHHHHHhc--CCEEEEecch
Confidence            655554443333333  4788888883

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=99.17  E-value=2e-10  Score=82.36  Aligned_cols=43  Identities=30%  Similarity=0.281  Sum_probs=38.0

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++|+.+.+  ..++++|+||+|||||++.|+|...+..|
T Consensus        14 ~~il~~vs~~i~~G--~~~~l~G~nGsGKSTLl~~l~G~~~~~~G   56 (211)
T cd03225          14 RPALDDISLTIKKG--EFVLIVGPNGSGKSTLLRLLNGLLGPTSG   56 (211)
T ss_pred             eeeecceEEEEcCC--cEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            34788999999998  99999999999999999999998766555

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.

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=99.17  E-value=3.1e-10  Score=80.84  Aligned_cols=137  Identities=12%  Similarity=0.085  Sum_probs=74.1

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCc--ccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCC
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRR--AFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   83 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~--~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~   83 (174)
                      .+.++++++...+  ..++++|+||+|||||++.|+|..  .+..|.......................++.+.|.+...
T Consensus        14 ~~l~~is~~i~~G--e~~~i~G~nGsGKStLl~~l~G~~~~~p~~G~i~~~g~~~~~~~~~~~~~~~i~~v~q~~~~~~~   91 (200)
T cd03217          14 EILKGVNLTIKKG--EVHALMGPNGSGKSTLAKTIMGHPKYEVTEGEILFKGEDITDLPPEERARLGIFLAFQYPPEIPG   91 (200)
T ss_pred             EeeeccceEECCC--cEEEEECCCCCCHHHHHHHHhCCCcCCCCccEEEECCEECCcCCHHHHhhCcEEEeecChhhccC
Confidence            4678889999988  999999999999999999999983  343442111100000000000001123345555544432


Q ss_pred             CCChHH----------HHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHH-HHHHHHHHHHhhhhcCcEEEEEeCc
Q 030630           84 SAGSEF----------VGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEE-AALHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus        84 ~~~~~~----------~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~-~~l~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      ....+.          -.++....++....+++.+++ ..++..++.... ...+.|.+.. ..  ..+++++||.
T Consensus        92 ~~~~~~l~~~~~~LS~G~~qrv~laral~~~p~illl-DEPt~~LD~~~~~~l~~~L~~~~-~~--~~tiii~sh~  163 (200)
T cd03217          92 VKNADFLRYVNEGFSGGEKKRNEILQLLLLEPDLAIL-DEPDSGLDIDALRLVAEVINKLR-EE--GKSVLIITHY  163 (200)
T ss_pred             ccHHHHHhhccccCCHHHHHHHHHHHHHhcCCCEEEE-eCCCccCCHHHHHHHHHHHHHHH-HC--CCEEEEEecC
Confidence            111111          122333444556667775554 445558888774 4445555542 22  3577777773

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.

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=99.16  E-value=3e-10  Score=81.57  Aligned_cols=42  Identities=26%  Similarity=0.264  Sum_probs=37.3

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++|+.+.+  ..++++|+||+|||||++.|+|..++..|
T Consensus        14 ~~l~~~s~~i~~G--~~~~l~G~nGsGKSTLl~~l~G~~~~~~G   55 (213)
T cd03262          14 HVLKGIDLTVKKG--EVVVIIGPSGSGKSTLLRCINLLEEPDSG   55 (213)
T ss_pred             EeecCceEEECCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            4677889999988  99999999999999999999998766555

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

>cd03296 ABC_CysA_sulfate_importer Part of the ABC transporter complex cysAWTP involved in sulfate import

Probab=99.16  E-value=6.4e-10  Score=81.32  Aligned_cols=43  Identities=33%  Similarity=0.345  Sum_probs=38.0

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++++.+  ..++++|+||+|||||++.|+|...+..|
T Consensus        15 ~~il~~vs~~i~~G--e~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   57 (239)
T cd03296          15 FVALDDVSLDIPSG--ELVALLGPSGSGKTTLLRLIAGLERPDSG   57 (239)
T ss_pred             EEeeeeeeEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            34678889999999  99999999999999999999998776555

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.

>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=99.16  E-value=7.1e-10  Score=77.33  Aligned_cols=116  Identities=12%  Similarity=0.012  Sum_probs=67.2

Q ss_pred             cccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCC
Q 030630            7 IDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAG   86 (174)
Q Consensus         7 ~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~   86 (174)
                      +..+ .++.+.+  .+++++|+||+|||||++.|+|...+..|......      ..       ..++.+.+.+..    
T Consensus        15 ~l~~-~~~i~~G--e~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~i~~~g------~~-------i~~~~q~~~LSg----   74 (177)
T cd03222          15 LLVE-LGVVKEG--EVIGIVGPNGTGKTTAVKILAGQLIPNGDNDEWDG------IT-------PVYKPQYIDLSG----   74 (177)
T ss_pred             EEcc-CcEECCC--CEEEEECCCCChHHHHHHHHHcCCCCCCcEEEECC------EE-------EEEEcccCCCCH----
Confidence            3444 3666777  89999999999999999999998766555321110      00       112222222211    


Q ss_pred             hHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHH-HHHHHHHHHHhhhhcCcEEEEEeCc
Q 030630           87 SEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEE-AALHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~-~~l~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                         -.++....++....+++++++ ...+..++.... ...+.+.+.. .+ ...++++++|.
T Consensus        75 ---Gq~qrv~laral~~~p~lllL-DEPts~LD~~~~~~l~~~l~~~~-~~-~~~tiiivsH~  131 (177)
T cd03222          75 ---GELQRVAIAAALLRNATFYLF-DEPSAYLDIEQRLNAARAIRRLS-EE-GKKTALVVEHD  131 (177)
T ss_pred             ---HHHHHHHHHHHHhcCCCEEEE-ECCcccCCHHHHHHHHHHHHHHH-Hc-CCCEEEEEECC
Confidence               124445555666677776655 334447777764 4444444442 21 12577888884

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.

>PRK11000 maltose/maltodextrin transporter ATP-binding protein; Provisional

Probab=99.16  E-value=3.7e-10  Score=87.46  Aligned_cols=44  Identities=32%  Similarity=0.358  Sum_probs=38.2

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      ..+.++++++++.+  ..++++|+||||||||++.|+|...+..|.
T Consensus        16 ~~vl~~vsl~i~~G--e~~~l~G~nGsGKSTLL~~iaGl~~p~~G~   59 (369)
T PRK11000         16 VVISKDINLDIHEG--EFVVFVGPSGCGKSTLLRMIAGLEDITSGD   59 (369)
T ss_pred             eEEEeeeEEEEcCC--CEEEEECCCCCcHHHHHHHHhCCCCCCceE
Confidence            34677889999988  899999999999999999999998766653

>PRK11650 ugpC glycerol-3-phosphate transporter ATP-binding subunit; Provisional

Probab=99.16  E-value=3.6e-10  Score=87.09  Aligned_cols=44  Identities=25%  Similarity=0.339  Sum_probs=38.2

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      ..+.++++++.+.+  ..++++|+||||||||++.|+|...+..|.
T Consensus        17 ~~~l~~vsl~i~~G--e~~~llG~sGsGKSTLLr~iaGl~~p~~G~   60 (356)
T PRK11650         17 TQVIKGIDLDVADG--EFIVLVGPSGCGKSTLLRMVAGLERITSGE   60 (356)
T ss_pred             CEEEeeeeEEEcCC--CEEEEECCCCCcHHHHHHHHHCCCCCCceE
Confidence            34677889999988  899999999999999999999998776653

>TIGR01186 proV glycine betaine/L-proline transport ATP binding subunit

Probab=99.16  E-value=2.4e-10  Score=88.08  Aligned_cols=45  Identities=22%  Similarity=0.229  Sum_probs=39.5

Q ss_pred             CCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            4 GSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      ...+.++++|+++.|  ..++|+|+||||||||+++|+|...+..|.
T Consensus         5 ~~~~l~~vs~~i~~G--ei~~l~G~sGsGKSTLLr~L~Gl~~p~~G~   49 (363)
T TIGR01186         5 GKKGVNDADLAIAKG--EIFVIMGLSGSGKSTTVRMLNRLIEPTAGQ   49 (363)
T ss_pred             CceeEEeeEEEEcCC--CEEEEECCCCChHHHHHHHHhCCCCCCceE
Confidence            344678999999999  999999999999999999999998776663

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

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.16  E-value=5.5e-10  Score=84.60  Aligned_cols=87  Identities=20%  Similarity=0.161  Sum_probs=55.9

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEE-----------------------eCCcEEEEEeCCC
Q 030630           23 VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-----------------------KDGQVVNVIDTPG   79 (174)
Q Consensus        23 i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~-----------------------~~~~~~~~iDtpG   79 (174)
                      |+++|.+++|||||+|+|++... ..+ ..+..|.........+                       .....+.++||||
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~-~~~-~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aG   78 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADV-EIA-NYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAG   78 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCC-ccc-CCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCC
Confidence            58999999999999999998763 121 1122333333221111                       0124689999999


Q ss_pred             CCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCC
Q 030630           80 LFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVR  115 (174)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~  115 (174)
                      +.++......+...+...++    ++|++++|+|+.
T Consensus        79 lv~ga~~~~glg~~fL~~ir----~aD~ii~Vvd~~  110 (318)
T cd01899          79 LVPGAHEGKGLGNKFLDDLR----DADALIHVVDAS  110 (318)
T ss_pred             CCCCccchhhHHHHHHHHHH----HCCEEEEEEeCC
Confidence            97654444444455555544    559999999986

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.

>KOG0395 consensus Ras-related GTPase [General function prediction only]

Probab=99.15  E-value=5.4e-10  Score=79.19  Aligned_cols=126  Identities=23%  Similarity=0.195  Sum_probs=77.1

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      ..+++++|..|+|||+|...+.+......- .+...........+.. ....+.++||+|..++.           ....
T Consensus         3 ~~kvvvlG~~gVGKSal~~qf~~~~f~~~y-~ptied~y~k~~~v~~-~~~~l~ilDt~g~~~~~-----------~~~~   69 (196)
T KOG0395|consen    3 EYKVVVLGAGGVGKSALTIQFLTGRFVEDY-DPTIEDSYRKELTVDG-EVCMLEILDTAGQEEFS-----------AMRD   69 (196)
T ss_pred             ceEEEEECCCCCCcchheeeeccccccccc-CCCccccceEEEEECC-EEEEEEEEcCCCcccCh-----------HHHH
Confidence            478999999999999998887776643221 1111122222222211 23456799999955522           2222


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhHH
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLE  159 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~  159 (174)
                      .+....|++++|++.+++-+.+. ..+.+.|.+..+.. .-|+++|.||+|+.+......+
T Consensus        70 ~~~~~~~gF~lVysitd~~SF~~~~~l~~~I~r~~~~~-~~PivlVGNK~Dl~~~R~V~~e  129 (196)
T KOG0395|consen   70 LYIRNGDGFLLVYSITDRSSFEEAKQLREQILRVKGRD-DVPIILVGNKCDLERERQVSEE  129 (196)
T ss_pred             HhhccCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCcC-CCCEEEEEEcccchhccccCHH
Confidence            34566799999999987666655 44555553332222 2599999999999864323333

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.15  E-value=5.2e-10  Score=86.08  Aligned_cols=123  Identities=21%  Similarity=0.303  Sum_probs=94.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCccc-ccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHh
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAF-KSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~-~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .|+-.|+--.|||||++++++..-- .......+.|.+..++.... .+....++|.||+.+           +...+..
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            5788899999999999999986521 12234457788888777766 456899999999997           5555556


Q ss_pred             ccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhHHHHh
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYL  162 (174)
Q Consensus       101 ~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~  162 (174)
                      .+..+|..++|+++++++...+.+.+..+.-+ +.   ++.++|+||+|..+.  .++++.+
T Consensus        70 g~~~~d~alLvV~~deGl~~qtgEhL~iLdll-gi---~~giivltk~D~~d~--~r~e~~i  125 (447)
T COG3276          70 GLGGIDYALLVVAADEGLMAQTGEHLLILDLL-GI---KNGIIVLTKADRVDE--ARIEQKI  125 (447)
T ss_pred             hhcCCceEEEEEeCccCcchhhHHHHHHHHhc-CC---CceEEEEeccccccH--HHHHHHH
Confidence            67788999999999889999999998766654 44   378999999999876  3444433

>PRK11432 fbpC ferric transporter ATP-binding subunit; Provisional

Probab=99.15  E-value=3.6e-10  Score=86.88  Aligned_cols=44  Identities=23%  Similarity=0.307  Sum_probs=38.6

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      ..+.++++++.+.+  ..++++|+||+|||||++.|+|...+..|.
T Consensus        19 ~~~l~~isl~i~~G--e~~~llGpsGsGKSTLLr~IaGl~~p~~G~   62 (351)
T PRK11432         19 NTVIDNLNLTIKQG--TMVTLLGPSGCGKTTVLRLVAGLEKPTEGQ   62 (351)
T ss_pred             eEEEeeeEEEEcCC--CEEEEECCCCCcHHHHHHHHHCCCCCCceE
Confidence            34577889999988  999999999999999999999998876663

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=99.15  E-value=3.3e-10  Score=80.69  Aligned_cols=43  Identities=19%  Similarity=0.213  Sum_probs=38.4

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.+++++++..+  .+++++|+||+|||||++.|+|...+..|
T Consensus        14 ~~il~~~s~~i~~G--e~~~l~G~nGsGKSTLl~~i~G~~~~~~G   56 (200)
T PRK13540         14 QPLLQQISFHLPAG--GLLHLKGSNGAGKTTLLKLIAGLLNPEKG   56 (200)
T ss_pred             eeEEeeeeEEECCC--CEEEEECCCCCCHHHHHHHHhcCCCCCCe
Confidence            45788899999998  99999999999999999999998876665

>TIGR02211 LolD_lipo_ex lipoprotein releasing system, ATP-binding protein

Probab=99.15  E-value=3.3e-10  Score=81.80  Aligned_cols=42  Identities=24%  Similarity=0.239  Sum_probs=37.5

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++++...+  .+++++|+||+|||||++.|+|...+..|
T Consensus        19 ~~l~~isl~i~~G--~~~~i~G~nGsGKSTLl~~i~G~~~~~~G   60 (221)
T TIGR02211        19 RVLKGVSLSIGKG--EIVAIVGSSGSGKSTLLHLLGGLDNPTSG   60 (221)
T ss_pred             EeEeeeEEEEcCC--cEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            3778889999998  99999999999999999999998776555

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.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=99.15  E-value=2.2e-10  Score=81.86  Aligned_cols=43  Identities=33%  Similarity=0.367  Sum_probs=37.9

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++|+.+.|  .+++++|+||+|||||++.|+|...+..|
T Consensus        11 ~~~l~~vs~~i~~G--e~~~i~G~nGsGKSTLl~~l~G~~~~~~G   53 (206)
T TIGR03608        11 KIILDDLNLTIEKG--KMYAIIGESGSGKSTLLNIIGLLEKFDSG   53 (206)
T ss_pred             EEEEeceEEEEeCC--cEEEEECCCCCCHHHHHHHHhcCCCCCCe
Confidence            34678899999998  99999999999999999999998766555

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.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=99.14  E-value=6e-10  Score=79.60  Aligned_cols=43  Identities=26%  Similarity=0.346  Sum_probs=38.2

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++|+++.+  ..++++|+||+|||||++.|+|...+..|
T Consensus        13 ~~~l~~v~~~i~~G--e~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   55 (205)
T cd03226          13 TEILDDLSLDLYAG--EIIALTGKNGAGKTTLAKILAGLIKESSG   55 (205)
T ss_pred             CceeeeeeEEEcCC--CEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            35778899999998  99999999999999999999998776665

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.

>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=99.14  E-value=3.4e-11  Score=82.09  Aligned_cols=62  Identities=34%  Similarity=0.390  Sum_probs=37.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCC----C-CcceeeEEEEEEEeCCcEEEEEeCCCCCCCCC
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASS----S-GVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~----~-~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~   85 (174)
                      .+++++|++|+|||||+|+|.+......+...    . ..|+. ...-+.+  +...++|||||+.+...
T Consensus        36 k~~vl~G~SGvGKSSLiN~L~~~~~~~t~~is~~~~rGkHTTt-~~~l~~l--~~g~~iIDTPGf~~~~l  102 (161)
T PF03193_consen   36 KTSVLLGQSGVGKSSLINALLPEAKQKTGEISEKTGRGKHTTT-HRELFPL--PDGGYIIDTPGFRSFGL  102 (161)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHTSS----S---------------SEEEEEE--TTSEEEECSHHHHT--G
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhcchhhhhhhcccCCCcccCC-CeeEEec--CCCcEEEECCCCCcccc
Confidence            68999999999999999999997544333211    1 12221 2222222  45678999999988543

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.

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=99.14  E-value=2.4e-10  Score=83.61  Aligned_cols=42  Identities=29%  Similarity=0.328  Sum_probs=37.5

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++++.+.|  .+++++|+||+|||||++.|+|...+..|
T Consensus        17 ~~l~~~sl~i~~G--e~~~l~G~nGsGKSTLl~~l~G~~~~~~G   58 (241)
T PRK10895         17 RVVEDVSLTVNSG--EIVGLLGPNGAGKTTTFYMVVGIVPRDAG   58 (241)
T ss_pred             EEEeeeeEEEcCC--cEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            4678889999998  99999999999999999999998776655

>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=99.14  E-value=4e-10  Score=82.07  Aligned_cols=42  Identities=29%  Similarity=0.340  Sum_probs=37.9

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++++++.+  ..++++|+||+|||||++.|+|..++..|
T Consensus        19 ~il~~~s~~i~~G--e~~~l~G~nGsGKSTLl~~l~G~~~~~~G   60 (233)
T cd03258          19 TALKDVSLSVPKG--EIFGIIGRSGAGKSTLIRCINGLERPTSG   60 (233)
T ss_pred             eeeecceEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            4788899999998  99999999999999999999999876655

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.

>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=99.14  E-value=4.8e-10  Score=82.10  Aligned_cols=43  Identities=23%  Similarity=0.249  Sum_probs=37.9

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++++.+  ..++++|+||+|||||++.|+|...+..|
T Consensus        14 ~~~l~~is~~i~~G--e~~~i~G~nGsGKSTLl~~l~G~~~~~~G   56 (242)
T cd03295          14 KKAVNNLNLEIAKG--EFLVLIGPSGSGKTTTMKMINRLIEPTSG   56 (242)
T ss_pred             ceEeeeeEEEECCC--CEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            34678899999999  99999999999999999999998776555

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.

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=99.14  E-value=6.2e-10  Score=79.67  Aligned_cols=43  Identities=21%  Similarity=0.250  Sum_probs=37.9

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++.+.+  .+++++|+||+|||||++.|+|...+..|
T Consensus        15 ~~~l~~is~~i~~G--e~~~i~G~nGsGKSTLl~~l~G~~~~~~G   57 (207)
T PRK13539         15 RVLFSGLSFTLAAG--EALVLTGPNGSGKTTLLRLIAGLLPPAAG   57 (207)
T ss_pred             eEEEeceEEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            34678889999998  99999999999999999999998766555

>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=99.14  E-value=7.7e-10  Score=79.38  Aligned_cols=38  Identities=32%  Similarity=0.412  Sum_probs=33.9

Q ss_pred             ccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630           10 DWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus        10 ~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      +++++...+  .+++++|+||+|||||++.|+|..++..|
T Consensus        16 ~is~~i~~G--e~~~l~G~nGsGKSTLl~~l~gl~~~~~G   53 (211)
T cd03298          16 HFDLTFAQG--EITAIVGPSGSGKSTLLNLIAGFETPQSG   53 (211)
T ss_pred             ceEEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            777888888  99999999999999999999999876655

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.

>COG0410 LivF ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=99.14  E-value=2.2e-10  Score=81.44  Aligned_cols=46  Identities=26%  Similarity=0.310  Sum_probs=40.2

Q ss_pred             CCCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            3 GGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      |+.-+..+++++.+.+  .+++++|+||+|||||+++|+|..++..|.
T Consensus        14 G~~~~L~gvsl~v~~G--eiv~llG~NGaGKTTlLkti~Gl~~~~~G~   59 (237)
T COG0410          14 GKIQALRGVSLEVERG--EIVALLGRNGAGKTTLLKTIMGLVRPRSGR   59 (237)
T ss_pred             cceeEEeeeeeEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCee
Confidence            4566788899999999  999999999999999999999998765553

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=99.14  E-value=2.5e-10  Score=86.20  Aligned_cols=44  Identities=27%  Similarity=0.281  Sum_probs=38.8

Q ss_pred             CCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            4 GSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ...+.++++|+++.|  ..++++|+||+|||||++.|+|...+..|
T Consensus        14 ~~~~l~~is~~i~~G--ei~~l~G~NGaGKTTLl~~l~Gl~~~~~G   57 (301)
T TIGR03522        14 TQNALDEVSFEAQKG--RIVGFLGPNGAGKSTTMKIITGYLPPDSG   57 (301)
T ss_pred             CEEEEEEeEEEEeCC--eEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            345678899999999  99999999999999999999998877665

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.

>COG1127 Ttg2A ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=99.14  E-value=2.9e-10  Score=81.35  Aligned_cols=47  Identities=28%  Similarity=0.369  Sum_probs=42.5

Q ss_pred             CCCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccC
Q 030630            3 GGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRAS   51 (174)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~   51 (174)
                      |...|.++++++.+.|  ...+++|++|+|||||++.|.|...+..|..
T Consensus        19 G~~~Ild~v~l~V~~G--ei~~iiGgSGsGKStlLr~I~Gll~P~~GeI   65 (263)
T COG1127          19 GDRVILDGVDLDVPRG--EILAILGGSGSGKSTLLRLILGLLRPDKGEI   65 (263)
T ss_pred             CCEEEecCceeeecCC--cEEEEECCCCcCHHHHHHHHhccCCCCCCeE
Confidence            5667889999999999  9999999999999999999999998877743

>PRK11629 lolD lipoprotein transporter ATP-binding subunit; Provisional

Probab=99.13  E-value=4.5e-10  Score=81.84  Aligned_cols=42  Identities=19%  Similarity=0.235  Sum_probs=37.5

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++|+++.+  ..++++|+||+|||||++.|+|...+..|
T Consensus        23 ~il~~isl~i~~G--e~~~l~G~nGsGKSTLl~~l~Gl~~~~~G   64 (233)
T PRK11629         23 DVLHNVSFSIGEG--EMMAIVGSSGSGKSTLLHLLGGLDTPTSG   64 (233)
T ss_pred             eeEEeeEEEEcCC--cEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            3688899999998  99999999999999999999998766555

>KOG0393 consensus Ras-related small GTPase, Rho type [General function prediction only]

Probab=99.13  E-value=1.2e-10  Score=81.47  Aligned_cols=116  Identities=20%  Similarity=0.103  Sum_probs=80.0

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCccee-eEEEEEEE--eCCcEEEEEeCCCCCCCCCChHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTST-CEMQRTVL--KDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   96 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~-~~~~~~~~--~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~   96 (174)
                      ..+++++|..++|||+|+-+.+....+....    +|.. .-...+..  .+...+.+|||.|..+.           -+
T Consensus         4 ~~K~VvVGDga~GKT~ll~~~t~~~fp~~yv----PTVFdnys~~v~V~dg~~v~L~LwDTAGqedY-----------Dr   68 (198)
T KOG0393|consen    4 RIKCVVVGDGAVGKTCLLISYTTNAFPEEYV----PTVFDNYSANVTVDDGKPVELGLWDTAGQEDY-----------DR   68 (198)
T ss_pred             eeEEEEECCCCcCceEEEEEeccCcCccccc----CeEEccceEEEEecCCCEEEEeeeecCCCccc-----------cc
Confidence            3789999999999999998887765432221    2211 11222222  13345799999999872           22


Q ss_pred             HHHhccCCceEEEEEEeCCCCCCHH--HHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           97 CIGMAKDGIHAVLVVFSVRSRFSQE--EEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        97 ~~~~~~~~~~~il~v~~~~~~~~~~--~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ....+++++|+++++++..++.+.+  ...|+..++..++.   -|+++|.+|.|+.++
T Consensus        69 lRplsY~~tdvfl~cfsv~~p~S~~nv~~kW~pEi~~~cp~---vpiiLVGtk~DLr~d  124 (198)
T KOG0393|consen   69 LRPLSYPQTDVFLLCFSVVSPESFENVKSKWIPEIKHHCPN---VPIILVGTKADLRDD  124 (198)
T ss_pred             ccccCCCCCCEEEEEEEcCChhhHHHHHhhhhHHHHhhCCC---CCEEEEeehHHhhhC
Confidence            1234789999999999987554444  47888877777632   599999999999854

>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=99.13  E-value=3.4e-10  Score=81.37  Aligned_cols=42  Identities=29%  Similarity=0.272  Sum_probs=37.5

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.+++++++..+  ..++++|+||+|||||++.|+|...+..|
T Consensus        15 ~~l~~~sl~i~~G--~~~~i~G~nGsGKSTLl~~l~G~~~~~~G   56 (214)
T cd03292          15 AALDGINISISAG--EFVFLVGPSGAGKSTLLKLIYKEELPTSG   56 (214)
T ss_pred             eeeeeeEEEEcCC--CEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            4778899999998  99999999999999999999998766555

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>TIGR03265 PhnT2 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein

Probab=99.13  E-value=4.1e-10  Score=86.68  Aligned_cols=44  Identities=23%  Similarity=0.231  Sum_probs=38.2

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      ..+.++++++.+.+  ..++++|+||+|||||++.|+|...+..|.
T Consensus        17 ~~~l~~vs~~i~~G--e~~~l~GpsGsGKSTLLr~iaGl~~p~~G~   60 (353)
T TIGR03265        17 FTALKDISLSVKKG--EFVCLLGPSGCGKTTLLRIIAGLERQTAGT   60 (353)
T ss_pred             eEEEEeeEEEEcCC--CEEEEECCCCCCHHHHHHHHHCCCCCCceE
Confidence            34567889999988  999999999999999999999998776663

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.

>TIGR02314 ABC_MetN D-methionine ABC transporter, ATP-binding protein

Probab=99.13  E-value=4.1e-10  Score=86.30  Aligned_cols=43  Identities=19%  Similarity=0.181  Sum_probs=38.6

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      .+.++++|+.+.+  ..++++|+||||||||++.|+|...+..|.
T Consensus        19 ~~L~~vsl~i~~G--ei~gIiG~sGaGKSTLlr~I~gl~~p~~G~   61 (343)
T TIGR02314        19 QALNNVSLHVPAG--QIYGVIGASGAGKSTLIRCVNLLERPTSGS   61 (343)
T ss_pred             EEEeeeEEEEcCC--CEEEEECCCCCCHHHHHHHHhcCCCCCceE
Confidence            4688999999999  999999999999999999999998776663

Members of this family are the ATP-binding protein of the D-methionine ABC transporter complex. Known members belong to the Proteobacteria.

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=99.13  E-value=7.5e-10  Score=78.17  Aligned_cols=44  Identities=20%  Similarity=0.268  Sum_probs=39.0

Q ss_pred             CCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            4 GSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      +..+.++++++++.+  ..++++|+||+|||||++.|+|...+..|
T Consensus         4 ~~~il~~vsl~i~~G--e~~~i~G~nGsGKSTLl~~i~G~~~~~~G   47 (190)
T TIGR01166         4 GPEVLKGLNFAAERG--EVLALLGANGAGKSTLLLHLNGLLRPQSG   47 (190)
T ss_pred             ccceecceeEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            445788999999999  99999999999999999999998876655

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.

>PRK10247 putative ABC transporter ATP-binding protein YbbL; Provisional

Probab=99.13  E-value=4.6e-10  Score=81.36  Aligned_cols=43  Identities=16%  Similarity=0.163  Sum_probs=38.3

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++++.+  ..++|+|+||+|||||++.|+|..++..|
T Consensus        20 ~~il~~vs~~i~~G--e~~~i~G~nGsGKSTLl~~l~G~~~~~~G   62 (225)
T PRK10247         20 AKILNNISFSLRAG--EFKLITGPSGCGKSTLLKIVASLISPTSG   62 (225)
T ss_pred             ceeeeccEEEEcCC--CEEEEECCCCCCHHHHHHHHhcccCCCCC
Confidence            45788899999999  99999999999999999999998766665

>TIGR03864 PQQ_ABC_ATP ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system

Probab=99.13  E-value=6.3e-10  Score=81.20  Aligned_cols=44  Identities=23%  Similarity=0.188  Sum_probs=38.3

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      ..+.+++++++..+  ..++++|+||+|||||++.|+|..++..|.
T Consensus        14 ~~~l~~vs~~i~~G--e~~~i~G~nGsGKSTLl~~l~G~~~p~~G~   57 (236)
T TIGR03864        14 RRALDDVSFTVRPG--EFVALLGPNGAGKSTLFSLLTRLYVAQEGQ   57 (236)
T ss_pred             EEEEeeeEEEEcCC--CEEEEECCCCCCHHHHHHHHhCCcCCCceE
Confidence            34678889999988  999999999999999999999998766653

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.

>COG0411 LivG ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]

Probab=99.13  E-value=6.5e-11  Score=84.74  Aligned_cols=46  Identities=30%  Similarity=0.320  Sum_probs=39.9

Q ss_pred             CCCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            3 GGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      |+-...++++++...+  .+++++||||+||||++|.|+|..+++.|.
T Consensus        15 GGl~Al~~Vsl~v~~G--ei~~LIGPNGAGKTTlfNlitG~~~P~~G~   60 (250)
T COG0411          15 GGLTAVNDVSLEVRPG--EIVGLIGPNGAGKTTLFNLITGFYKPSSGT   60 (250)
T ss_pred             CCEEEEeceeEEEcCC--eEEEEECCCCCCceeeeeeecccccCCCce
Confidence            3444578888999998  999999999999999999999999887764

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=99.13  E-value=5.2e-10  Score=81.19  Aligned_cols=41  Identities=29%  Similarity=0.320  Sum_probs=37.3

Q ss_pred             cccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            7 IDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         7 ~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      +.++++++++.|  ..++++|+||+|||||++.|+|...+..|
T Consensus        25 ~l~~~s~~i~~G--e~~~i~G~nGsGKSTLl~~i~Gl~~p~~G   65 (228)
T PRK10584         25 ILTGVELVVKRG--ETIALIGESGSGKSTLLAILAGLDDGSSG   65 (228)
T ss_pred             EEeccEEEEcCC--CEEEEECCCCCCHHHHHHHHHcCCCCCCe
Confidence            688889999998  99999999999999999999999876655

>COG4586 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=99.12  E-value=1.9e-10  Score=83.63  Aligned_cols=41  Identities=27%  Similarity=0.290  Sum_probs=37.9

Q ss_pred             ccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            8 DDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         8 ~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      .++++|+.|.|  .+++++|+|||||||++++|+|...+.+|.
T Consensus        40 Vqdisf~IP~G--~ivgflGaNGAGKSTtLKmLTGll~p~~G~   80 (325)
T COG4586          40 VQDISFEIPKG--EIVGFLGANGAGKSTTLKMLTGLLLPTSGK   80 (325)
T ss_pred             hheeeeecCCC--cEEEEEcCCCCcchhhHHHHhCccccCCCe
Confidence            57889999999  999999999999999999999999887774

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=99.12  E-value=1e-10  Score=94.66  Aligned_cols=43  Identities=23%  Similarity=0.268  Sum_probs=38.6

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      .+.++++++.+.|  .+++++|++|||||||++.|+|...+..|.
T Consensus       349 ~vL~~isl~i~~G--~~vaIvG~SGsGKSTLl~lL~g~~~p~~G~  391 (529)
T TIGR02868       349 PVLDGVSLDLPPG--ERVAILGPSGSGKSTLLMLLTGLLDPLQGE  391 (529)
T ss_pred             ceeecceEEEcCC--CEEEEECCCCCCHHHHHHHHhcCCCCCCcE
Confidence            3678889999999  999999999999999999999998776664

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.

>COG1118 CysA ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=99.12  E-value=1.3e-09  Score=80.60  Aligned_cols=47  Identities=28%  Similarity=0.251  Sum_probs=39.8

Q ss_pred             CCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCC
Q 030630            4 GSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASS   52 (174)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~   52 (174)
                      ......++++.++++  ..++++||||||||||++.|+|...++.|...
T Consensus        14 ~~~a~~di~l~i~~G--e~vaLlGpSGaGKsTlLRiIAGLe~p~~G~I~   60 (345)
T COG1118          14 AFGALDDISLDIKSG--ELVALLGPSGAGKSTLLRIIAGLETPDAGRIR   60 (345)
T ss_pred             cccccccceeeecCC--cEEEEECCCCCcHHHHHHHHhCcCCCCCceEE
Confidence            344456888999988  99999999999999999999999988777443

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=99.12  E-value=7.5e-10  Score=83.08  Aligned_cols=128  Identities=14%  Similarity=0.198  Sum_probs=91.8

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcc-----------------cccc--------------cCCCCcceeeEEEEEEEeC
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRA-----------------FKSR--------------ASSSGVTSTCEMQRTVLKD   68 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~-----------------~~~~--------------~~~~~~t~~~~~~~~~~~~   68 (174)
                      ..|++-+|...-||||||-.|+-..+                 ...+              +...++|.+.....+.. .
T Consensus         6 lLRfiTcGSVDDGKSTLIGRLL~Dtk~i~eDQla~l~~dS~~~~t~g~~~D~ALLvDGL~AEREQGITIDVAYRyFsT-~   84 (431)
T COG2895           6 LLRFITCGSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGITIDVAYRYFST-E   84 (431)
T ss_pred             ceeEEEeccccCcchhhhhhhhhcchhhhHHHHHHHhcccccccCCCCccchhhhhhhhHHHHhcCceEEEEeeeccc-c
Confidence            38999999999999999977653211                 0000              01137777776666555 7


Q ss_pred             CcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCc
Q 030630           69 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus        69 ~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      ++.+++.||||+..           +.+-+..-+..+|+.++++|+..++-.+++... .|..++|-+   ++++.+||+
T Consensus        85 KRkFIiADTPGHeQ-----------YTRNMaTGASTadlAIlLVDAR~Gvl~QTrRHs-~I~sLLGIr---hvvvAVNKm  149 (431)
T COG2895          85 KRKFIIADTPGHEQ-----------YTRNMATGASTADLAILLVDARKGVLEQTRRHS-FIASLLGIR---HVVVAVNKM  149 (431)
T ss_pred             cceEEEecCCcHHH-----------HhhhhhcccccccEEEEEEecchhhHHHhHHHH-HHHHHhCCc---EEEEEEeee
Confidence            88999999999886           333333456677999999999867766666654 566666665   899999999


Q ss_pred             CCCCCChhhHHHHhc
Q 030630          149 DELEDNDETLEDYLG  163 (174)
Q Consensus       149 D~~~~~~~~~~~~~~  163 (174)
                      |+.+-.++.+++...
T Consensus       150 DLvdy~e~~F~~I~~  164 (431)
T COG2895         150 DLVDYSEEVFEAIVA  164 (431)
T ss_pred             cccccCHHHHHHHHH
Confidence            999877666655443

>cd03257 ABC_NikE_OppD_transporters The ABC transporter subfamily specific for the transport of dipeptides, oligopeptides (OppD), and nickel (NikDE)

Probab=99.11  E-value=1.3e-09  Score=78.96  Aligned_cols=42  Identities=33%  Similarity=0.388  Sum_probs=38.0

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++++.+.|  ..++++|+||+|||||++.|+|...+..|
T Consensus        19 ~~l~~vs~~i~~G--e~~~i~G~nGsGKSTLl~~l~G~~~~~~G   60 (228)
T cd03257          19 KALDDVSFSIKKG--ETLGLVGESGSGKSTLARAILGLLKPTSG   60 (228)
T ss_pred             eeecCceeEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            4788999999999  99999999999999999999998876665

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.

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=99.11  E-value=1.7e-09  Score=77.59  Aligned_cols=43  Identities=23%  Similarity=0.276  Sum_probs=39.1

Q ss_pred             cccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccC
Q 030630            7 IDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRAS   51 (174)
Q Consensus         7 ~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~   51 (174)
                      +.++++|+...|  .+++++|++|||||||.+.|+|...+..|..
T Consensus        22 ~l~~VS~~i~~G--e~lgivGeSGsGKSTL~r~l~Gl~~p~~G~I   64 (252)
T COG1124          22 ALNNVSLEIERG--ETLGIVGESGSGKSTLARLLAGLEKPSSGSI   64 (252)
T ss_pred             hhcceeEEecCC--CEEEEEcCCCCCHHHHHHHHhcccCCCCceE
Confidence            678999999999  9999999999999999999999988877643

>PRK09452 potA putrescine/spermidine ABC transporter ATPase protein; Reviewed

Probab=99.11  E-value=7.5e-10  Score=85.81  Aligned_cols=43  Identities=23%  Similarity=0.289  Sum_probs=37.7

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      .+.++++++++.+  ..++++|+||||||||+++|+|...+..|.
T Consensus        28 ~~l~~vsl~i~~G--e~~~LlGpsGsGKSTLLr~IaGl~~p~~G~   70 (375)
T PRK09452         28 EVISNLDLTINNG--EFLTLLGPSGCGKTTVLRLIAGFETPDSGR   70 (375)
T ss_pred             EEEeeeEEEEeCC--CEEEEECCCCCcHHHHHHHHhCCCCCCceE
Confidence            4567888999888  899999999999999999999998776653

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=99.11  E-value=1.5e-09  Score=78.05  Aligned_cols=40  Identities=28%  Similarity=0.340  Sum_probs=35.4

Q ss_pred             ccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            8 DDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         8 ~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+++++...+  ..++++|+||+|||||++.|+|...+..|
T Consensus        14 ~~~~s~~i~~G--e~~~i~G~nGsGKSTLl~~l~G~~~~~~G   53 (213)
T TIGR01277        14 PMEFDLNVADG--EIVAIMGPSGAGKSTLLNLIAGFIEPASG   53 (213)
T ss_pred             ceeeEEEEeCC--cEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            45778888888  99999999999999999999998876665

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.

>PRK11153 metN DL-methionine transporter ATP-binding subunit; Provisional

Probab=99.11  E-value=4.8e-10  Score=86.08  Aligned_cols=42  Identities=21%  Similarity=0.173  Sum_probs=37.9

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++|+++.|  ..++++|+||||||||++.|+|...+..|
T Consensus        19 ~il~~vsl~i~~G--ei~~iiG~nGsGKSTLlk~L~Gl~~p~~G   60 (343)
T PRK11153         19 HALNNVSLHIPAG--EIFGVIGASGAGKSTLIRCINLLERPTSG   60 (343)
T ss_pred             EEEEeeEEEEcCC--CEEEEECCCCCcHHHHHHHHhCCCCCCce
Confidence            4678899999999  99999999999999999999999876665

>PRK13548 hmuV hemin importer ATP-binding subunit; Provisional

Probab=99.11  E-value=8.5e-10  Score=81.59  Aligned_cols=43  Identities=28%  Similarity=0.345  Sum_probs=38.3

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++|+++.+  ..++|+|+||+|||||++.|+|...+..|
T Consensus        15 ~~il~~is~~i~~G--e~~~i~G~nGsGKSTLl~~i~G~~~p~~G   57 (258)
T PRK13548         15 RTLLDDVSLTLRPG--EVVAILGPNGAGKSTLLRALSGELSPDSG   57 (258)
T ss_pred             eeeeeeeeEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCC
Confidence            34788899999998  99999999999999999999998776665

>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=99.11  E-value=1.5e-09  Score=79.04  Aligned_cols=43  Identities=23%  Similarity=0.175  Sum_probs=38.3

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++...|  .+++++|+||+|||||++.|+|..++..|
T Consensus        13 ~~il~~i~~~i~~G--e~~~i~G~nGsGKSTLl~~l~g~~~~~~G   55 (232)
T cd03300          13 FVALDGVSLDIKEG--EFFTLLGPSGCGKTTLLRLIAGFETPTSG   55 (232)
T ss_pred             eeeeccceEEECCC--CEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            35778899999988  99999999999999999999999877665

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.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=99.10  E-value=5.2e-10  Score=80.24  Aligned_cols=41  Identities=22%  Similarity=0.127  Sum_probs=35.4

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++|+.+.+   +++++|+||+|||||++.|+|...+..|
T Consensus        14 ~~l~~vs~~i~~g---~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   54 (211)
T cd03264          14 RALDGVSLTLGPG---MYGLLGPNGAGKTTLMRILATLTPPSSG   54 (211)
T ss_pred             EEEcceeEEEcCC---cEEEECCCCCCHHHHHHHHhCCCCCCcc
Confidence            4677888888885   8899999999999999999998776665

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.

>PRK13632 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=99.10  E-value=6.9e-10  Score=82.62  Aligned_cols=42  Identities=19%  Similarity=0.243  Sum_probs=37.8

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++++++.|  ..++++|+||+|||||++.|+|...+..|
T Consensus        23 ~il~~isl~i~~G--e~~~l~G~nGsGKSTLl~~l~Gl~~p~~G   64 (271)
T PRK13632         23 NALKNVSFEINEG--EYVAILGHNGSGKSTISKILTGLLKPQSG   64 (271)
T ss_pred             cceeeeEEEEcCC--CEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            4788899999998  99999999999999999999999876555

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=99.10  E-value=2.3e-10  Score=80.04  Aligned_cols=133  Identities=16%  Similarity=0.146  Sum_probs=75.5

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCC
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~   85 (174)
                      .+.++++++.+.+  ..++++|+||+|||||++.|+|...+..|............ ...+ .....++.+.|.+... +
T Consensus        16 ~~l~~i~~~i~~G--e~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~g~~~~~~-~~~~-~~~i~~~~q~~~~~~~-t   90 (178)
T cd03247          16 QVLKNLSLELKQG--EKIALLGRSGSGKSTLLQLLTGDLKPQQGEITLDGVPVSDL-EKAL-SSLISVLNQRPYLFDT-T   90 (178)
T ss_pred             cceEEEEEEEcCC--CEEEEECCCCCCHHHHHHHHhccCCCCCCEEEECCEEHHHH-HHHH-HhhEEEEccCCeeecc-c
Confidence            4778899999999  99999999999999999999998776555321111000000 0000 1122334444433321 1


Q ss_pred             ChH-------HHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHH-HHHHHHHHHHhhhhcCcEEEEEeCc
Q 030630           86 GSE-------FVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEE-AALHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus        86 ~~~-------~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~-~~l~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      ..+       .-.++....++....+++++++ ..+++.++.... ..++.+.+. . .  ..+++++||-
T Consensus        91 v~~~i~~~LS~G~~qrv~laral~~~p~~lll-DEP~~~LD~~~~~~l~~~l~~~-~-~--~~tii~~sh~  156 (178)
T cd03247          91 LRNNLGRRFSGGERQRLALARILLQDAPIVLL-DEPTVGLDPITERQLLSLIFEV-L-K--DKTLIWITHH  156 (178)
T ss_pred             HHHhhcccCCHHHHHHHHHHHHHhcCCCEEEE-ECCcccCCHHHHHHHHHHHHHH-c-C--CCEEEEEecC
Confidence            111       0123344555666777876654 344447887774 444555554 2 2  3577777774

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.

>TIGR00968 3a0106s01 sulfate ABC transporter, ATP-binding protein

Probab=99.10  E-value=1.4e-09  Score=79.46  Aligned_cols=43  Identities=33%  Similarity=0.354  Sum_probs=37.8

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++...|  .+++++|+||+|||||++.|+|...+..|
T Consensus        13 ~~il~~is~~i~~G--e~~~l~G~nGsGKSTLl~~i~G~~~~~~G   55 (237)
T TIGR00968        13 FQALDDVNLEVPTG--SLVALLGPSGSGKSTLLRIIAGLEQPDSG   55 (237)
T ss_pred             eeeeeeEEEEEcCC--CEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            35778889999998  99999999999999999999998766555

>PRK11831 putative ABC transporter ATP-binding protein YrbF; Provisional

Probab=99.10  E-value=9.4e-10  Score=81.83  Aligned_cols=42  Identities=29%  Similarity=0.349  Sum_probs=37.3

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++|+++.+  ..++|+|+||+|||||++.|+|...+..|
T Consensus        21 ~il~~vsl~i~~G--e~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   62 (269)
T PRK11831         21 CIFDNISLTVPRG--KITAIMGPSGIGKTTLLRLIGGQIAPDHG   62 (269)
T ss_pred             EEEeeeEEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            4578889999999  99999999999999999999999866555

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=99.10  E-value=1.1e-09  Score=77.48  Aligned_cols=132  Identities=10%  Similarity=0.025  Sum_probs=74.7

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcc--cccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCC
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRA--FKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   83 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~--~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~   83 (174)
                      .+.++++++.+.+  ..++++|+||+|||||++.|+|...  +..|....... .  .. ... .....++.+.|.+...
T Consensus        21 ~~l~~vs~~i~~G--e~~~l~G~nGsGKSTLl~~l~G~~~~~~~~G~i~~~g~-~--~~-~~~-~~~i~~~~q~~~~~~~   93 (192)
T cd03232          21 QLLNNISGYVKPG--TLTALMGESGAGKTTLLDVLAGRKTAGVITGEILINGR-P--LD-KNF-QRSTGYVEQQDVHSPN   93 (192)
T ss_pred             EeEEccEEEEeCC--cEEEEECCCCCCHHHHHHHHhCCCcCCCcceEEEECCE-e--hH-HHh-hhceEEecccCccccC
Confidence            4678889999988  9999999999999999999999642  33332111000 0  00 001 1233445555655443


Q ss_pred             CCChHHH------------HHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHH-HHHHHHHHhhhhcCcEEEEEeCc
Q 030630           84 SAGSEFV------------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAA-LHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus        84 ~~~~~~~------------~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~-l~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      .+..+.+            .++....++....+++++++ ..+...++...... .+.+.+. ...  ..+++++||.
T Consensus        94 ~tv~~~l~~~~~~~~LSgGe~qrv~la~al~~~p~vlll-DEP~~~LD~~~~~~l~~~l~~~-~~~--~~tiiivtH~  167 (192)
T cd03232          94 LTVREALRFSALLRGLSVEQRKRLTIGVELAAKPSILFL-DEPTSGLDSQAAYNIVRFLKKL-ADS--GQAILCTIHQ  167 (192)
T ss_pred             CcHHHHHHHHHHHhcCCHHHhHHHHHHHHHhcCCcEEEE-eCCCcCCCHHHHHHHHHHHHHH-HHc--CCEEEEEEcC
Confidence            2222221            11222334455667775554 44444788887544 4444443 222  3678888886

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.

>PRK11264 putative amino-acid ABC transporter ATP-binding protein YecC; Provisional

Probab=99.10  E-value=1.3e-09  Score=80.15  Aligned_cols=43  Identities=16%  Similarity=0.216  Sum_probs=37.9

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++|+++.|  ..++++|+||+|||||++.|+|...+..|
T Consensus        16 ~~~l~~vs~~i~~G--e~~~i~G~nGsGKSTLl~~l~G~~~~~~G   58 (250)
T PRK11264         16 QTVLHGIDLEVKPG--EVVAIIGPSGSGKTTLLRCINLLEQPEAG   58 (250)
T ss_pred             eeeeccceEEEcCC--CEEEEECCCCCCHHHHHHHHhcCCCCCCe
Confidence            35778899999998  99999999999999999999998766555

>PRK10851 sulfate/thiosulfate transporter subunit; Provisional

Probab=99.10  E-value=1e-09  Score=84.51  Aligned_cols=44  Identities=30%  Similarity=0.398  Sum_probs=38.5

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      ..+.+++++++..+  ..++++|+||+|||||++.|+|...+..|.
T Consensus        15 ~~~l~~isl~i~~G--e~~~llGpsGsGKSTLLr~IaGl~~p~~G~   58 (353)
T PRK10851         15 TQVLNDISLDIPSG--QMVALLGPSGSGKTTLLRIIAGLEHQTSGH   58 (353)
T ss_pred             eEEEEEeEEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCcE
Confidence            34678889999998  999999999999999999999998776653

>PRK09493 glnQ glutamine ABC transporter ATP-binding protein; Reviewed

Probab=99.09  E-value=7.9e-10  Score=80.87  Aligned_cols=43  Identities=23%  Similarity=0.327  Sum_probs=37.9

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++.+.+  .+++++|+||+|||||++.|+|...+..|
T Consensus        14 ~~il~~~s~~i~~G--e~~~l~G~nGsGKSTLl~~l~G~~~~~~G   56 (240)
T PRK09493         14 TQVLHNIDLNIDQG--EVVVIIGPSGSGKSTLLRCINKLEEITSG   56 (240)
T ss_pred             eEEeeeeeEEEcCC--cEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            34678889999988  99999999999999999999998776665

>PRK09536 btuD corrinoid ABC transporter ATPase; Reviewed

Probab=99.09  E-value=5.5e-10  Score=87.16  Aligned_cols=44  Identities=25%  Similarity=0.295  Sum_probs=38.7

Q ss_pred             CCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            4 GSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      +..+.++++|+.+.|  .+++++|+||+|||||+++|+|..++..|
T Consensus        15 ~~~vL~~vs~~i~~G--eiv~liGpNGaGKSTLLk~LaGll~p~sG   58 (402)
T PRK09536         15 DTTVLDGVDLSVREG--SLVGLVGPNGAGKTTLLRAINGTLTPTAG   58 (402)
T ss_pred             CEEEEEeeEEEECCC--CEEEEECCCCchHHHHHHHHhcCCCCCCc
Confidence            345678899999999  99999999999999999999998776665

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=99.09  E-value=5.1e-10  Score=90.29  Aligned_cols=43  Identities=23%  Similarity=0.227  Sum_probs=38.1

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++|+++.|  ..++++|+||||||||++.|+|...+..|
T Consensus        24 ~~il~~vsl~i~~G--e~~~liG~NGsGKSTLl~~l~Gl~~p~~G   66 (510)
T PRK15439         24 VEVLKGIDFTLHAG--EVHALLGGNGAGKSTLMKIIAGIVPPDSG   66 (510)
T ss_pred             ceeeeeeEEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            34678999999998  99999999999999999999998876655

>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=99.09  E-value=6.8e-10  Score=81.06  Aligned_cols=42  Identities=21%  Similarity=0.268  Sum_probs=37.5

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++++...|  ..++++|+||+|||||++.|+|...+..|
T Consensus        19 ~~l~~vs~~i~~G--e~~~i~G~nGsGKSTLl~~l~G~~~p~~G   60 (237)
T PRK11614         19 QALHEVSLHINQG--EIVTLIGANGAGKTTLLGTLCGDPRATSG   60 (237)
T ss_pred             eeeeeeEEEEcCC--cEEEEECCCCCCHHHHHHHHcCCCCCCCc
Confidence            4678889999998  99999999999999999999998876665

>PRK13648 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=99.09  E-value=5.6e-10  Score=83.02  Aligned_cols=41  Identities=27%  Similarity=0.413  Sum_probs=37.1

Q ss_pred             cccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            7 IDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         7 ~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      +.++++++++.+  ..++|+|+||+|||||++.|+|...+..|
T Consensus        24 ~l~~isl~i~~G--e~~~I~G~nGsGKSTLl~~i~Gl~~~~~G   64 (269)
T PRK13648         24 TLKDVSFNIPKG--QWTSIVGHNGSGKSTIAKLMIGIEKVKSG   64 (269)
T ss_pred             ceeeeEEEEcCC--CEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            678889999998  99999999999999999999999776665

>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.09  E-value=8.5e-10  Score=72.46  Aligned_cols=125  Identities=16%  Similarity=0.189  Sum_probs=83.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccc-cCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSR-ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .+..++|.-|+|||.|+-.++.... ... .-..+....+.+..+.- .+..+.+|||.|..+           ++...+
T Consensus        12 fkyiiigdmgvgkscllhqftekkf-madcphtigvefgtriievsg-qkiklqiwdtagqer-----------fravtr   78 (215)
T KOG0097|consen   12 FKYIIIGDMGVGKSCLLHQFTEKKF-MADCPHTIGVEFGTRIIEVSG-QKIKLQIWDTAGQER-----------FRAVTR   78 (215)
T ss_pred             EEEEEEccccccHHHHHHHHHHHHH-hhcCCcccceecceeEEEecC-cEEEEEEeecccHHH-----------HHHHHH
Confidence            5778999999999999988776542 222 11112222222333322 345689999999887           777777


Q ss_pred             hccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhHHH
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLED  160 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~  160 (174)
                      ..++++...++|.|.+.+-+... ..|+...+.+..+.  ..++++.||+|+.......+++
T Consensus        79 syyrgaagalmvyditrrstynhlsswl~dar~ltnpn--t~i~lignkadle~qrdv~yee  138 (215)
T KOG0097|consen   79 SYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPN--TVIFLIGNKADLESQRDVTYEE  138 (215)
T ss_pred             HHhccccceeEEEEehhhhhhhhHHHHHhhhhccCCCc--eEEEEecchhhhhhcccCcHHH
Confidence            88899999999999985544443 56666655554322  3567889999987655455554

>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]

Probab=99.09  E-value=3.8e-10  Score=81.21  Aligned_cols=108  Identities=19%  Similarity=0.300  Sum_probs=75.5

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .-|++++|-+.+|||||+..|++...  ........|..|-...++| ++-.+.+.|.||+.++.++..-.+++...   
T Consensus        62 daRValIGfPSVGKStlLs~iT~T~S--eaA~yeFTTLtcIpGvi~y-~ga~IQllDLPGIieGAsqgkGRGRQvia---  135 (364)
T KOG1486|consen   62 DARVALIGFPSVGKSTLLSKITSTHS--EAASYEFTTLTCIPGVIHY-NGANIQLLDLPGIIEGASQGKGRGRQVIA---  135 (364)
T ss_pred             CeEEEEecCCCccHHHHHHHhhcchh--hhhceeeeEEEeecceEEe-cCceEEEecCcccccccccCCCCCceEEE---
Confidence            37999999999999999999998753  2223344555555555566 88899999999999987777666666654   


Q ss_pred             hccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhh
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK  136 (174)
Q Consensus       100 ~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~  136 (174)
                       .++.+|.+++|+|++ .- ...++.++.-.+..|.+
T Consensus       136 -vArtaDlilMvLDat-k~-e~qr~~le~ELe~vGiR  169 (364)
T KOG1486|consen  136 -VARTADLILMVLDAT-KS-EDQREILEKELEAVGIR  169 (364)
T ss_pred             -EeecccEEEEEecCC-cc-hhHHHHHHHHHHHhcee
Confidence             345669999999998 32 22344444333333444

>PRK10771 thiQ thiamine transporter ATP-binding subunit; Provisional

Probab=99.09  E-value=2.2e-09  Score=78.17  Aligned_cols=39  Identities=31%  Similarity=0.345  Sum_probs=34.6

Q ss_pred             cccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            9 DDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         9 ~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+++++...+  ..++++|+||+|||||++.|+|...+..|
T Consensus        16 ~~is~~i~~G--e~~~l~G~nGsGKSTLl~~l~Gl~~~~~G   54 (232)
T PRK10771         16 MRFDLTVERG--ERVAILGPSGAGKSTLLNLIAGFLTPASG   54 (232)
T ss_pred             ceeEEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            3778888888  99999999999999999999998876665

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=99.09  E-value=2.2e-09  Score=78.07  Aligned_cols=39  Identities=31%  Similarity=0.314  Sum_probs=34.5

Q ss_pred             cccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            9 DDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         9 ~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ++++++++.+  ..++++|+||+|||||++.|+|...+..|
T Consensus         2 ~~is~~i~~G--e~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   40 (230)
T TIGR01184         2 KGVNLTIQQG--EFISLIGHSGCGKSTLLNLISGLAQPTSG   40 (230)
T ss_pred             CceeEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            4678888888  99999999999999999999999876655

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.

>PRK14250 phosphate ABC transporter ATP-binding protein; Provisional

Probab=99.08  E-value=1.1e-09  Score=80.19  Aligned_cols=43  Identities=21%  Similarity=0.131  Sum_probs=37.8

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.+++++++..+  ..++++|+||+|||||++.|+|...+..|
T Consensus        16 ~~~l~~vsl~i~~G--e~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   58 (241)
T PRK14250         16 KEILKDISVKFEGG--AIYTIVGPSGAGKSTLIKLINRLIDPTEG   58 (241)
T ss_pred             eeeeeeeeEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            34678899999988  99999999999999999999998766665

>COG4555 NatA ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]

Probab=99.08  E-value=5e-10  Score=78.20  Aligned_cols=74  Identities=14%  Similarity=0.100  Sum_probs=49.1

Q ss_pred             ccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCC
Q 030630            8 DDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus         8 ~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~   85 (174)
                      ..+++|+...|  ..++++|+||+||||+++.|.+...|+.|...... ......+..+ ..+...+.+-.|+++..+
T Consensus        18 vrdVSF~ae~G--ei~GlLG~NGAGKTT~LRmiatlL~P~~G~v~idg-~d~~~~p~~v-rr~IGVl~~e~glY~RlT   91 (245)
T COG4555          18 VRDVSFEAEEG--EITGLLGENGAGKTTLLRMIATLLIPDSGKVTIDG-VDTVRDPSFV-RRKIGVLFGERGLYARLT   91 (245)
T ss_pred             hhheeEEeccc--eEEEEEcCCCCCchhHHHHHHHhccCCCceEEEee-cccccChHHH-hhhcceecCCcChhhhhh
Confidence            35678888888  99999999999999999999998877666322111 1111112222 334455667777776444

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=99.08  E-value=2.4e-09  Score=77.47  Aligned_cols=42  Identities=31%  Similarity=0.306  Sum_probs=37.3

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.+++++++..+  ..++++|+||+|||||++.|+|..++..|
T Consensus        14 ~~l~~vs~~i~~G--e~~~i~G~nGsGKSTLl~~l~G~~~~~~G   55 (223)
T TIGR03740        14 TAVNNISLTVPKN--SVYGLLGPNGAGKSTLLKMITGILRPTSG   55 (223)
T ss_pred             EEEeeeEEEEcCC--cEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            4678889999988  99999999999999999999998766665

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.

>COG3842 PotA ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]

Probab=99.08  E-value=8e-10  Score=84.12  Aligned_cols=46  Identities=26%  Similarity=0.224  Sum_probs=40.2

Q ss_pred             CCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccC
Q 030630            4 GSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRAS   51 (174)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~   51 (174)
                      ...+.+++++++..|  ..++++||+||||||++++|+|...+++|..
T Consensus        17 ~~~av~~isl~i~~G--ef~~lLGPSGcGKTTlLR~IAGfe~p~~G~I   62 (352)
T COG3842          17 DFTAVDDISLDIKKG--EFVTLLGPSGCGKTTLLRMIAGFEQPSSGEI   62 (352)
T ss_pred             CeeEEecceeeecCC--cEEEEECCCCCCHHHHHHHHhCCCCCCCceE
Confidence            345578889999998  9999999999999999999999998877743

>PRK10575 iron-hydroxamate transporter ATP-binding subunit; Provisional

Probab=99.08  E-value=7.8e-10  Score=82.08  Aligned_cols=43  Identities=21%  Similarity=0.269  Sum_probs=37.8

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++|++..+  ..++|+|+||+|||||++.|+|..++..|
T Consensus        24 ~~il~~vs~~i~~G--e~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   66 (265)
T PRK10575         24 RTLLHPLSLTFPAG--KVTGLIGHNGSGKSTLLKMLGRHQPPSEG   66 (265)
T ss_pred             EEEEeeeeeEEcCC--CEEEEECCCCCCHHHHHHHHcCCCCCCCC
Confidence            34678889999998  99999999999999999999998766555

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=99.08  E-value=1e-08  Score=74.26  Aligned_cols=93  Identities=18%  Similarity=0.089  Sum_probs=57.3

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCC-cccccccCCCCcceeeEEEEEEEe--CCcEEEEEeCCCCCCCCCChHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGR-RAFKSRASSSGVTSTCEMQRTVLK--DGQVVNVIDTPGLFDFSAGSEFVGKEIVK   96 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~-~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~~~iDtpG~~~~~~~~~~~~~~~~~   96 (174)
                      -..|+++|++++|||||+|.|++. ..+..+.....+|...-.......  .+..+.++||||+.+...........+..
T Consensus         7 v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~~~~~~~v~~lDteG~~~~~~~~~~~~~~~~~   86 (224)
T cd01851           7 VAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFKLGKEHAVLLLDTEGTDGRERGEFEDDARLFA   86 (224)
T ss_pred             EEEEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEeccccCCCcceEEEEecCCcCccccCchhhhhHHHH
Confidence            368999999999999999999998 345555444445553333322221  24689999999999855433011111111


Q ss_pred             HHHhccCCceEEEEEEeCC
Q 030630           97 CIGMAKDGIHAVLVVFSVR  115 (174)
Q Consensus        97 ~~~~~~~~~~~il~v~~~~  115 (174)
                      ...   .-+++++|.++..
T Consensus        87 l~~---llss~~i~n~~~~  102 (224)
T cd01851          87 LAT---LLSSVLIYNSWET  102 (224)
T ss_pred             HHH---HHhCEEEEeccCc
Confidence            111   1248888877664

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

>PRK13635 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=99.08  E-value=6.6e-10  Score=83.07  Aligned_cols=41  Identities=22%  Similarity=0.234  Sum_probs=37.5

Q ss_pred             cccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            7 IDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         7 ~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      +.+++++++..|  ..++|+|+||+|||||++.|+|...+..|
T Consensus        22 ~l~~vsl~i~~G--e~~~i~G~nGaGKSTLl~~i~G~~~p~~G   62 (279)
T PRK13635         22 ALKDVSFSVYEG--EWVAIVGHNGSGKSTLAKLLNGLLLPEAG   62 (279)
T ss_pred             ceeeeEEEEcCC--CEEEEECCCCCcHHHHHHHHhcCCCCCCc
Confidence            778899999998  99999999999999999999999877665

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=99.08  E-value=2.2e-09  Score=76.59  Aligned_cols=40  Identities=23%  Similarity=0.318  Sum_probs=35.9

Q ss_pred             CCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcc
Q 030630            4 GSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRA   45 (174)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~   45 (174)
                      +..+.++.+++.+.+  ..++++|+||+|||||++.|+|...
T Consensus        19 ~~~il~~~s~~i~~G--e~~~i~G~nGsGKSTLl~~l~G~~~   58 (202)
T cd03233          19 KIPILKDFSGVVKPG--EMVLVLGRPGSGCSTLLKALANRTE   58 (202)
T ss_pred             CceeeeeEEEEECCC--cEEEEECCCCCCHHHHHHHhcccCC
Confidence            345678899999998  9999999999999999999999876

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.

>PRK11124 artP arginine transporter ATP-binding subunit; Provisional

Probab=99.08  E-value=9.5e-10  Score=80.54  Aligned_cols=43  Identities=28%  Similarity=0.254  Sum_probs=38.2

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++...+  ..++++|+||+|||||++.|+|...+..|
T Consensus        15 ~~il~~vsl~i~~G--e~~~i~G~nGsGKSTLl~~l~G~~~~~~G   57 (242)
T PRK11124         15 HQALFDITLDCPQG--ETLVLLGPSGAGKSSLLRVLNLLEMPRSG   57 (242)
T ss_pred             eeeEeeeeeEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            45778889999988  99999999999999999999998776555

>PRK15177 Vi polysaccharide export ATP-binding protein VexC; Provisional

Probab=99.08  E-value=2e-09  Score=77.40  Aligned_cols=42  Identities=14%  Similarity=0.200  Sum_probs=37.2

Q ss_pred             cccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            7 IDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         7 ~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      +.++++|+++.+  ..++++|+||+|||||++.|+|..++..|.
T Consensus         2 vl~~vs~~i~~G--e~~~l~G~NGsGKSTLlk~i~Gl~~~~sG~   43 (213)
T PRK15177          2 VLDKTDFVMGYH--EHIGILAAPGSGKTTLTRLLCGLDAPDEGD   43 (213)
T ss_pred             eeeeeeEEEcCC--CEEEEECCCCCCHHHHHHHHhCCccCCCCC
Confidence            467889999999  999999999999999999999988766654

>TIGR03258 PhnT 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT

Probab=99.08  E-value=1.2e-09  Score=84.40  Aligned_cols=41  Identities=24%  Similarity=0.363  Sum_probs=36.8

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKS   48 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~   48 (174)
                      .+.++++++.+.+  ..++++|+||+|||||++.|+|...+..
T Consensus        19 ~~l~~vsl~i~~G--e~~~llGpsGsGKSTLLr~iaGl~~p~~   59 (362)
T TIGR03258        19 TVLDDLSLEIEAG--ELLALIGKSGCGKTTLLRAIAGFVKAAG   59 (362)
T ss_pred             EEEeeeEEEECCC--CEEEEECCCCCCHHHHHHHHhCCCCCCC
Confidence            4678889999988  8999999999999999999999887766

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.

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=99.07  E-value=3.5e-09  Score=81.56  Aligned_cols=123  Identities=17%  Similarity=0.265  Sum_probs=85.3

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHh--CCccccccc------------------CCCCcceeeEEEEEEEeCCcEEEEEeCC
Q 030630           19 GERTVVLVGRTGNGKSATGNSIL--GRRAFKSRA------------------SSSGVTSTCEMQRTVLKDGQVVNVIDTP   78 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~--~~~~~~~~~------------------~~~~~t~~~~~~~~~~~~~~~~~~iDtp   78 (174)
                      +.++.+||.++.+|||||-..|+  |......|.                  ...+++..+.+..+.| ++..+.+.|||
T Consensus        11 rRRTFAIISHPDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqRGISVtsSVMqF~Y-~~~~iNLLDTP   89 (528)
T COG4108          11 RRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSSVMQFDY-ADCLVNLLDTP   89 (528)
T ss_pred             hhcceeEEecCCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhcCceEEeeEEEecc-CCeEEeccCCC
Confidence            44789999999999999986653  222222221                  1126677777888888 88999999999


Q ss_pred             CCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhH
Q 030630           79 GLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETL  158 (174)
Q Consensus        79 G~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~  158 (174)
                      |+.+++   +    +..+.+.+    +|..++|+|+.-++.+.+.+.++--+    .+. .|++-.+||+|....+...+
T Consensus        90 GHeDFS---E----DTYRtLtA----vDsAvMVIDaAKGiE~qT~KLfeVcr----lR~-iPI~TFiNKlDR~~rdP~EL  153 (528)
T COG4108          90 GHEDFS---E----DTYRTLTA----VDSAVMVIDAAKGIEPQTLKLFEVCR----LRD-IPIFTFINKLDREGRDPLEL  153 (528)
T ss_pred             Cccccc---h----hHHHHHHh----hheeeEEEecccCccHHHHHHHHHHh----hcC-CceEEEeeccccccCChHHH
Confidence            999965   2    23333333    39999999997688888877664222    221 59999999999876544443

>PRK10070 glycine betaine transporter ATP-binding subunit; Provisional

Probab=99.07  E-value=1e-09  Score=85.63  Aligned_cols=41  Identities=20%  Similarity=0.121  Sum_probs=36.9

Q ss_pred             cccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            7 IDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         7 ~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..++++|+++.+  ..++|+|+||+|||||++.|+|...+..|
T Consensus        43 ~L~~isl~i~~G--ei~~LvG~NGsGKSTLLr~I~Gl~~p~sG   83 (400)
T PRK10070         43 GVKDASLAIEEG--EIFVIMGLSGSGKSTMVRLLNRLIEPTRG   83 (400)
T ss_pred             EEEeEEEEEcCC--CEEEEECCCCchHHHHHHHHHcCCCCCCC
Confidence            467889999998  99999999999999999999999877665

>TIGR02769 nickel_nikE nickel import ATP-binding protein NikE

Probab=99.07  E-value=1.8e-09  Score=80.20  Aligned_cols=43  Identities=28%  Similarity=0.363  Sum_probs=38.5

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++++.|  ..++|+|+||+|||||++.|+|...+.+|
T Consensus        24 ~~il~~isl~i~~G--e~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   66 (265)
T TIGR02769        24 APVLTNVSLSIEEG--ETVGLLGRSGCGKSTLARLLLGLEKPAQG   66 (265)
T ss_pred             eEEeeCceeEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            34788999999999  99999999999999999999999876665

This family represents the NikE subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase.

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=99.07  E-value=1.1e-09  Score=79.92  Aligned_cols=42  Identities=26%  Similarity=0.207  Sum_probs=37.2

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++++.+.+  ..++++|+||||||||++.|+|..++..|
T Consensus        14 ~~l~~vsl~i~~G--e~~~l~G~nGsGKSTLl~~l~Gl~~~~~G   55 (236)
T cd03219          14 VALDDVSFSVRPG--EIHGLIGPNGAGKTTLFNLISGFLRPTSG   55 (236)
T ss_pred             EEecCceEEecCC--cEEEEECCCCCCHHHHHHHHcCCCCCCCc
Confidence            3678889999988  99999999999999999999998766555

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (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).

>COG4619 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=99.07  E-value=1.3e-10  Score=78.96  Aligned_cols=47  Identities=19%  Similarity=0.240  Sum_probs=41.2

Q ss_pred             CCCCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            2 MGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         2 ~~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      .+...+..+++++...|  ..++++||+|+|||||++.++....++.|.
T Consensus        13 a~~a~il~~isl~v~~G--e~iaitGPSG~GKStllk~va~Lisp~~G~   59 (223)
T COG4619          13 AGDAKILNNISLSVRAG--EFIAITGPSGCGKSTLLKIVASLISPTSGT   59 (223)
T ss_pred             cCCCeeecceeeeecCC--ceEEEeCCCCccHHHHHHHHHhccCCCCce
Confidence            35667889999999999  999999999999999999999988776663

>PRK11607 potG putrescine transporter ATP-binding subunit; Provisional

Probab=99.07  E-value=1.4e-09  Score=84.37  Aligned_cols=42  Identities=26%  Similarity=0.241  Sum_probs=37.0

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++++.+.+  ..++++|+||+|||||++.|+|...+..|
T Consensus        33 ~~l~~vsl~i~~G--e~~~llGpsGsGKSTLLr~IaGl~~p~~G   74 (377)
T PRK11607         33 HAVDDVSLTIYKG--EIFALLGASGCGKSTLLRMLAGFEQPTAG   74 (377)
T ss_pred             EEEeeeEEEEcCC--CEEEEECCCCCcHHHHHHHHhCCCCCCce
Confidence            3567888999888  89999999999999999999999877665

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=99.07  E-value=6.5e-10  Score=79.35  Aligned_cols=145  Identities=17%  Similarity=0.089  Sum_probs=85.0

Q ss_pred             CCCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEE--eCCcEEEEEeCCCC
Q 030630            3 GGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL--KDGQVVNVIDTPGL   80 (174)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~~~~iDtpG~   80 (174)
                      ++.-..++++++++.+  ..|+++|++|||||||+++|.+...+..|.........+....-..  ...+..++..-|.+
T Consensus        15 ~~~~aL~~Vnl~I~~G--E~VaiIG~SGaGKSTLLR~lngl~d~t~G~i~~~g~~i~~~~~k~lr~~r~~iGmIfQ~~nL   92 (258)
T COG3638          15 GGHQALKDVNLEINQG--EMVAIIGPSGAGKSTLLRSLNGLVDPTSGEILFNGVQITKLKGKELRKLRRDIGMIFQQFNL   92 (258)
T ss_pred             CCceeeeeEeEEeCCC--cEEEEECCCCCcHHHHHHHHhcccCCCcceEEecccchhccchHHHHHHHHhceeEeccCCc
Confidence            3445678899999999  9999999999999999999999766555522221111111110000  01234566666665


Q ss_pred             CCCCCChHHH-------------------------------------------------HHHHHHHHHhccCCceEEEEE
Q 030630           81 FDFSAGSEFV-------------------------------------------------GKEIVKCIGMAKDGIHAVLVV  111 (174)
Q Consensus        81 ~~~~~~~~~~-------------------------------------------------~~~~~~~~~~~~~~~~~il~v  111 (174)
                      .......+.+                                                 .++-..+++...+++..++- 
T Consensus        93 v~r~sv~~NVl~grl~~~s~~~slfglfsk~dk~~Al~aLervgi~~~A~qra~~LSGGQQQRVaIARaL~Q~pkiILA-  171 (258)
T COG3638          93 VPRLSVLENVLLGRLGYTSTWRSLFGLFSKEDKAQALDALERVGILDKAYQRASTLSGGQQQRVAIARALVQQPKIILA-  171 (258)
T ss_pred             ccccHHHHHHHhhhcccchHHHHHhCCCCHHHHHHHHHHHHHcCcHHHHHHHhccCCcchhHHHHHHHHHhcCCCEEec-
Confidence            5432211111                                                 12333444555667775554 


Q ss_pred             EeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCC
Q 030630          112 FSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDEL  151 (174)
Q Consensus       112 ~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~  151 (174)
                      ..+...+++.. ...++.|++...++. .-+++.+..+|++
T Consensus       172 DEPvasLDp~~a~~Vm~~l~~in~~~g-~Tvi~nLH~vdlA  211 (258)
T COG3638         172 DEPVASLDPESAKKVMDILKDINQEDG-ITVIVNLHQVDLA  211 (258)
T ss_pred             CCcccccChhhHHHHHHHHHHHHHHcC-CEEEEEechHHHH
Confidence            33333777776 788888888865542 2344445555664

>cd03256 ABC_PhnC_transporter ABC-type phosphate/phosphonate transport system

Probab=99.07  E-value=1.1e-09  Score=80.12  Aligned_cols=43  Identities=26%  Similarity=0.239  Sum_probs=38.0

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.+++++++..|  ..++++|+||+|||||++.|+|...+..|
T Consensus        14 ~~~l~~vs~~i~~G--e~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   56 (241)
T cd03256          14 KKALKDVSLSINPG--EFVALIGPSGAGKSTLLRCLNGLVEPTSG   56 (241)
T ss_pred             cEEEecceEEEcCC--CEEEEECCCCCCHHHHHHHHhCCcCCCCc
Confidence            34778899999999  99999999999999999999998766555

Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all kingdoms of wildlife, but only procaryotic microorganisms are able to cleave this bond. Certain bacteria such as E. coli can use alkylphosphonates as a phosphorus source. 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.

>PRK13644 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=99.06  E-value=1.3e-09  Score=81.32  Aligned_cols=42  Identities=17%  Similarity=0.239  Sum_probs=38.0

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++|+++.|  ..++|+|+||+|||||++.|+|...+..|
T Consensus        16 ~~l~~vsl~i~~G--e~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   57 (274)
T PRK13644         16 PALENINLVIKKG--EYIGIIGKNGSGKSTLALHLNGLLRPQKG   57 (274)
T ss_pred             ceeeeeEEEEeCC--CEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            4788999999999  99999999999999999999998776665

>PRK15112 antimicrobial peptide ABC system ATP-binding protein SapF; Provisional

Probab=99.06  E-value=1.9e-09  Score=80.15  Aligned_cols=42  Identities=21%  Similarity=0.298  Sum_probs=38.2

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++++++.+  .+++|+|+||+|||||++.|+|...+..|
T Consensus        27 ~~l~~vsl~i~~G--e~~~i~G~NGsGKSTLl~~l~Gl~~p~~G   68 (267)
T PRK15112         27 EAVKPLSFTLREG--QTLAIIGENGSGKSTLAKMLAGMIEPTSG   68 (267)
T ss_pred             ceeeeeeEEecCC--CEEEEEcCCCCCHHHHHHHHhCCCCCCCC
Confidence            4788999999999  99999999999999999999999877666

>TIGR03005 ectoine_ehuA ectoine/hydroxyectoine ABC transporter, ATP-binding protein

Probab=99.06  E-value=2.6e-09  Score=78.72  Aligned_cols=43  Identities=19%  Similarity=0.331  Sum_probs=37.9

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++|+++.+  .+++++|+||+|||||++.|+|...+..|
T Consensus        13 ~~~l~~vs~~i~~G--e~~~i~G~nGsGKSTLl~~l~G~~~~~~G   55 (252)
T TIGR03005        13 LTVLDGLNFSVAAG--EKVALIGPSGSGKSTILRILMTLEPIDEG   55 (252)
T ss_pred             eeEEeeeeEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            34678899999998  99999999999999999999998776555

Members of this family are the ATP-binding protein of a conserved four gene ABC transporter operon found next to ectoine unilization operons and ectoine biosynthesis operons. Ectoine is a compatible solute that protects enzymes from high osmolarity. It is released by some species in response to hypoosmotic shock, and it is taken up by a number of bacteria as a compatible solute or for consumption. This family shows strong sequence similiarity to a number of amino acid ABC transporter ATP-binding proteins.

>PRK10253 iron-enterobactin transporter ATP-binding protein; Provisional

Probab=99.06  E-value=1.2e-09  Score=81.09  Aligned_cols=42  Identities=14%  Similarity=0.248  Sum_probs=37.5

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++++...|  .+++|+|+||+|||||++.|+|...+..|
T Consensus        21 ~~l~~isl~i~~G--e~~~i~G~nGsGKSTLl~~i~G~~~~~~G   62 (265)
T PRK10253         21 TVAENLTVEIPDG--HFTAIIGPNGCGKSTLLRTLSRLMTPAHG   62 (265)
T ss_pred             EEeeecceEECCC--CEEEEECCCCCCHHHHHHHHcCCCCCCCc
Confidence            4678899999998  99999999999999999999998766555

>KOG0083 consensus GTPase Rab26/Rab37, small G protein superfamily [General function prediction only]

Probab=99.06  E-value=5.8e-11  Score=77.17  Aligned_cols=113  Identities=13%  Similarity=0.140  Sum_probs=79.2

Q ss_pred             EEcCCCCCHHHHHHHHhCCcccccc--cCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhcc
Q 030630           25 LVGRTGNGKSATGNSILGRRAFKSR--ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAK  102 (174)
Q Consensus        25 i~G~~g~GKStlin~l~~~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~  102 (174)
                      ++|.+++|||.|+-..-..... .+  .+..++........... .+..+.+|||.|..+           ++......+
T Consensus         2 llgds~~gktcllir~kdgafl-~~~fistvgid~rnkli~~~~-~kvklqiwdtagqer-----------frsvt~ayy   68 (192)
T KOG0083|consen    2 LLGDSCTGKTCLLIRFKDGAFL-AGNFISTVGIDFRNKLIDMDD-KKVKLQIWDTAGQER-----------FRSVTHAYY   68 (192)
T ss_pred             ccccCccCceEEEEEeccCcee-cCceeeeeeeccccceeccCC-cEEEEEEeeccchHH-----------HhhhhHhhh
Confidence            6899999999876443332211 21  11222222222332222 345789999999987           666666788


Q ss_pred             CCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630          103 DGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus       103 ~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      +.+|.++++.|..++.+.+. +.|+..|.++..+.+  .+.++.||+|+..
T Consensus        69 rda~allllydiankasfdn~~~wlsei~ey~k~~v--~l~llgnk~d~a~  117 (192)
T KOG0083|consen   69 RDADALLLLYDIANKASFDNCQAWLSEIHEYAKEAV--ALMLLGNKCDLAH  117 (192)
T ss_pred             cccceeeeeeecccchhHHHHHHHHHHHHHHHHhhH--hHhhhccccccch
Confidence            99999999999987777665 899999999976663  7889999999964

>TIGR03415 ABC_choXWV_ATP choline ABC transporter, ATP-binding protein

Probab=99.06  E-value=1.1e-09  Score=84.81  Aligned_cols=44  Identities=20%  Similarity=0.219  Sum_probs=38.4

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      ..+.++++|+++.+  ..++|+|+||+|||||++.|+|...+..|.
T Consensus        37 ~~~l~~vsf~i~~G--ei~~I~G~nGsGKSTLlr~L~Gl~~p~~G~   80 (382)
T TIGR03415        37 VVGVANASLDIEEG--EICVLMGLSGSGKSSLLRAVNGLNPVSRGS   80 (382)
T ss_pred             EEEEEeeEEEEcCC--CEEEEECCCCCcHHHHHHHHhCCCCCCCcE
Confidence            34568889999998  999999999999999999999998776663

Members of this protein family are the ATP-binding subunit of a three-protein transporter. This family belongs, more broadly, to the family of proline and glycine-betaine transporters, but members have been identified by direct characterization and by bioinformatic means as choline transporters. Many species have several closely-related members of this family, probably with variable abilities to act additionally on related quaternary amines.

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=99.05  E-value=1.9e-09  Score=86.81  Aligned_cols=129  Identities=21%  Similarity=0.223  Sum_probs=82.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCC-----------------------------------------Ccceee
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSS-----------------------------------------GVTSTC   59 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~-----------------------------------------~~t~~~   59 (174)
                      .+|+|.|.+++||||++|+++-....++|....                                         ......
T Consensus       110 mKV~ifGrts~GKSt~iNAmL~~klLP~g~gh~TncF~~VegadG~e~vl~~~~s~ek~d~~ti~~~~haL~~~~~~~~~  189 (749)
T KOG0448|consen  110 MKVAIFGRTSAGKSTVINAMLHKKLLPSGIGHTTNCFLEVEGADGAEAVLATEGSEEKIDMKTINQLAHALKPDKDLGAG  189 (749)
T ss_pred             cEEEEeCCCCCcHHHHHHHHHHHhhCcccccccceeeeeecccCCcceeeccCCCcccccHHHHhHHHHhcCcccccCcc
Confidence            689999999999999999998776554442110                                         001111


Q ss_pred             EEEEEEEeCC------cEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHH
Q 030630           60 EMQRTVLKDG------QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLF  133 (174)
Q Consensus        60 ~~~~~~~~~~------~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~  133 (174)
                      ....+.|+++      ..+.++|.||+.-...    ....+.    .+...+|+++||+.+.+.++....+++....+. 
T Consensus       190 sLlrV~~p~~~csLLrnDivliDsPGld~~se----~tswid----~~cldaDVfVlV~NaEntlt~sek~Ff~~vs~~-  260 (749)
T KOG0448|consen  190 SLLRVFWPDDKCSLLRNDIVLIDSPGLDVDSE----LTSWID----SFCLDADVFVLVVNAENTLTLSEKQFFHKVSEE-  260 (749)
T ss_pred             eEEEEEecCccchhhhccceeccCCCCCCchh----hhHHHH----HHhhcCCeEEEEecCccHhHHHHHHHHHHhhcc-
Confidence            1122233222      2478999999986321    112222    344566999999999877777777776555543 


Q ss_pred             hhhhcCcEEEEEeCcCCCCCChhhHHHHh
Q 030630          134 GKKIFDYMIVVFTGGDELEDNDETLEDYL  162 (174)
Q Consensus       134 ~~~~~~~~~iv~tk~D~~~~~~~~~~~~~  162 (174)
                          +++++|+.||||....+..-.++..
T Consensus       261 ----KpniFIlnnkwDasase~ec~e~V~  285 (749)
T KOG0448|consen  261 ----KPNIFILNNKWDASASEPECKEDVL  285 (749)
T ss_pred             ----CCcEEEEechhhhhcccHHHHHHHH
Confidence                3789999999999877533334433

>TIGR02982 heterocyst_DevA ABC exporter ATP-binding subunit, DevA family

Probab=99.05  E-value=1.1e-09  Score=79.03  Aligned_cols=43  Identities=26%  Similarity=0.315  Sum_probs=38.3

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++|+.+.|  .+++|+|+||+|||||++.|+|..++..|
T Consensus        18 ~~il~~vs~~i~~G--~~~~I~G~nGsGKStLl~~l~G~~~~~~G   60 (220)
T TIGR02982        18 KQVLFDINLEINPG--EIVILTGPSGSGKTTLLTLIGGLRSVQEG   60 (220)
T ss_pred             eeEEeeeEEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCe
Confidence            34788999999998  99999999999999999999998776655

Members of this protein family are found mostly in the Cyanobacteria, but also in the Planctomycetes. Cyanobacterial examples are involved in heterocyst formation, by which some fraction of members of the colony undergo a developmental change and become capable of nitrogen fixation. The DevBCA proteins are thought export of either heterocyst-specific glycolipids or an enzyme essential for formation of the laminated layer found in heterocysts.

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=99.05  E-value=6.1e-10  Score=81.78  Aligned_cols=119  Identities=17%  Similarity=0.237  Sum_probs=85.4

Q ss_pred             CceEEEEEcCCCCCHHHHHHHHhCCcccc--------------cccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCC
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFK--------------SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   84 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~--------------~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~   84 (174)
                      +.-.|+.+|+...|||||-.+|+..-.-.              ......+.|.......++. .++.+..+|+||.-+  
T Consensus        11 phVNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeEk~rGITIntahveyet-~~rhyahVDcPGHaD--   87 (394)
T COG0050          11 PHVNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARGITINTAHVEYET-ANRHYAHVDCPGHAD--   87 (394)
T ss_pred             CeeEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchHhhcCceeccceeEEec-CCceEEeccCCChHH--
Confidence            34789999999999999998876532100              0112235666666655555 677889999999876  


Q ss_pred             CChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           85 AGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                           ..+.++    ..+.+.|..|+|+.++++.-+++++.+-..++. +-   +.+++++||+|..++
T Consensus        88 -----YvKNMI----tgAaqmDgAILVVsA~dGpmPqTrEHiLlarqv-Gv---p~ivvflnK~Dmvdd  143 (394)
T COG0050          88 -----YVKNMI----TGAAQMDGAILVVAATDGPMPQTREHILLARQV-GV---PYIVVFLNKVDMVDD  143 (394)
T ss_pred             -----HHHHHh----hhHHhcCccEEEEEcCCCCCCcchhhhhhhhhc-CC---cEEEEEEecccccCc
Confidence                 344444    445566999999999888889998887544444 43   378999999999985

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=99.05  E-value=4.2e-10  Score=92.28  Aligned_cols=42  Identities=26%  Similarity=0.427  Sum_probs=37.0

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      .+.++++++.++|  .+++++|++|+|||||++.|+|.. +..|.
T Consensus       364 ~vL~~i~l~i~~G--~~vaIvG~SGsGKSTL~~lL~g~~-p~~G~  405 (588)
T PRK11174        364 TLAGPLNFTLPAG--QRIALVGPSGAGKTSLLNALLGFL-PYQGS  405 (588)
T ss_pred             eeeeeeEEEEcCC--CEEEEECCCCCCHHHHHHHHhcCC-CCCcE
Confidence            4678889999999  999999999999999999999988 55553

>TIGR02142 modC_ABC molybdenum ABC transporter, ATP-binding protein

Probab=99.05  E-value=2.8e-09  Score=82.24  Aligned_cols=39  Identities=26%  Similarity=0.376  Sum_probs=34.4

Q ss_pred             ccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630           10 DWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus        10 ~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      +++++.+.+  ..++++|+||||||||++.|+|...+..|.
T Consensus        15 ~isl~i~~G--ei~~l~G~nGsGKSTLl~~iaGl~~p~~G~   53 (354)
T TIGR02142        15 DADFTLPGQ--GVTAIFGRSGSGKTTLIRLIAGLTRPDEGE   53 (354)
T ss_pred             EEEEEECCC--CEEEEECCCCCCHHHHHHHHhCCCCCCceE
Confidence            678888888  899999999999999999999998766653

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.

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=99.05  E-value=7.1e-10  Score=77.05  Aligned_cols=55  Identities=38%  Similarity=0.483  Sum_probs=40.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCC
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   80 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~   80 (174)
                      .+++++|.+|+|||||+|+|++......+. .++.|...  ..+.+  +..+.++||||+
T Consensus       118 ~~~~~vG~pnvGKSslin~l~~~~~~~~~~-~pg~T~~~--~~~~~--~~~~~l~DtPGi  172 (172)
T cd04178         118 ITVGVVGFPNVGKSSLINSLKRSRACNVGA-TPGVTKSM--QEVHL--DKKVKLLDSPGI  172 (172)
T ss_pred             cEEEEEcCCCCCHHHHHHHHhCcccceecC-CCCeEcce--EEEEe--CCCEEEEECcCC
Confidence            689999999999999999999987654542 33444432  22222  356899999996

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

>TIGR02315 ABC_phnC phosphonate ABC transporter, ATP-binding protein

Probab=99.05  E-value=1.7e-09  Score=79.18  Aligned_cols=43  Identities=21%  Similarity=0.166  Sum_probs=38.3

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++++.+  ..++++|+||+|||||++.|+|..++..|
T Consensus        15 ~~il~~vs~~i~~G--e~~~l~G~nGsGKSTLl~~l~Gl~~~~~G   57 (243)
T TIGR02315        15 KQALKNINLNINPG--EFVAIIGPSGAGKSTLLRCINRLVEPSSG   57 (243)
T ss_pred             cceeecceEEEcCC--CEEEEECCCCCCHHHHHHHHhCCcCCCcc
Confidence            35788999999999  99999999999999999999998876555

Phosphonates are a class of phosphorus-containing organic compound with a stable direct C-P bond rather than a C-O-P linkage. A number of bacterial species have operons, typically about 14 genes in size, with genes for ATP-dependent transport of phosphonates, degradation, and regulation of the expression of the system. Members of this protein family are the ATP-binding cassette component of tripartite ABC transporters of phosphonates.

>TIGR03873 F420-0_ABC_ATP proposed F420-0 ABC transporter, ATP-binding protein

Probab=99.04  E-value=1.4e-09  Score=80.32  Aligned_cols=43  Identities=26%  Similarity=0.310  Sum_probs=38.0

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.+++++++..|  .+++|+|+||+|||||++.|+|..++..|
T Consensus        14 ~~il~~is~~i~~G--e~~~i~G~nGsGKSTLl~~i~G~~~~~~G   56 (256)
T TIGR03873        14 RLIVDGVDVTAPPG--SLTGLLGPNGSGKSTLLRLLAGALRPDAG   56 (256)
T ss_pred             EEEEeeeeEEEcCC--cEEEEECCCCCCHHHHHHHHcCCCCCCCC
Confidence            35678889999988  99999999999999999999998776555

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.

>PRK11144 modC molybdate transporter ATP-binding protein; Provisional

Probab=99.04  E-value=2.9e-09  Score=82.10  Aligned_cols=39  Identities=28%  Similarity=0.393  Sum_probs=34.3

Q ss_pred             ccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630           10 DWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus        10 ~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      +++++.+.+  ..++++|+||+|||||++.|+|...+..|.
T Consensus        16 ~vsl~i~~G--e~~~l~G~nGsGKSTLl~~iaGl~~p~~G~   54 (352)
T PRK11144         16 TVNLTLPAQ--GITAIFGRSGAGKTSLINAISGLTRPQKGR   54 (352)
T ss_pred             EEEEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCceE
Confidence            678888888  899999999999999999999988766653

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=99.04  E-value=4.3e-09  Score=83.43  Aligned_cols=138  Identities=19%  Similarity=0.262  Sum_probs=91.7

Q ss_pred             cccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCc---c-----------cc---------------cccCCCCcceeeEE
Q 030630           11 WELTSPSNGERTVVLVGRTGNGKSATGNSILGRR---A-----------FK---------------SRASSSGVTSTCEM   61 (174)
Q Consensus        11 ~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~---~-----------~~---------------~~~~~~~~t~~~~~   61 (174)
                      ++...+.-....++++|+..+|||||+-.|+=..   -           ..               ..+...+.|.....
T Consensus       168 ~~~q~~~k~~l~lvv~GhVdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerGvTm~v~~  247 (603)
T KOG0458|consen  168 IDEQSDPKDHLNLVVLGHVDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERGVTMDVKT  247 (603)
T ss_pred             cccccCCccceEEEEEeccccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcceeEEeee
Confidence            3444555567889999999999999987654210   0           00               01122366666666


Q ss_pred             EEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCC-----CC--CHHHHHHHHHHHHHHh
Q 030630           62 QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRS-----RF--SQEEEAALHSLQTLFG  134 (174)
Q Consensus        62 ~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~-----~~--~~~~~~~l~~l~~~~~  134 (174)
                      ..++. +...+.++|+||+.++           ..-+-..+..+|+.++|+|++.     ++  ....+++...++.+ |
T Consensus       248 ~~fes-~~~~~tliDaPGhkdF-----------i~nmi~g~sqaD~avLvvd~s~~~FE~gfd~~gQtrEha~llr~L-g  314 (603)
T KOG0458|consen  248 TWFES-KSKIVTLIDAPGHKDF-----------IPNMISGASQADVAVLVVDASTGEFESGFDPGGQTREHALLLRSL-G  314 (603)
T ss_pred             EEEec-CceeEEEecCCCcccc-----------chhhhccccccceEEEEEECCcchhhhccCCCCchHHHHHHHHHc-C
Confidence            66664 6778999999998773           3333345677899999999861     22  23346666555554 4


Q ss_pred             hhhcCcEEEEEeCcCCCCCChhhHHHHhcc
Q 030630          135 KKIFDYMIVVFTGGDELEDNDETLEDYLGR  164 (174)
Q Consensus       135 ~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~  164 (174)
                      .   ...+|++||+|+..=.+.+.++..++
T Consensus       315 i---~qlivaiNKmD~V~Wsq~RF~eIk~~  341 (603)
T KOG0458|consen  315 I---SQLIVAINKMDLVSWSQDRFEEIKNK  341 (603)
T ss_pred             c---ceEEEEeecccccCccHHHHHHHHHH
Confidence            2   48999999999998665666665443

>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]

Probab=99.04  E-value=4.1e-09  Score=83.35  Aligned_cols=141  Identities=18%  Similarity=0.174  Sum_probs=99.4

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCC----------------------------------------------
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSS----------------------------------------------   53 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~----------------------------------------------   53 (174)
                      -+|++++|...+||||.+.+++....|+.|....                                              
T Consensus       308 LPRVVVVGDQSaGKTSVLEmiAqARIFPRGSGEMMTRaPVKVTLsEGPyHVAqFrDSsREfDLTKE~DLq~LR~e~E~RM  387 (980)
T KOG0447|consen  308 LPRVVVVGDQSAGKTSVLEMIAQARIFPRGSGEMMTRSPVKVTLSEGPHHVALFKDSSREFDLTKEEDLAALRHEIELRM  387 (980)
T ss_pred             CceEEEEcCccccchHHHHHHHHhccCcCCCcceeccCCeEEEeccCcchhhhhccccccccccchhHHHHHHHHHHHHH
Confidence            3899999999999999999999887776653211                                              


Q ss_pred             ------CcceeeEEEEEEE--eCCcEEEEEeCCCCCCCCC--ChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHH
Q 030630           54 ------GVTSTCEMQRTVL--KDGQVVNVIDTPGLFDFSA--GSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEE  123 (174)
Q Consensus        54 ------~~t~~~~~~~~~~--~~~~~~~~iDtpG~~~~~~--~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~  123 (174)
                            +.|..........  +.-++..++|.||+..+.+  ...++...+.+..+.....+++||+|+.-. ..+.+..
T Consensus       388 r~sVr~GkTVSnEvIsltVKGPgLqRMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDG-SVDAERS  466 (980)
T KOG0447|consen  388 RKNVKEGCTVSPETISLNVKGPGLQRMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDG-SVDAERS  466 (980)
T ss_pred             HhcccCCcccccceEEEeecCCCcceeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccC-Ccchhhh
Confidence                  4454444444444  1225689999999987544  344566677788888889999999999776 6666665


Q ss_pred             HHHHHHHHHHhhhhcCcEEEEEeCcCCCCCC---hhhHHHHhc
Q 030630          124 AALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLG  163 (174)
Q Consensus       124 ~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~---~~~~~~~~~  163 (174)
                      ..-+...+.-+..  +++|+|+||+|++..+   ..++.+.+.
T Consensus       467 nVTDLVsq~DP~G--rRTIfVLTKVDlAEknlA~PdRI~kIle  507 (980)
T KOG0447|consen  467 IVTDLVSQMDPHG--RRTIFVLTKVDLAEKNVASPSRIQQIIE  507 (980)
T ss_pred             hHHHHHHhcCCCC--CeeEEEEeecchhhhccCCHHHHHHHHh
Confidence            5555555543223  6899999999997642   244555554

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=99.04  E-value=5.9e-09  Score=76.80  Aligned_cols=42  Identities=26%  Similarity=0.324  Sum_probs=37.2

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++|+++.+  ..++|+|+||+|||||++.|+|...+..|
T Consensus        18 ~vl~~vs~~i~~G--e~~~I~G~NGsGKSTLl~~i~Gl~~p~~G   59 (251)
T PRK09544         18 RVLSDVSLELKPG--KILTLLGPNGAGKSTLVRVVLGLVAPDEG   59 (251)
T ss_pred             eEEEeEEEEEcCC--cEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            4678889999998  99999999999999999999998766555

>PRK13638 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=99.04  E-value=2e-09  Score=80.10  Aligned_cols=43  Identities=21%  Similarity=0.151  Sum_probs=38.5

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++...|  .+++|+|+||+|||||++.|+|...+..|
T Consensus        14 ~~il~~isl~i~~G--e~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   56 (271)
T PRK13638         14 EPVLKGLNLDFSLS--PVTGLVGANGCGKSTLFMNLSGLLRPQKG   56 (271)
T ss_pred             cccccceEEEEcCC--CEEEEECCCCCCHHHHHHHHcCCCCCCcc
Confidence            45788999999998  99999999999999999999998876665

>PRK13768 GTPase; Provisional

Probab=99.04  E-value=1.5e-09  Score=79.94  Aligned_cols=80  Identities=18%  Similarity=0.157  Sum_probs=50.4

Q ss_pred             EEEEEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCC
Q 030630           71 VVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDE  150 (174)
Q Consensus        71 ~~~~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~  150 (174)
                      .+.++|+||..+.... ......+.+.+....  ++++++++|+....+..+......+..........|+++|+||+|+
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            5899999998763321 233444444444322  7999999999755556664444333322111223699999999999


Q ss_pred             CCC
Q 030630          151 LED  153 (174)
Q Consensus       151 ~~~  153 (174)
                      ...
T Consensus       175 ~~~  177 (253)
T PRK13768        175 LSE  177 (253)
T ss_pred             cCc
Confidence            876

>PRK10619 histidine/lysine/arginine/ornithine transporter subunit; Provisional

Probab=99.04  E-value=2e-09  Score=79.55  Aligned_cols=43  Identities=16%  Similarity=0.168  Sum_probs=37.9

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++++.+  ..++|+|+||+|||||++.|+|...+..|
T Consensus        18 ~~~l~~is~~i~~G--e~~~l~G~nGsGKSTLl~~i~G~~~~~~G   60 (257)
T PRK10619         18 HEVLKGVSLQANAG--DVISIIGSSGSGKSTFLRCINFLEKPSEG   60 (257)
T ss_pred             EEEEeeeEEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCe
Confidence            34678899999988  99999999999999999999999876555

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=99.04  E-value=4e-09  Score=73.06  Aligned_cols=45  Identities=24%  Similarity=0.250  Sum_probs=39.3

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccC
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRAS   51 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~   51 (174)
                      ....++++|..+.+  .-+-++||+|||||||++.|.+...++.|..
T Consensus        15 ~~aL~~vs~~i~~G--ef~fl~GpSGAGKSTllkLi~~~e~pt~G~i   59 (223)
T COG2884          15 REALRDVSFHIPKG--EFVFLTGPSGAGKSTLLKLIYGEERPTRGKI   59 (223)
T ss_pred             chhhhCceEeecCc--eEEEEECCCCCCHHHHHHHHHhhhcCCCceE
Confidence            44678889999998  8999999999999999999999988877643

>PRK13541 cytochrome c biogenesis protein CcmA; Provisional

Probab=99.04  E-value=3.6e-09  Score=75.03  Aligned_cols=37  Identities=24%  Similarity=0.182  Sum_probs=33.1

Q ss_pred             cccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630           11 WELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus        11 ~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ++++.+.+  .+++++|+||+|||||++.|+|...+..|
T Consensus        19 vs~~i~~G--e~~~l~G~nGsGKSTLl~~l~G~~~~~~G   55 (195)
T PRK13541         19 LSITFLPS--AITYIKGANGCGKSSLLRMIAGIMQPSSG   55 (195)
T ss_pred             EEEEEcCC--cEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            77888888  99999999999999999999998776665

>KOG2486 consensus Predicted GTPase [General function prediction only]

Probab=99.04  E-value=3.6e-09  Score=77.13  Aligned_cols=127  Identities=17%  Similarity=0.142  Sum_probs=81.4

Q ss_pred             CCCceEEEEEcCCCCCHHHHHHHHhCCcccc-cccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCC---ChHHHHH
Q 030630           17 SNGERTVVLVGRTGNGKSATGNSILGRRAFK-SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA---GSEFVGK   92 (174)
Q Consensus        17 ~~~~~~i~i~G~~g~GKStlin~l~~~~~~~-~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~---~~~~~~~   92 (174)
                      .+...++++.|.+++|||||+|.++...... .+....+.|...+...    -...++++|.||+..+.-   ...++..
T Consensus       133 k~~~pe~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f~----v~~~~~~vDlPG~~~a~y~~~~~~d~~~  208 (320)
T KOG2486|consen  133 KDKRPELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHFH----VGKSWYEVDLPGYGRAGYGFELPADWDK  208 (320)
T ss_pred             CCCCceeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeeeee----ccceEEEEecCCcccccCCccCcchHhH
Confidence            4556889999999999999999998765321 2222333343333322    367799999999554322   2334444


Q ss_pred             HHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           93 EIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        93 ~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ....++.....-.. +++.+|++-++...|...++++-+..     -|..+|+||+|...+
T Consensus       209 ~t~~Y~leR~nLv~-~FLLvd~sv~i~~~D~~~i~~~ge~~-----VP~t~vfTK~DK~k~  263 (320)
T KOG2486|consen  209 FTKSYLLERENLVR-VFLLVDASVPIQPTDNPEIAWLGENN-----VPMTSVFTKCDKQKK  263 (320)
T ss_pred             hHHHHHHhhhhhhe-eeeeeeccCCCCCCChHHHHHHhhcC-----CCeEEeeehhhhhhh
Confidence            44444443333333 44556776577777777777777653     588999999998754

>PRK13650 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=99.03  E-value=9.8e-10  Score=82.16  Aligned_cols=41  Identities=24%  Similarity=0.259  Sum_probs=37.6

Q ss_pred             cccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            7 IDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         7 ~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      +.+++++++..|  ..++++|+||+|||||++.|+|...+..|
T Consensus        22 ~l~~vsl~i~~G--e~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   62 (279)
T PRK13650         22 TLNDVSFHVKQG--EWLSIIGHNGSGKSTTVRLIDGLLEAESG   62 (279)
T ss_pred             eeeeeEEEEeCC--CEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            788999999998  99999999999999999999999877666

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=99.03  E-value=8.4e-10  Score=78.97  Aligned_cols=42  Identities=19%  Similarity=0.237  Sum_probs=37.3

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++++++.+  ..++++|++|+|||||++.|+|...+..|
T Consensus        22 ~~l~~isl~i~~G--~~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   63 (207)
T cd03369          22 PVLKNVSFKVKAG--EKIGIVGRTGAGKSTLILALFRFLEAEEG   63 (207)
T ss_pred             ccccCceEEECCC--CEEEEECCCCCCHHHHHHHHhcccCCCCC
Confidence            4678889999988  99999999999999999999998766555

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.

>PRK13633 cobalt transporter ATP-binding subunit; Provisional

Probab=99.03  E-value=2.9e-09  Score=79.69  Aligned_cols=42  Identities=24%  Similarity=0.281  Sum_probs=38.4

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++++++.|  ..++|+|+||+|||||++.|+|...+..|
T Consensus        24 ~vl~~vs~~i~~G--e~~~l~G~nGsGKSTLl~~l~Gl~~~~~G   65 (280)
T PRK13633         24 LALDDVNLEVKKG--EFLVILGRNGSGKSTIAKHMNALLIPSEG   65 (280)
T ss_pred             ceeeeeEEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            4889999999998  99999999999999999999999877666

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=99.03  E-value=9e-09  Score=75.60  Aligned_cols=44  Identities=14%  Similarity=0.176  Sum_probs=33.5

Q ss_pred             cccccccCCCCC---CceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            7 IDDDWELTSPSN---GERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         7 ~~~~~~~~~~~~---~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      ...++++...++   +..+++|+|+||+|||||++.|+|...+..|.
T Consensus         9 ~~~~~~l~~~~~~i~~Ge~~~i~G~NGsGKSTLlk~L~G~~~p~~G~   55 (246)
T cd03237           9 TLGEFTLEVEGGSISESEVIGILGPNGIGKTTFIKMLAGVLKPDEGD   55 (246)
T ss_pred             ccCcEEEEEecCCcCCCCEEEEECCCCCCHHHHHHHHhCCCcCCCCe
Confidence            344555555532   33899999999999999999999998766653

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.

>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=99.03  E-value=2.2e-09  Score=73.55  Aligned_cols=126  Identities=19%  Similarity=0.137  Sum_probs=68.4

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCC
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~   85 (174)
                      .+..+.+++.+++  ..++++|+||+|||||++.|.|...+..|................+ .....++.+   +..   
T Consensus        13 ~~l~~~~~~i~~g--~~~~i~G~nGsGKStll~~l~g~~~~~~G~i~~~~~~~~~~~~~~~-~~~i~~~~q---lS~---   83 (157)
T cd00267          13 TALDNVSLTLKAG--EIVALVGPNGSGKSTLLRAIAGLLKPTSGEILIDGKDIAKLPLEEL-RRRIGYVPQ---LSG---   83 (157)
T ss_pred             eeEeeeEEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCccEEEECCEEcccCCHHHH-HhceEEEee---CCH---
Confidence            3567778888888  9999999999999999999999875544321111100000000000 111223333   221   


Q ss_pred             ChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHH-HHHHHHHhhhhcCcEEEEEeCc
Q 030630           86 GSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAAL-HSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l-~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                        .  .++....++....+++.+++ ...+..++......+ +.+.+.. ..  ..++++++|.
T Consensus        84 --G--~~~r~~l~~~l~~~~~i~il-DEp~~~lD~~~~~~l~~~l~~~~-~~--~~tii~~sh~  139 (157)
T cd00267          84 --G--QRQRVALARALLLNPDLLLL-DEPTSGLDPASRERLLELLRELA-EE--GRTVIIVTHD  139 (157)
T ss_pred             --H--HHHHHHHHHHHhcCCCEEEE-eCCCcCCCHHHHHHHHHHHHHHH-HC--CCEEEEEeCC
Confidence              1  22333444455556665554 344447777775444 4444432 22  2577888774

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.

>cd03235 ABC_Metallic_Cations ABC component of the metal-type transporters

Probab=99.02  E-value=2.9e-09  Score=76.53  Aligned_cols=42  Identities=26%  Similarity=0.322  Sum_probs=37.5

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++++++.+  ..++++|+||+|||||++.|+|...+..|
T Consensus        13 ~~l~~isl~i~~G--e~~~l~G~nGsGKSTLl~~l~G~~~p~~G   54 (213)
T cd03235          13 PVLEDVSFEVKPG--EFLAIVGPNGAGKSTLLKAILGLLKPTSG   54 (213)
T ss_pred             EeeecceeEEcCC--CEEEEECCCCCCHHHHHHHHcCCCCCCCC
Confidence            4678889999998  99999999999999999999998776555

This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-siderophore uptake family suggesting that they share a common ancestor. The best characterized metal-type ABC transporters are the YfeABCD system of Y. pestis, the SitABCD system of Salmonella enterica serovar Typhimurium, and the SitABCD transporter of Shigella flexneri. Moreover other uncharacterized homologs of these metal-type transporters are mainly found in pathogens like Haemophilus or enteroinvasive E. coli isolates.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=99.02  E-value=1.2e-09  Score=73.61  Aligned_cols=56  Identities=30%  Similarity=0.457  Sum_probs=39.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCC
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   82 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~   82 (174)
                      +++++|.+|+|||||+|+|++....... ...+.|...  ..+..  +..++++||||+.-
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~~~~~-~~~~~~~~~--~~~~~--~~~~~i~DtpG~~~  140 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKKVSVS-ATPGKTKHF--QTIFL--TPTITLCDCPGLVF  140 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeC-CCCCcccce--EEEEe--CCCEEEEECCCcCC
Confidence            8999999999999999999987754322 223333332  22333  33689999999863

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.

>PRK11231 fecE iron-dicitrate transporter ATP-binding subunit; Provisional

Probab=99.02  E-value=1.4e-09  Score=80.21  Aligned_cols=43  Identities=26%  Similarity=0.318  Sum_probs=37.6

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++.+.+  ..++++|+||+|||||++.|+|...+..|
T Consensus        15 ~~il~~is~~i~~G--e~~~l~G~nGsGKSTLl~~l~Gl~~~~~G   57 (255)
T PRK11231         15 KRILNDLSLSLPTG--KITALIGPNGCGKSTLLKCFARLLTPQSG   57 (255)
T ss_pred             EEEEeeeeeEEcCC--cEEEEECCCCCCHHHHHHHHhCCcCCCCc
Confidence            34678889999998  99999999999999999999998766555

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=99.02  E-value=2.1e-09  Score=79.33  Aligned_cols=42  Identities=21%  Similarity=0.252  Sum_probs=37.4

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.+++++++..+  ..++++|+||+|||||++.|+|..++..|
T Consensus        19 ~~l~~is~~i~~G--e~~~l~G~nGsGKSTLl~~l~Gl~~~~~G   60 (255)
T PRK11300         19 LAVNNVNLEVREQ--EIVSLIGPNGAGKTTVFNCLTGFYKPTGG   60 (255)
T ss_pred             EEEEeeeeEEcCC--eEEEEECCCCCCHHHHHHHHhCCcCCCcc
Confidence            4678889999988  99999999999999999999999776665

>cd03250 ABCC_MRP_domain1 Domain 1 of the ABC subfamily C

Probab=99.02  E-value=5.9e-09  Score=74.42  Aligned_cols=42  Identities=31%  Similarity=0.376  Sum_probs=38.1

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++++++.+  .+++++|+||+|||||++.|+|...+..|
T Consensus        19 ~il~~~s~~i~~G--~~~~i~G~nG~GKSTLl~~i~G~~~~~~G   60 (204)
T cd03250          19 FTLKDINLEVPKG--ELVAIVGPVGSGKSSLLSALLGELEKLSG   60 (204)
T ss_pred             ceeeeeeEEECCC--CEEEEECCCCCCHHHHHHHHhCcCCCCCC
Confidence            4788999999999  99999999999999999999998776665

This family is also known as MRP (mulrtidrug resisitance-associated protein). 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.

>PRK14247 phosphate ABC transporter ATP-binding protein; Provisional

Probab=99.02  E-value=2.2e-09  Score=78.95  Aligned_cols=39  Identities=26%  Similarity=0.287  Sum_probs=35.1

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRA   45 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~   45 (174)
                      ..+.++++++++.+  .+++++|+||+|||||++.|+|...
T Consensus        16 ~~~l~~is~~i~~G--e~~~i~G~nGsGKSTLl~~i~G~~~   54 (250)
T PRK14247         16 VEVLDGVNLEIPDN--TITALMGPSGSGKSTLLRVFNRLIE   54 (250)
T ss_pred             eeeeecceeEEcCC--CEEEEECCCCCCHHHHHHHHhccCC
Confidence            34678889999988  9999999999999999999999864

>PRK13647 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=99.02  E-value=1.6e-09  Score=80.87  Aligned_cols=42  Identities=21%  Similarity=0.211  Sum_probs=37.9

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.+++++++..|  .+++|+|+||+|||||++.|+|...+..|
T Consensus        19 ~~l~~isl~i~~G--e~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   60 (274)
T PRK13647         19 KALKGLSLSIPEG--SKTALLGPNGAGKSTLLLHLNGIYLPQRG   60 (274)
T ss_pred             eeeeeEEEEEcCC--CEEEEECCCCCcHHHHHHHHhcCCCCCce
Confidence            4788999999999  99999999999999999999998876655

>PRK10762 D-ribose transporter ATP binding protein; Provisional

Probab=99.02  E-value=1.7e-09  Score=87.09  Aligned_cols=44  Identities=23%  Similarity=0.236  Sum_probs=38.4

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      ..+.++++|+...+  ..++++|+||||||||++.|+|...+..|.
T Consensus        17 ~~~l~~is~~i~~G--e~~~l~G~NGsGKSTLl~~l~G~~~p~~G~   60 (501)
T PRK10762         17 VKALSGAALNVYPG--RVMALVGENGAGKSTMMKVLTGIYTRDAGS   60 (501)
T ss_pred             eEEeeeeeEEEcCC--eEEEEECCCCCCHHHHHHHHhCCCCCCCcE
Confidence            34678899999998  999999999999999999999988766653

>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit

Probab=99.01  E-value=1.1e-09  Score=88.83  Aligned_cols=43  Identities=30%  Similarity=0.325  Sum_probs=38.6

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      .+.++++++.+.|  .+++++|++|+|||||++.|+|...+..|.
T Consensus       336 ~il~~i~l~i~~G--~~~~ivG~sGsGKSTL~~ll~g~~~~~~G~  378 (529)
T TIGR02857       336 PALRPVSFTVPPG--ERVALVGPSGAGKSTLLNLLLGFVDPTEGS  378 (529)
T ss_pred             ccccceeEEECCC--CEEEEECCCCCCHHHHHHHHhcCCCCCCcE
Confidence            3788899999999  999999999999999999999998776663

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

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=99.01  E-value=1.8e-09  Score=86.80  Aligned_cols=53  Identities=21%  Similarity=0.216  Sum_probs=41.3

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeE
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCE   60 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~   60 (174)
                      .+.++.+|....+  .+|+++|+||+|||||++.|+|...+..|....+.+....
T Consensus       336 ~l~~~~s~~i~~g--~riaiiG~NG~GKSTLlk~l~g~~~~~~G~v~~g~~v~ig  388 (530)
T COG0488         336 LLLKDLSFRIDRG--DRIAIVGPNGAGKSTLLKLLAGELGPLSGTVKVGETVKIG  388 (530)
T ss_pred             eeecCceEEecCC--CEEEEECCCCCCHHHHHHHHhhhcccCCceEEeCCceEEE
Confidence            4677888888888  9999999999999999999999876665544444443333

>PRK13652 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=99.01  E-value=2.9e-09  Score=79.56  Aligned_cols=42  Identities=21%  Similarity=0.287  Sum_probs=38.1

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++|+.+.|  .+++|+|+||+|||||++.|+|...+..|
T Consensus        18 ~~l~~vsl~i~~G--e~~~i~G~NGsGKSTLl~~l~Gl~~p~~G   59 (277)
T PRK13652         18 EALNNINFIAPRN--SRIAVIGPNGAGKSTLFRHFNGILKPTSG   59 (277)
T ss_pred             ceeeEeEEEEcCC--CEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            3788999999998  99999999999999999999998877666

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=99.01  E-value=1.7e-09  Score=86.96  Aligned_cols=119  Identities=23%  Similarity=0.254  Sum_probs=79.5

Q ss_pred             CCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCC---------------CCcceeeEEEEEEE----eCCcEEEEEeC
Q 030630           17 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASS---------------SGVTSTCEMQRTVL----KDGQVVNVIDT   77 (174)
Q Consensus        17 ~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~---------------~~~t~~~~~~~~~~----~~~~~~~~iDt   77 (174)
                      +...+.++++|+-++|||+|+..|..+..+......               .+++....-.....    .+.+.+.++||
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            344578999999999999999999887654321100               12222222122221    12345799999


Q ss_pred             CCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCC
Q 030630           78 PGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  151 (174)
Q Consensus        78 pG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~  151 (174)
                      ||.-.+.       .+..    ..++.+|++++++|+.+++.....+.++...+..     .++++|+||+|.+
T Consensus       205 PGHVnF~-------DE~t----a~l~~sDgvVlvvDv~EGVmlntEr~ikhaiq~~-----~~i~vviNKiDRL  262 (971)
T KOG0468|consen  205 PGHVNFS-------DETT----ASLRLSDGVVLVVDVAEGVMLNTERIIKHAIQNR-----LPIVVVINKVDRL  262 (971)
T ss_pred             CCcccch-------HHHH----HHhhhcceEEEEEEcccCceeeHHHHHHHHHhcc-----CcEEEEEehhHHH
Confidence            9999832       3333    3445559999999998898888877765544432     5999999999985

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=99.00  E-value=1.3e-09  Score=89.39  Aligned_cols=43  Identities=28%  Similarity=0.237  Sum_probs=38.5

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      .+.++++++.+.|  .+++++|++|+|||||++.|+|...+..|.
T Consensus       349 ~iL~~inl~i~~G--~~v~IvG~sGsGKSTLl~lL~gl~~p~~G~  391 (588)
T PRK13657        349 QGVEDVSFEAKPG--QTVAIVGPTGAGKSTLINLLQRVFDPQSGR  391 (588)
T ss_pred             ceecceeEEECCC--CEEEEECCCCCCHHHHHHHHhcCcCCCCCE
Confidence            4788899999999  999999999999999999999998776653

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=99.00  E-value=2.7e-09  Score=93.29  Aligned_cols=132  Identities=17%  Similarity=0.221  Sum_probs=80.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccc---cC---CCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCC----hHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSR---AS---SSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAG----SEFV   90 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~---~~---~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~----~~~~   90 (174)
                      +..+++|++|+||||+++.- |...+-..   ..   ..+.|..     +.|.-.....++||+|..-...+    ....
T Consensus       112 PWYlviG~~gsGKtt~l~~s-gl~~pl~~~~~~~~~~~~~~t~~-----c~wwf~~~avliDtaG~y~~~~~~~~~~~~~  185 (1169)
T TIGR03348       112 PWYLVIGPPGSGKTTLLQNS-GLKFPLAERLGAAALRGVGGTRN-----CDWWFTDEAVLIDTAGRYTTQDSDPEEDAAA  185 (1169)
T ss_pred             CCEEEECCCCCchhHHHHhC-CCCCcCchhhccccccCCCCCcc-----cceEecCCEEEEcCCCccccCCCcccccHHH
Confidence            67899999999999999875 44432211   00   1122222     33334556789999997754322    2223


Q ss_pred             HHHHHHHHHhc--cCCceEEEEEEeCCCCCC--HH--------HHHHHHHHHHHHhhhhcCcEEEEEeCcCCCCCChhhH
Q 030630           91 GKEIVKCIGMA--KDGIHAVLVVFSVRSRFS--QE--------EEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETL  158 (174)
Q Consensus        91 ~~~~~~~~~~~--~~~~~~il~v~~~~~~~~--~~--------~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~  158 (174)
                      ...+...++..  .+.+++||++++..+-+.  ..        -+..++.+.+.++..  -|+.+++||+|++.+    .
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            34445544432  356899999999873332  21        144456666666555  599999999999854    4


Q ss_pred             HHHhcc
Q 030630          159 EDYLGR  164 (174)
Q Consensus       159 ~~~~~~  164 (174)
                      .+|...
T Consensus       260 ~~~f~~  265 (1169)
T TIGR03348       260 EEFFAD  265 (1169)
T ss_pred             HHHHHh
Confidence            555544

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=99.00  E-value=1.1e-08  Score=74.16  Aligned_cols=45  Identities=27%  Similarity=0.288  Sum_probs=39.1

Q ss_pred             CCCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            3 GGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      |...+.++++|+++.+  ..++++|+||+|||||++.|+|...+..|
T Consensus        33 ~~~~il~~vs~~i~~G--e~~~i~G~nGsGKSTLl~~l~G~~~p~~G   77 (224)
T cd03220          33 GEFWALKDVSFEVPRG--ERIGLIGRNGAGKSTLLRLLAGIYPPDSG   77 (224)
T ss_pred             CCeEEEeeeEEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            3455788999999999  99999999999999999999998766555

Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=99.00  E-value=2.3e-09  Score=77.43  Aligned_cols=42  Identities=24%  Similarity=0.310  Sum_probs=38.1

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++|+++.+  ..++++|+||+|||||++.|+|...+..|
T Consensus        18 ~~l~~i~~~i~~G--e~~~i~G~nGsGKSTLl~~l~G~~~~~~G   59 (221)
T cd03244          18 PVLKNISFSIKPG--EKVGIVGRTGSGKSSLLLALFRLVELSSG   59 (221)
T ss_pred             ccccceEEEECCC--CEEEEECCCCCCHHHHHHHHHcCCCCCCC
Confidence            4788999999999  99999999999999999999998776655

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance 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.

>PRK13640 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=99.00  E-value=2.2e-09  Score=80.38  Aligned_cols=41  Identities=24%  Similarity=0.321  Sum_probs=36.8

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKS   48 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~   48 (174)
                      .+.++++++++.+  ..++|+|+||+|||||++.|+|...+..
T Consensus        21 ~~l~~v~l~i~~G--e~~~I~G~nGaGKSTLl~~l~G~~~p~~   61 (282)
T PRK13640         21 PALNDISFSIPRG--SWTALIGHNGSGKSTISKLINGLLLPDD   61 (282)
T ss_pred             cceeeEEEEEcCC--CEEEEECCCCCcHHHHHHHHhcccCCCC
Confidence            3788899999998  9999999999999999999999876544

>cd03299 ABC_ModC_like Archeal protein closely related to ModC

Probab=99.00  E-value=6.1e-09  Score=75.97  Aligned_cols=41  Identities=27%  Similarity=0.234  Sum_probs=36.8

Q ss_pred             cccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            7 IDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         7 ~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      +.+++++++..+  .+++++|+||+|||||++.|+|...+..|
T Consensus        14 ~l~~is~~i~~G--e~~~i~G~nG~GKStLl~~l~G~~~p~~G   54 (235)
T cd03299          14 KLKNVSLEVERG--DYFVILGPTGSGKSVLLETIAGFIKPDSG   54 (235)
T ss_pred             eeeeeEEEEcCC--cEEEEECCCCCCHHHHHHHHhCCcCCCce
Confidence            577889999988  99999999999999999999998776665

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. 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.

>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=99.00  E-value=8.6e-10  Score=90.51  Aligned_cols=43  Identities=30%  Similarity=0.469  Sum_probs=38.7

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      .+.++++++.+.|  .+++++|++|+|||||++.|+|...+..|.
T Consensus       355 ~il~~i~l~i~~G--e~iaIvG~SGsGKSTLl~lL~gl~~p~~G~  397 (592)
T PRK10790        355 LVLQNINLSVPSR--GFVALVGHTGSGKSTLASLLMGYYPLTEGE  397 (592)
T ss_pred             ceeeceeEEEcCC--CEEEEECCCCCCHHHHHHHHhcccCCCCce
Confidence            4788999999999  999999999999999999999998776653

>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

Probab=98.99  E-value=2.8e-09  Score=76.52  Aligned_cols=41  Identities=24%  Similarity=0.200  Sum_probs=37.9

Q ss_pred             cccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            7 IDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         7 ~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      +.+|++|+...|  .+++++|+||||||||++.|.|..+|+.|
T Consensus        42 aL~disf~i~~G--e~vGiiG~NGaGKSTLlkliaGi~~Pt~G   82 (249)
T COG1134          42 ALKDISFEIYKG--ERVGIIGHNGAGKSTLLKLIAGIYKPTSG   82 (249)
T ss_pred             EecCceEEEeCC--CEEEEECCCCCcHHHHHHHHhCccCCCCc
Confidence            478899999999  99999999999999999999999987766

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=98.99  E-value=3.7e-09  Score=77.40  Aligned_cols=42  Identities=21%  Similarity=0.298  Sum_probs=37.4

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.+++++++..+  ..++++|+||+|||||++.|+|...+..|
T Consensus        16 ~~l~~vs~~i~~G--e~~~l~G~nGsGKSTLl~~l~G~~~p~~G   57 (242)
T TIGR03411        16 KALNDLSLYVDPG--ELRVIIGPNGAGKTTMMDVITGKTRPDEG   57 (242)
T ss_pred             EEeeeeeEEEcCC--cEEEEECCCCCCHHHHHHHHhCCCCCCCC
Confidence            4678889999988  99999999999999999999998766665

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.

>cd03251 ABCC_MsbA MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins

Probab=98.99  E-value=2.1e-09  Score=78.29  Aligned_cols=42  Identities=36%  Similarity=0.389  Sum_probs=37.9

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++|+.+.+  ..++++|+||+|||||++.|+|...+..|
T Consensus        16 ~~l~~i~~~i~~G--e~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   57 (234)
T cd03251          16 PVLRDISLDIPAG--ETVALVGPSGSGKSTLVNLIPRFYDVDSG   57 (234)
T ss_pred             cceeeeeEEEcCC--CEEEEECCCCCCHHHHHHHHhccccCCCC
Confidence            4678899999998  99999999999999999999999876665

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.

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=98.99  E-value=1.5e-09  Score=78.86  Aligned_cols=42  Identities=24%  Similarity=0.292  Sum_probs=38.0

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++++++.+  ..++++|+||+|||||+++|+|..++..|
T Consensus        17 ~~l~~isl~i~~G--~~~~i~G~nGsGKSTLl~~l~G~~~~~~G   58 (229)
T cd03254          17 PVLKDINFSIKPG--ETVAIVGPTGAGKTTLINLLMRFYDPQKG   58 (229)
T ss_pred             ccccceEEEEcCC--CEEEEECCCCCCHHHHHHHHhcCcCCCCC
Confidence            4788999999999  99999999999999999999999876665

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar 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.

>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=98.99  E-value=2.9e-09  Score=74.18  Aligned_cols=34  Identities=32%  Similarity=0.349  Sum_probs=31.1

Q ss_pred             cccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhC
Q 030630            7 IDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus         7 ~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~   42 (174)
                      +.++++|+++.+  .+++++|+||+|||||++.++.
T Consensus        10 ~l~~isl~i~~G--~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          10 NLQNLDVSIPLN--VLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             eecceEEEEcCC--CEEEEECCCCCCHHHHHHHHhh
Confidence            467889999999  9999999999999999999873

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.

>PRK13642 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.99  E-value=3.2e-09  Score=79.35  Aligned_cols=41  Identities=22%  Similarity=0.202  Sum_probs=37.6

Q ss_pred             cccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            7 IDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         7 ~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      +.++++++...|  ..++|+|+||+|||||++.|+|...+..|
T Consensus        22 ~l~~v~l~i~~G--e~~~I~G~nGsGKSTLl~~l~Gl~~~~~G   62 (277)
T PRK13642         22 QLNGVSFSITKG--EWVSIIGQNGSGKSTTARLIDGLFEEFEG   62 (277)
T ss_pred             eeeeeEEEEcCC--CEEEEECCCCCcHHHHHHHHhcCCCCCCC
Confidence            688999999998  99999999999999999999999877665

>TIGR01978 sufC FeS assembly ATPase SufC

Probab=98.99  E-value=4.2e-09  Score=77.10  Aligned_cols=37  Identities=27%  Similarity=0.392  Sum_probs=33.9

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      .+.++++++++.|  ..++++|+||+|||||++.|+|..
T Consensus        14 ~~l~~isl~i~~G--e~~~i~G~nGsGKSTLl~~l~Gl~   50 (243)
T TIGR01978        14 EILKGVNLTVKKG--EIHAIMGPNGSGKSTLSKTIAGHP   50 (243)
T ss_pred             EEEeccceEEcCC--CEEEEECCCCCCHHHHHHHHhCCC
Confidence            4678889999998  999999999999999999999984

SufC is part of the SUF system, shown in E. coli to consist of six proteins and believed to act in Fe-S cluster formation during oxidative stress. SufC forms a complex with SufB and SufD. SufC belongs to the ATP-binding cassette transporter family (pfam00005) but is no longer thought to be part of a transporter. The complex is reported as cytosolic (PubMed:12554644) or associated with the membrane (PubMed:11943156). The SUF system also includes a cysteine desulfurase (SufS, enhanced by SufE) and a probable iron-sulfur cluster assembly scaffold protein, SufA.

>TIGR02324 CP_lyasePhnL phosphonate C-P lyase system protein PhnL

Probab=98.99  E-value=5.2e-09  Score=75.76  Aligned_cols=42  Identities=26%  Similarity=0.272  Sum_probs=37.6

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.+++++++..+  ..++++|+||+|||||++.|+|...+..|
T Consensus        22 ~il~~vs~~i~~G--e~~~l~G~nGsGKSTLl~~i~G~~~~~~G   63 (224)
T TIGR02324        22 PVLKNVSLTVNAG--ECVALSGPSGAGKSTLLKSLYANYLPDSG   63 (224)
T ss_pred             EEEecceEEECCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCC
Confidence            4688899999998  99999999999999999999998766555

Members of this family are the PhnL protein of C-P lyase systems for utilization of phosphonates. These systems resemble phosphonatase-based systems in having a three component ABC transporter, where TIGR01097 is the permease, TIGR01098 is the phosphonates binding protein, and TIGR02315 is the ATP-binding cassette (ABC) protein. They differ, however, in having, typically, ten or more additional genes, many of which are believed to form a membrane-associated C-P lysase complex. This protein (PhnL) and the adjacent-encoded PhnK (TIGR02323) resemble transporter ATP-binding proteins but are suggested, based on mutatgenesis studies, to be part of this C-P lyase complex rather than part of a transporter per se.

>TIGR03797 NHPM_micro_ABC2 NHPM bacteriocin system ABC transporter, ATP-binding protein

Probab=98.98  E-value=2e-09  Score=89.80  Aligned_cols=43  Identities=33%  Similarity=0.365  Sum_probs=38.9

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      .+.++++++.+.|  .+++++|++|||||||++.|+|...+..|.
T Consensus       467 ~vL~~isl~i~~G--e~vaIvG~sGsGKSTLlklL~gl~~p~~G~  509 (686)
T TIGR03797       467 LILDDVSLQIEPG--EFVAIVGPSGSGKSTLLRLLLGFETPESGS  509 (686)
T ss_pred             cceeeeEEEECCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCCE
Confidence            4788999999999  999999999999999999999998776663

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

>PRK13546 teichoic acids export protein ATP-binding subunit; Provisional

Probab=98.98  E-value=2.1e-08  Score=74.43  Aligned_cols=41  Identities=32%  Similarity=0.308  Sum_probs=36.7

Q ss_pred             cccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            7 IDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         7 ~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      +.++++++++.|  .+++++|+||+|||||++.|+|..++..|
T Consensus        39 il~~is~~i~~G--e~~~liG~NGsGKSTLlk~L~Gl~~p~~G   79 (264)
T PRK13546         39 ALDDISLKAYEG--DVIGLVGINGSGKSTLSNIIGGSLSPTVG   79 (264)
T ss_pred             EEeeeEEEEcCC--CEEEEECCCCCCHHHHHHHHhCCcCCCce
Confidence            567889999998  99999999999999999999998766555

>PRK13636 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.98  E-value=4.2e-09  Score=78.92  Aligned_cols=43  Identities=16%  Similarity=0.166  Sum_probs=38.4

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.+++++++..|  ..++++|+||+|||||++.|+|...+..|
T Consensus        19 ~~~l~~vs~~i~~G--e~~~i~G~nGaGKSTLl~~i~Gl~~p~~G   61 (283)
T PRK13636         19 THALKGININIKKG--EVTAILGGNGAGKSTLFQNLNGILKPSSG   61 (283)
T ss_pred             CeeeeeeEEEEcCC--CEEEEECCCCCCHHHHHHHHhcCCCCCcc
Confidence            34788999999999  99999999999999999999998876655

>PRK11288 araG L-arabinose transporter ATP-binding protein; Provisional

Probab=98.98  E-value=2.5e-09  Score=86.14  Aligned_cols=43  Identities=21%  Similarity=0.263  Sum_probs=38.1

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      .+.++++|+.+.|  ..++++|+||+|||||++.|+|...+..|.
T Consensus        18 ~il~~isl~i~~G--e~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~   60 (501)
T PRK11288         18 KALDDISFDCRAG--QVHALMGENGAGKSTLLKILSGNYQPDAGS   60 (501)
T ss_pred             EEEeeeeEEEeCC--cEEEEECCCCCCHHHHHHHHhCCCCCCCCE
Confidence            4678899999999  999999999999999999999987766553

>TIGR02770 nickel_nikD nickel import ATP-binding protein NikD

Probab=98.98  E-value=9.9e-09  Score=74.63  Aligned_cols=37  Identities=35%  Similarity=0.431  Sum_probs=33.6

Q ss_pred             ccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccc
Q 030630            8 DDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAF   46 (174)
Q Consensus         8 ~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~   46 (174)
                      .++++++++.+  ..++++|+||+|||||++.|+|...+
T Consensus         2 l~~vs~~i~~G--e~~~i~G~nGsGKSTLl~~l~Gl~~p   38 (230)
T TIGR02770         2 VQDLNLSLKRG--EVLALVGESGSGKSLTCLAILGLLPP   38 (230)
T ss_pred             ccceeEEEcCC--CEEEEECCCCCCHHHHHHHHhcCCCC
Confidence            46788888888  99999999999999999999998765

This family represents the NikD subunit of a multisubunit nickel import ABC transporter complex. Nickel, once imported, may be used in urease and in certain classes of hydrogenase and superoxide dismutase. NikD and NikE are homologous.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.98  E-value=2.2e-09  Score=73.41  Aligned_cols=56  Identities=29%  Similarity=0.447  Sum_probs=39.2

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCC
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   80 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~   80 (174)
                      ..+++++|.+|+|||||+|+|++......+. ..+.|.....  ...  +..+.++||||+
T Consensus       100 ~~~~~~~G~~~~GKstlin~l~~~~~~~~~~-~~~~t~~~~~--~~~--~~~~~liDtPG~  155 (155)
T cd01849         100 SITVGVIGYPNVGKSSVINALLNKLKLKVGN-VPGTTTSQQE--VKL--DNKIKLLDTPGI  155 (155)
T ss_pred             CcEEEEEccCCCCHHHHHHHHHccccccccC-CCCcccceEE--EEe--cCCEEEEECCCC
Confidence            4889999999999999999999976433321 1233333322  222  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=98.98  E-value=1.3e-09  Score=76.89  Aligned_cols=56  Identities=32%  Similarity=0.423  Sum_probs=37.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCccccc------cc-CCCCcceeeEEEEEEEeCCcEEEEEeCCCC
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKS------RA-SSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   80 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~------~~-~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~   80 (174)
                      .+++++|.+|+|||||+|+|++......      .. ..++.|..  ...+..  +..+.++||||+
T Consensus       128 ~~~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~gtT~~--~~~~~~--~~~~~~~DtPG~  190 (190)
T cd01855         128 GDVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIPGTTLD--LIKIPL--GNGKKLYDTPGI  190 (190)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHHhcccccccccccccCCCCCeeee--eEEEec--CCCCEEEeCcCC
Confidence            6899999999999999999998653211      11 22233333  233322  235799999996

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.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.97  E-value=5.2e-09  Score=78.54  Aligned_cols=63  Identities=25%  Similarity=0.385  Sum_probs=45.2

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCCh
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGS   87 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~   87 (174)
                      ..+++++|.+|+|||||+|+|++......+. .++.|....  .+..  +..+.++||||+..+....
T Consensus       121 ~~~~~~~G~pnvGKSsliN~l~~~~~~~~~~-~~g~T~~~~--~~~~--~~~~~l~DtPGi~~~~~~~  183 (287)
T PRK09563        121 AIRAMIIGIPNVGKSTLINRLAGKKIAKTGN-RPGVTKAQQ--WIKL--GKGLELLDTPGILWPKLED  183 (287)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCccccCC-CCCeEEEEE--EEEe--CCcEEEEECCCcCCCCCCc
Confidence            3789999999999999999999987544432 344454433  2222  4568999999998765433

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=98.97  E-value=1.5e-09  Score=88.90  Aligned_cols=43  Identities=28%  Similarity=0.407  Sum_probs=38.6

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      .+.++.+++++.|  .+++++|++|+|||||++.|+|...+..|.
T Consensus       357 ~il~~i~l~i~~G--~~~aIvG~sGsGKSTLl~ll~gl~~p~~G~  399 (582)
T PRK11176        357 PALRNINFKIPAG--KTVALVGRSGSGKSTIANLLTRFYDIDEGE  399 (582)
T ss_pred             ccccCceEEeCCC--CEEEEECCCCCCHHHHHHHHHhccCCCCce
Confidence            4788899999999  999999999999999999999998776663

>TIGR03796 NHPM_micro_ABC1 NHPM bacteriocin system ABC transporter, peptidase/ATP-binding protein

Probab=98.97  E-value=7.2e-10  Score=92.74  Aligned_cols=43  Identities=28%  Similarity=0.383  Sum_probs=38.5

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      .+.++++++.+.|  .+++++|++|||||||++.|+|...+..|.
T Consensus       493 ~vL~~isl~i~~G--e~vaIvG~sGsGKSTLlklL~gl~~p~~G~  535 (710)
T TIGR03796       493 PLIENFSLTLQPG--QRVALVGGSGSGKSTIAKLVAGLYQPWSGE  535 (710)
T ss_pred             CcccceeEEEcCC--CEEEEECCCCCCHHHHHHHHhcCCCCCCcE
Confidence            4678889999999  999999999999999999999998776663

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.

>COG1122 CbiO ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.97  E-value=4.2e-09  Score=76.47  Aligned_cols=43  Identities=28%  Similarity=0.261  Sum_probs=38.2

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      .+.++++++++.+  ..++++|+||||||||++.+.|..++..|.
T Consensus        18 ~~l~~v~~~i~~G--e~~~i~G~nGsGKSTL~~~l~GLl~p~~G~   60 (235)
T COG1122          18 AALKDVSLEIEKG--ERVLLIGPNGSGKSTLLKLLNGLLKPTSGE   60 (235)
T ss_pred             eeeeeeEEEECCC--CEEEEECCCCCCHHHHHHHHcCcCcCCCCE
Confidence            4667888999988  999999999999999999999998877664

>KOG0058 consensus Peptide exporter, ABC superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.97  E-value=1.7e-09  Score=87.85  Aligned_cols=134  Identities=19%  Similarity=0.152  Sum_probs=81.5

Q ss_pred             cccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCC--
Q 030630            7 IDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS--   84 (174)
Q Consensus         7 ~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~--   84 (174)
                      |.++++|+.++|  ..+++|||+|+||||+++.|.+.+.|.+|........-.+. ...|.......+-..|=+....  
T Consensus       483 Vlk~lsfti~pG--e~vALVGPSGsGKSTiasLL~rfY~PtsG~IllDG~~i~~~-~~~~lr~~Ig~V~QEPvLFs~sI~  559 (716)
T KOG0058|consen  483 VLKNLSFTIRPG--EVVALVGPSGSGKSTIASLLLRFYDPTSGRILLDGVPISDI-NHKYLRRKIGLVGQEPVLFSGSIR  559 (716)
T ss_pred             hhcCceeeeCCC--CEEEEECCCCCCHHHHHHHHHHhcCCCCCeEEECCeehhhc-CHHHHHHHeeeeeccceeecccHH
Confidence            678999999999  99999999999999999999999888777443322211111 1112123333444444332211  


Q ss_pred             ---------CChHHH----------------------------------HHHHHHHHHhccCCceEEEEEEeCCCCCCHH
Q 030630           85 ---------AGSEFV----------------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE  121 (174)
Q Consensus        85 ---------~~~~~~----------------------------------~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~  121 (174)
                               .+.+++                                  .++-+.++++..+++. |+++..+++-++.+
T Consensus       560 eNI~YG~~~~t~e~i~~AAk~ANah~FI~~~p~gY~T~VGEkG~qLSGGQKQRIAIARALlr~P~-VLILDEATSALDae  638 (716)
T KOG0058|consen  560 ENIAYGLDNATDEEIEAAAKMANAHEFITNFPDGYNTVVGEKGSQLSGGQKQRIAIARALLRNPR-VLILDEATSALDAE  638 (716)
T ss_pred             HHHhcCCCCCCHHHHHHHHHHhChHHHHHhCccccccccCCccccccchHHHHHHHHHHHhcCCC-EEEEechhhhcchh
Confidence                     111111                                  3445556666666666 44456677688888


Q ss_pred             HHHHHHHHHHHHhhhhcCcEEEEEeC
Q 030630          122 EEAALHSLQTLFGKKIFDYMIVVFTG  147 (174)
Q Consensus       122 ~~~~l~~l~~~~~~~~~~~~~iv~tk  147 (174)
                      .+..++...+.+..   .++++++.|
T Consensus       639 SE~lVq~aL~~~~~---~rTVlvIAH  661 (716)
T KOG0058|consen  639 SEYLVQEALDRLMQ---GRTVLVIAH  661 (716)
T ss_pred             hHHHHHHHHHHhhc---CCeEEEEeh
Confidence            87776554443322   367777766

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.97  E-value=3.4e-10  Score=87.40  Aligned_cols=121  Identities=20%  Similarity=0.216  Sum_probs=62.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccc----cccCCCCcceeeEEEEEEEeCCcEEEEEeCCCCCCCCCChHHHHHHHHH
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFK----SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   96 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~----~~~~~~~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~   96 (174)
                      ..+.++|.+|+|||||+|+|++.....    .....++.|..  ...+..  .....++||||+.....-.+.+..+..+
T Consensus       155 ~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~--~~~~~~--~~~~~l~DtPG~~~~~~~~~~l~~~~l~  230 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLD--LIEIPL--DDGHSLYDTPGIINSHQMAHYLDKKDLK  230 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEee--EEEEEe--CCCCEEEECCCCCChhHhhhhcCHHHHh
Confidence            589999999999999999999854211    11122333333  222322  3446899999998742111212111111


Q ss_pred             HHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCC
Q 030630           97 CIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  151 (174)
Q Consensus        97 ~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~  151 (174)
                      .+. -..+.....+.++....+.......++.+...   .  ..+.+.+++.+..
T Consensus       231 ~~~-~~~~i~~~~~~l~~~q~~~~ggl~~~d~~~~~---~--~~~~~~~~~~~~~  279 (360)
T TIGR03597       231 YIT-PKKEIKPKTYQLNPNQTLFLGGLARFDYLKGE---K--TSFTFYVSNELNI  279 (360)
T ss_pred             hcC-CCCccCceEEEeCCCCEEEEceEEEEEEecCC---c--eEEEEEccCCcee
Confidence            211 12345666776665433333333333323221   1  2445555555544

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.

>PRK12288 GTPase RsgA; Reviewed

Probab=98.97  E-value=1.5e-09  Score=83.22  Aligned_cols=61  Identities=28%  Similarity=0.455  Sum_probs=41.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCC----C--cceeeEEEEEEEeCCcEEEEEeCCCCCCCCC
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSS----G--VTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~----~--~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~   85 (174)
                      ..++|+|.+|+|||||+|+|++......+....    +  .|+....  +.+  .....++||||+.+...
T Consensus       206 ki~~~vG~sgVGKSTLiN~Ll~~~~~~t~~is~~~~rGrHTT~~~~l--~~l--~~~~~liDTPGir~~~l  272 (347)
T PRK12288        206 RISIFVGQSGVGKSSLINALLPEAEILVGDVSDNSGLGQHTTTAARL--YHF--PHGGDLIDSPGVREFGL  272 (347)
T ss_pred             CCEEEECCCCCCHHHHHHHhccccceeeccccCcCCCCcCceeeEEE--EEe--cCCCEEEECCCCCcccC
Confidence            468999999999999999999877655543322    1  2222222  222  22346999999998655

>cd03234 ABCG_White The White subfamily represents ABC transporters homologous to the Drosophila white gene, which acts as a dimeric importer for eye pigment precursors

Probab=98.97  E-value=9.4e-09  Score=74.53  Aligned_cols=39  Identities=28%  Similarity=0.460  Sum_probs=35.5

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRA   45 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~   45 (174)
                      ..+.++++++...+  ..++++|+||+|||||++.|+|..+
T Consensus        20 ~~~l~~vsl~i~~G--e~~~l~G~nGsGKSTLlk~l~G~~~   58 (226)
T cd03234          20 ARILNDVSLHVESG--QVMAILGSSGSGKTTLLDAISGRVE   58 (226)
T ss_pred             cccccCceEEEcCC--eEEEEECCCCCCHHHHHHHHhCccC
Confidence            35678889999998  9999999999999999999999876

The eye pigmentation of Drosophila is developed from the synthesis and deposition in the cells of red pigments, which are synthesized from guanine, and brown pigments, which are synthesized from tryptophan. The pigment precursors are encoded by the white, brown, and scarlet genes, respectively. Evidence from genetic and biochemical studies suggest that the White and Brown proteins function as heterodimers to import guanine, while the White and Scarlet proteins function to import tryptophan. However, a recent study also suggests that White may be involved in the transport of a metabolite, such as 3-hydroxykynurenine, across intracellular membranes. Mammalian ABC transporters belonging to the White subfamily (ABCG1, ABCG5, and ABCG8) have been shown to be involved in the regulation of lipid-trafficking mechanisms in

>PRK14246 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.97  E-value=1.5e-08  Score=74.88  Aligned_cols=44  Identities=23%  Similarity=0.263  Sum_probs=38.2

Q ss_pred             CCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            4 GSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ...+.++++|+...+  ..++|+|+||+|||||++.|+|...+..|
T Consensus        22 ~~~~l~~vs~~i~~G--e~~~i~G~nGsGKSTLl~~iaG~~~~~~G   65 (257)
T PRK14246         22 DKAILKDITIKIPNN--SIFGIMGPSGSGKSTLLKVLNRLIEIYDS   65 (257)
T ss_pred             CceeEeceEEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCcC
Confidence            345678889999988  99999999999999999999998876554

>PRK10419 nikE nickel transporter ATP-binding protein NikE; Provisional

Probab=98.97  E-value=9e-09  Score=76.55  Aligned_cols=43  Identities=28%  Similarity=0.413  Sum_probs=38.2

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++|++..+  .+++|+|+||+|||||++.|+|...+.+|
T Consensus        25 ~~il~~vs~~i~~G--e~~~i~G~nGsGKSTLl~~l~Gl~~p~sG   67 (268)
T PRK10419         25 QTVLNNVSLSLKSG--ETVALLGRSGCGKSTLARLLVGLESPSQG   67 (268)
T ss_pred             eeeEeceeEEEcCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            34788999999999  99999999999999999999998766555

>PRK13549 xylose transporter ATP-binding subunit; Provisional

Probab=98.97  E-value=3.4e-09  Score=85.52  Aligned_cols=40  Identities=25%  Similarity=0.279  Sum_probs=36.0

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAF   46 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~   46 (174)
                      ..+.++++|++..+  ..++++|+||||||||++.|+|..++
T Consensus        18 ~~il~~isl~i~~G--e~~~l~G~nGsGKSTLl~~l~Gl~~~   57 (506)
T PRK13549         18 VKALDNVSLKVRAG--EIVSLCGENGAGKSTLMKVLSGVYPH   57 (506)
T ss_pred             eEeecceeEEEeCC--eEEEEECCCCCCHHHHHHHHhCCCCC
Confidence            34678899999998  99999999999999999999998764

>cd03253 ABCC_ATM1_transporter ATM1 is an ABC transporter that is expressed in the mitochondria

Probab=98.96  E-value=2.5e-09  Score=77.96  Aligned_cols=43  Identities=26%  Similarity=0.363  Sum_probs=38.1

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++++++.+  ..++++|+||+|||||+++|+|..++..|
T Consensus        14 ~~~l~~i~~~i~~G--e~~~l~G~nGsGKSTLl~~i~Gl~~~~~G   56 (236)
T cd03253          14 RPVLKDVSFTIPAG--KKVAIVGPSGSGKSTILRLLFRFYDVSSG   56 (236)
T ss_pred             CceeeeeEEEEcCC--CEEEEECCCCCCHHHHHHHHhcccCCCCC
Confidence            34778899999998  99999999999999999999998876665

Although the specific function of ATM1 is unknown, its disruption results in the accumulation of excess mitochondrial iron, loss of mitochondrial cytochromes, oxidative damage to mitochondrial DNA, and decreased levels of cytosolic heme proteins. 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.

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=98.96  E-value=4.8e-10  Score=78.56  Aligned_cols=42  Identities=26%  Similarity=0.322  Sum_probs=37.1

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++++.+.+  .+++++|+||+|||||++.|+|...+..|
T Consensus        13 ~~l~~~~~~i~~G--~~~~l~G~nGsGKStLl~~i~G~~~~~~G   54 (180)
T cd03214          13 TVLDDLSLSIEAG--EIVGILGPNGAGKSTLLKTLAGLLKPSSG   54 (180)
T ss_pred             eeEeeeEEEECCC--CEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            4678889999988  99999999999999999999998766555

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>cd03260 ABC_PstB_phosphate_transporter Phosphate uptake is of fundamental importance in the cell physiology of bacteria because phosphate is required as a nutrient

Probab=98.96  E-value=3.2e-09  Score=77.02  Aligned_cols=38  Identities=24%  Similarity=0.260  Sum_probs=34.9

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      ..+.+++++++..+  ..++++|+||+|||||++.|+|..
T Consensus        13 ~~~l~~vsl~i~~G--e~~~i~G~nGsGKSTLl~~i~G~~   50 (227)
T cd03260          13 KHALKDISLDIPKG--EITALIGPSGCGKSTLLRLLNRLN   50 (227)
T ss_pred             ceeeeeeEEEEcCC--CEEEEECCCCCCHHHHHHHHHhhc
Confidence            34678899999998  999999999999999999999987

The Pst system of E. coli comprises four distinct subunits encoded by the pstS, pstA, pstB, and pstC genes. The PstS protein is a phosphate-binding protein located in the periplasmic space. P stA and PstC are hydrophobic and they form the transmembrane portion of the Pst system. PstB is the catalytic subunit, which couples the energy of ATP hydrolysis to the import of phosphate across cellular membranes through the Pst system, often referred as ABC-protein. PstB belongs to one of the largest superfamilies of proteins characterized by a highly conserved adenosine triphosphate (ATP) binding cassette (ABC), which is also a nucleotide binding domain (NBD).

>PRK14267 phosphate ABC transporter ATP-binding protein; Provisional

Probab=98.96  E-value=8.3e-09  Score=76.07  Aligned_cols=40  Identities=23%  Similarity=0.286  Sum_probs=35.9

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAF   46 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~   46 (174)
                      ..+.+++++++..|  .+++++|+||+|||||++.|+|...+
T Consensus        17 ~~~l~~is~~i~~G--e~~~l~G~nGsGKSTLl~~l~G~~~~   56 (253)
T PRK14267         17 NHVIKGVDLKIPQN--GVFALMGPSGCGKSTLLRTFNRLLEL   56 (253)
T ss_pred             eeeeecceEEEcCC--CEEEEECCCCCCHHHHHHHHhccCCc
Confidence            35678899999998  99999999999999999999998754

>TIGR00958 3a01208 Conjugate Transporter-2 (CT2) Family protein

Probab=98.96  E-value=1.5e-09  Score=90.75  Aligned_cols=43  Identities=21%  Similarity=0.241  Sum_probs=38.8

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      .+.++++++.++|  .+++++|++|+|||||++.|+|...+..|.
T Consensus       495 ~vL~~isl~i~~G--e~vaIvG~SGsGKSTLl~lL~gl~~p~~G~  537 (711)
T TIGR00958       495 PVLKGLTFTLHPG--EVVALVGPSGSGKSTVAALLQNLYQPTGGQ  537 (711)
T ss_pred             ccccCceEEEcCC--CEEEEECCCCCCHHHHHHHHHhccCCCCCE
Confidence            4788999999999  999999999999999999999998776663

>PRK10982 galactose/methyl galaxtoside transporter ATP-binding protein; Provisional

Probab=98.96  E-value=3.6e-09  Score=85.05  Aligned_cols=43  Identities=23%  Similarity=0.255  Sum_probs=38.0

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      ..+.++++|+.+.+  ..++++|+||||||||++.|+|...+..|
T Consensus        11 ~~il~~vs~~i~~G--e~~~liG~nGsGKSTLl~~l~Gl~~p~~G   53 (491)
T PRK10982         11 VKALDNVNLKVRPH--SIHALMGENGAGKSTLLKCLFGIYQKDSG   53 (491)
T ss_pred             EEeeeeeeEEEcCC--cEEEEECCCCCCHHHHHHHHcCCCCCCce
Confidence            34678899999999  99999999999999999999998766555

>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=98.96  E-value=3.1e-10  Score=77.37  Aligned_cols=116  Identities=22%  Similarity=0.158  Sum_probs=80.2

Q ss_pred             ceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEE--EEE-EeCCcEEEEEeCCCCCCCCCChHHHHHHHHH
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ--RTV-LKDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   96 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~--~~~-~~~~~~~~~iDtpG~~~~~~~~~~~~~~~~~   96 (174)
                      ..+++++|.-++||||+|...+... |..+..   .|....+.  .+. ...+....+|||.|..+           +-.
T Consensus        20 aiK~vivGng~VGKssmiqryCkgi-fTkdyk---ktIgvdflerqi~v~~Edvr~mlWdtagqeE-----------fDa   84 (246)
T KOG4252|consen   20 AIKFVIVGNGSVGKSSMIQRYCKGI-FTKDYK---KTIGVDFLERQIKVLIEDVRSMLWDTAGQEE-----------FDA   84 (246)
T ss_pred             hEEEEEECCCccchHHHHHHHhccc-cccccc---cccchhhhhHHHHhhHHHHHHHHHHhccchh-----------HHH
Confidence            4789999999999999999998654 222211   11111111  010 11234567899999887           555


Q ss_pred             HHHhccCCceEEEEEEeCCCCCCHHH-HHHHHHHHHHHhhhhcCcEEEEEeCcCCCCC
Q 030630           97 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        97 ~~~~~~~~~~~il~v~~~~~~~~~~~-~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      +.++.++++.+.++|++.+++.+.+. .+|-+.++...+.   .|+++|-||+|+.++
T Consensus        85 ItkAyyrgaqa~vLVFSTTDr~SFea~~~w~~kv~~e~~~---IPtV~vqNKIDlved  139 (246)
T KOG4252|consen   85 ITKAYYRGAQASVLVFSTTDRYSFEATLEWYNKVQKETER---IPTVFVQNKIDLVED  139 (246)
T ss_pred             HHHHHhccccceEEEEecccHHHHHHHHHHHHHHHHHhcc---CCeEEeeccchhhHh
Confidence            55678899999999999987766664 6777777766433   599999999999864

>TIGR00972 3a0107s01c2 phosphate ABC transporter, ATP-binding protein

Probab=98.96  E-value=9.4e-09  Score=75.51  Aligned_cols=41  Identities=24%  Similarity=0.313  Sum_probs=36.6

Q ss_pred             CCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccc
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFK   47 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~   47 (174)
                      ..+.++++++.+.|  ..++++|+||+|||||++.|+|...+.
T Consensus        14 ~~~l~~vs~~i~~G--e~~~i~G~nGsGKSTLl~~l~G~~~p~   54 (247)
T TIGR00972        14 KEALKNINLDIPKN--QVTALIGPSGCGKSTLLRSLNRMNDLV   54 (247)
T ss_pred             eeeecceeEEECCC--CEEEEECCCCCCHHHHHHHHhccCCCC
Confidence            34678899999999  999999999999999999999987654

This model represents the ATP-binding protein of a family of ABC transporters for inorganic phosphate. In the model species Escherichia coli, a constitutive transporter for inorganic phosphate, with low affinity, is also present. The high affinity transporter that includes this polypeptide is induced when extracellular phosphate concentrations are low. The proteins most similar to the members of this family but not included appear to be amino acid transporters.

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.95  E-value=2e-09  Score=79.83  Aligned_cols=63  Identities=30%  Similarity=0.357  Sum_probs=41.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCcccccccCCC----CcceeeEEEEEEEeCCcEEEEEeCCCCCCCCC
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSS----GVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~----~~t~~~~~~~~~~~~~~~~~~iDtpG~~~~~~   85 (174)
                      .+.+++|++|+|||||+|+|........+..+.    +.-+.+...-+.+  .....++|||||.+...
T Consensus       165 ~~svl~GqSGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l--~~gG~iiDTPGf~~~~l  231 (301)
T COG1162         165 KITVLLGQSGVGKSTLINALLPELNQKTGEISEKLGRGRHTTTHVELFPL--PGGGWIIDTPGFRSLGL  231 (301)
T ss_pred             CeEEEECCCCCcHHHHHHhhCchhhhhhhhhcccCCCCCCccceEEEEEc--CCCCEEEeCCCCCccCc
Confidence            688999999999999999999855444442221    1111122222222  35678999999998554

>PRK14845 translation initiation factor IF-2; Provisional

Probab=98.95  E-value=1.3e-08  Score=87.15  Aligned_cols=120  Identities=17%  Similarity=0.167  Sum_probs=78.5

Q ss_pred             cccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccccCCCCcceeeEEEEEEEeC-----------------CcEEE
Q 030630           11 WELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD-----------------GQVVN   73 (174)
Q Consensus        11 ~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~-----------------~~~~~   73 (174)
                      |+++.+.-.-.-.+++++    ||||+.+|.+......  ...+.|.......+.+..                 -..+.
T Consensus       456 ~~~~~~~~~~~~~~~~~~----KTtLLD~iR~t~v~~~--EaGGITQ~IGa~~v~~~~~~~~~~~~~~~~~~~~~~p~i~  529 (1049)
T PRK14845        456 YDLTTETHNFIANGILVH----NTTLLDKIRKTRVAKK--EAGGITQHIGATEIPIDVIKKICGPLLKLLKAEIKIPGLL  529 (1049)
T ss_pred             EEEEeccCcceeeeeecc----cccHHHHHhCCCcccc--cCCCceeccceEEEEecccccccccccccccccCCcCcEE
Confidence            344444322233344433    9999999999887433  345555555444443311                 01379


Q ss_pred             EEeCCCCCCCCCChHHHHHHHHHHHHhccCCceEEEEEEeCCCCCCHHHHHHHHHHHHHHhhhhcCcEEEEEeCcCCCC
Q 030630           74 VIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus        74 ~iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      ++||||+.++           ..........+|++++|+|+++++...+.+.++.+...   .  .|+++++||+|+..
T Consensus       530 fiDTPGhe~F-----------~~lr~~g~~~aDivlLVVDa~~Gi~~qT~e~I~~lk~~---~--iPiIVViNKiDL~~  592 (1049)
T PRK14845        530 FIDTPGHEAF-----------TSLRKRGGSLADLAVLVVDINEGFKPQTIEAINILRQY---K--TPFVVAANKIDLIP  592 (1049)
T ss_pred             EEECCCcHHH-----------HHHHHhhcccCCEEEEEEECcccCCHhHHHHHHHHHHc---C--CCEEEEEECCCCcc
Confidence            9999997652           22222345668999999999878888888887766653   2  58999999999864

>PRK13637 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.95  E-value=8.6e-09  Score=77.39  Aligned_cols=42  Identities=26%  Similarity=0.242  Sum_probs=38.2

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR   49 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~   49 (174)
                      .+.++++|++..|  ..++|+|+||+|||||++.|+|...+..|
T Consensus        21 ~~l~~vs~~i~~G--e~~~i~G~nGaGKSTLl~~l~Gl~~p~~G   62 (287)
T PRK13637         21 KALDNVNIEIEDG--EFVGLIGHTGSGKSTLIQHLNGLLKPTSG   62 (287)
T ss_pred             ceeeeeEEEEcCC--CEEEEECCCCCcHHHHHHHHhcCCCCCcc
Confidence            4788999999999  99999999999999999999998877665

>PRK10789 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=98.95  E-value=1.8e-09  Score=88.22  Aligned_cols=43  Identities=19%  Similarity=0.176  Sum_probs=38.3

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      .+.++++++.+.|  .+++++|++|+|||||++.|+|...+..|.
T Consensus       329 ~~l~~i~~~i~~G--~~~~ivG~sGsGKSTLl~ll~g~~~p~~G~  371 (569)
T PRK10789        329 PALENVNFTLKPG--QMLGICGPTGSGKSTLLSLIQRHFDVSEGD  371 (569)
T ss_pred             ccccCeeEEECCC--CEEEEECCCCCCHHHHHHHHhcccCCCCCE
Confidence            4678889999998  999999999999999999999998776663

>COG1129 MglA ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]

Probab=98.95  E-value=3.9e-09  Score=83.44  Aligned_cols=43  Identities=26%  Similarity=0.228  Sum_probs=38.7

Q ss_pred             CcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCccccccc
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      ...++++|+...+  ...+++|.||+|||||++.|+|...+++|.
T Consensus        22 ~AL~~v~l~v~~G--EV~aL~GeNGAGKSTLmKiLsGv~~p~~G~   64 (500)
T COG1129          22 KALDGVSLTVRPG--EVHALLGENGAGKSTLMKILSGVYPPDSGE   64 (500)
T ss_pred             eeeccceeEEeCc--eEEEEecCCCCCHHHHHHHHhCcccCCCce
Confidence            4578889999999  999999999999999999999999887764

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.95  E-value=1.7e-08  Score=71.23  Aligned_cols=41  Identities=27%  Similarity=0.371  Sum_probs=35.0

Q ss_pred             CCCCcccccccCCCCCCceEEEEEcCCCCCHHHHHHHHhCCcc
Q 030630            3 GGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRA   45 (174)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~   45 (174)
                      |...+.+++++.++.+  ...+++||+|||||||++++....-
T Consensus        18 g~~~aL~~i~l~i~~~--~VTAlIGPSGcGKST~LR~lNRmnd   58 (253)
T COG1117          18 GDKHALKDINLDIPKN--KVTALIGPSGCGKSTLLRCLNRMND   58 (253)
T ss_pred             CchhhhccCceeccCC--ceEEEECCCCcCHHHHHHHHHhhcc
Confidence            4455678899999998  9999999999999999999877653

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	174
3lxx_A	239	Crystal Structure Of Human Gtpase Imap Family Membe		2e-20
2xtm_A	234	Crystal Structure Of Gdp-Bound Human Gimap2, Amino		3e-16
3p1j_A	209	Crystal Structure Of Human Gtpase Imap Family Membe		3e-16
2xto_A	240	Crystal Structure Of Gdp-Bound Human Gimap2, Amino		6e-16
2xtp_A	260	Crystal Structure Of Nucleotide-Free Human Gimap2,		1e-15
3v70_A	247	Crystal Structure Of Human Gtpase Imap Family Membe		2e-14

>pdb|3LXX|A Chain A, Crystal Structure Of Human Gtpase Imap Family Member 4 Length = 239

Iteration: 1
 Score = 95.1 bits (235), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 50/130 (38%), Positives = 76/130 (58%), Gaps = 2/130 (1%)
Query: 16  PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVI 75
           P N +  +VLVG+TG GKSATGNSILGR+ F S  ++  +T  CE + +  K+ ++V V+
Sbjct: 25  PRNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKETELV-VV 83
Query: 76  DTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHSLQTLFGK 135
           DTPG+FD    +    KEI++CI +   G HA+L          +EE  A   +   FG+
Sbjct: 84  DTPGIFDTEVPNAETSKEIIRCILLTSPGPHALL-LVVPLGRYTEEEHKATEKILKXFGE 142
Query: 136 KIFDYMIVVF 145
           +   + I++F
Sbjct: 143 RARSFXILIF 152

>pdb|2XTM|A Chain A, Crystal Structure Of Gdp-Bound Human Gimap2, Amino Acid Residues 1-234 Length = 234

Iteration: 1
 Score = 81.3 bits (199), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 44/129 (34%), Positives = 74/129 (57%), Gaps = 2/129 (1%)
Query: 17  SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVID 76
           S  E  ++LVG+TG GKSA GNSIL ++AF+S+  S  +T TC   +    + ++V +ID
Sbjct: 19  SRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGNREIV-IID 77
Query: 77  TPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHSLQTLFGKK 136
           TP +F +    E + KE+ +C  ++  G H +L          Q+++AA   ++ +FG+ 
Sbjct: 78  TPDMFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGRYTSQDQQAA-QRVKEIFGED 136
Query: 137 IFDYMIVVF 145
              + IV+F
Sbjct: 137 AMGHTIVLF 145

>pdb|3P1J|A Chain A, Crystal Structure Of Human Gtpase Imap Family Member 2 In The Nucleotide-Free State Length = 209

Iteration: 1
 Score = 80.9 bits (198), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 44/129 (34%), Positives = 74/129 (57%), Gaps = 2/129 (1%)
Query: 17  SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVID 76
           S  E  ++LVG+TG GKSA GNSIL ++AF+S+  S  +T TC   +    + ++V +ID
Sbjct: 2   SRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGNREIV-IID 60
Query: 77  TPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHSLQTLFGKK 136
           TP +F +    E + KE+ +C  ++  G H +L          Q+++AA   ++ +FG+ 
Sbjct: 61  TPDMFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGRYTSQDQQAA-QRVKEIFGED 119
Query: 137 IFDYMIVVF 145
              + IV+F
Sbjct: 120 AMGHTIVLF 128

>pdb|2XTO|A Chain A, Crystal Structure Of Gdp-Bound Human Gimap2, Amino Acid Residues 21-260 Length = 240

Iteration: 1
 Score = 80.1 bits (196), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 43/126 (34%), Positives = 73/126 (57%), Gaps = 2/126 (1%)
Query: 20  ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPG 79
           E  ++LVG+TG GKSA GNSIL ++AF+S+  S  +T TC   +    + ++V +IDTP 
Sbjct: 2   ELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGNREIV-IIDTPD 60
Query: 80  LFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHSLQTLFGKKIFD 139
           +F +    E + KE+ +C  ++  G H +L          Q+++AA   ++ +FG+    
Sbjct: 61  MFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGRYTSQDQQAA-QRVKEIFGEDAMG 119
Query: 140 YMIVVF 145
           + IV+F
Sbjct: 120 HTIVLF 125

>pdb|2XTP|A Chain A, Crystal Structure Of Nucleotide-Free Human Gimap2, Amino Acid Residues 1-260 Length = 260

Iteration: 1
 Score = 79.0 bits (193), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 44/129 (34%), Positives = 73/129 (56%), Gaps = 2/129 (1%)
Query: 17  SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVID 76
           S  E  ++LVG+TG GKSA GNSIL ++AF+S+  S  +T TC   +    + ++V +ID
Sbjct: 19  SRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGNREIV-IID 77
Query: 77  TPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHSLQTLFGKK 136
           TP  F +    E + KE+ +C  ++  G H +L          Q+++AA   ++ +FG+ 
Sbjct: 78  TPDXFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGRYTSQDQQAA-QRVKEIFGED 136
Query: 137 IFDYMIVVF 145
              + IV+F
Sbjct: 137 AXGHTIVLF 145

>pdb|3V70|A Chain A, Crystal Structure Of Human Gtpase Imap Family Member 1 Length = 247

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 46/126 (36%), Positives = 70/126 (55%), Gaps = 3/126 (2%)
Query: 21  RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL 80
           R ++LVGRTG GKSATGNSILG+R F SR  ++ VT  C    +   D   V V+DTP +
Sbjct: 22  RRLILVGRTGAGKSATGNSILGQRRFFSRLGATSVTRACTTG-SRRWDKCHVEVVDTPDI 80
Query: 81  FDFSAGSEFVG-KEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHSLQTLFGKKIFD 139
           F         G +E   C  ++  G HA+L          Q+++ A+  ++ +FG+ +  
Sbjct: 81  FSSQVSKTDPGCEERGHCYLLSAPGPHALLLVTQLGRFTAQDQQ-AVRQVRDMFGEDVLK 139
Query: 140 YMIVVF 145
           +M++VF
Sbjct: 140 WMVIVF 145

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	174
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	9e-53
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	7e-52
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	8e-51
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	1e-50
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	1e-47
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	3e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-05
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	1e-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 =  167 bits (425), Expect = 9e-53
 Identities = 33/160 (20%), Positives = 69/160 (43%), Gaps = 3/160 (1%)

Query: 12  ELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQV 71
           +L        TV+++G+ G GKS+T NS++G +  +     +       + RT+   G  
Sbjct: 28  KLKQKDMNSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTM--GGFT 85

Query: 72  VNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQT 131
           +N+IDTPGL +    +    + I   +      +   +    V     + ++  + ++  
Sbjct: 86  INIIDTPGLVEAGYVNHQALELIKGFLVNRTIDVLLYVDRLDVY-AVDELDKQVVIAITQ 144

Query: 132 LFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK 171
            FGK+I+   ++V T       ++ + E +  +     LK
Sbjct: 145 TFGKEIWCKTLLVLTHAQFSPPDELSYETFSSKRSDSLLK 184

>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 =  165 bits (420), Expect = 7e-52
 Identities = 37/170 (21%), Positives = 68/170 (40%), Gaps = 5/170 (2%)

Query: 4   GSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQR 63
              ++    L        T++++G+ G GKS+T NSI+G R        S       + R
Sbjct: 23  TKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSR 82

Query: 64  TVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSV-RSRFSQEE 122
           +    G  +N+IDTPGL +    ++     I   +      I  +L V  +   R    +
Sbjct: 83  SR--AGFTLNIIDTPGLIEGGYINDMALNIIKSFL--LDKTIDVLLYVDRLDAYRVDNLD 138

Query: 123 EAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKV 172
           +    ++   FGK I++  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 =  162 bits (411), Expect = 8e-51
 Identities = 62/157 (39%), Positives = 95/157 (60%), Gaps = 5/157 (3%)

Query: 15  SPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNV 74
            P N +  +VLVG+TG GKSATGNSILGR+ F S  ++  +T  CE + +       + V
Sbjct: 24  EPRNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSW-KETELVV 82

Query: 75  IDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFG 134
           +DTPG+FD    +    KEI++CI +   G HA+L+V  +  R+++EE  A   +  +FG
Sbjct: 83  VDTPGIFDTEVPNAETSKEIIRCILLTSPGPHALLLVVPL-GRYTEEEHKATEKILKMFG 141

Query: 135 KKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK 171
           ++   +MI++FT  D+L   D  L DYL RE P+ ++
Sbjct: 142 ERARSFMILIFTRKDDLG--DTNLHDYL-REAPEDIQ 175

>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 =  162 bits (411), Expect = 1e-50
 Identities = 51/167 (30%), Positives = 89/167 (53%), Gaps = 4/167 (2%)

Query: 5   SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRT 64
           S      +    S  E  ++LVG+TG GKSA GNSIL ++AF+S+  S  +T TC   + 
Sbjct: 7   SHWGPHAKGQCASRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQG 66

Query: 65  VLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEA 124
                + + +IDTP +F +    E + KE+ +C  ++  G H +L+V  +  R++ +++ 
Sbjct: 67  SW-GNREIVIIDTPDMFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQL-GRYTSQDQQ 124

Query: 125 ALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK 171
           A   ++ +FG+    + IV+FT  ++L     +L DY+     K L 
Sbjct: 125 AAQRVKEIFGEDAMGHTIVLFTHKEDLN--GGSLMDYMHDSDNKALS 169

>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 = 59.7 bits (144), Expect = 3e-11
 Identities = 29/153 (18%), Positives = 53/153 (34%), Gaps = 16/153 (10%)

Query: 5   SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTC-EMQR 63
           SAI D   L    +    V + G TG+GKS+  N++ G    +  A+ +GV     E   
Sbjct: 56  SAISD--ALKEIDSSVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHP 113

Query: 64  TVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEE 123
               +   V   D PG+   +   +   +++                +    +RF + + 
Sbjct: 114 YKHPNIPNVVFWDLPGIGSTNFPPDTYLEKMKF--------YEYDFFIIISATRFKKNDI 165

Query: 124 AALHSLQTLFGKKIFDYMIVVFTGGDELEDNDE 156
               ++     K+       V T  D    N+ 
Sbjct: 166 DIAKAISM-MKKEF----YFVRTKVDSDITNEA 193

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 41.4 bits (96), Expect = 7e-05
 Identities = 31/178 (17%), Positives = 64/178 (35%), Gaps = 28/178 (15%)

Query: 20  ERTVVLVGRTGNGKSATGNSILGRRAFK-SRASSSGV----TSTCEMQRTVLKDGQVVNV 74
            + V++ G  G+GK+     +    ++K        +       C    TVL+  Q +  
Sbjct: 150 AKNVLIDGVLGSGKTWVALDVC--LSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY 207

Query: 75  IDTPGLFDFSAGSEFV------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHS 128
              P     S  S  +       +  ++ +  +K   + +LV+ +V++  ++   A   S
Sbjct: 208 QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQN--AKAWNAFNLS 265

Query: 129 LQTLF---GKKIFDYMIVVFTGGDELEDN------DETLE---DYLGRECPK-PLKVC 173
            + L     K++ D++    T    L+ +      DE       YL       P +V 
Sbjct: 266 CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVL 323

>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 = 40.9 bits (95), Expect = 1e-04
 Identities = 18/80 (22%), Positives = 33/80 (41%), Gaps = 4/80 (5%)

Query: 22  TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQV---VNVIDTP 78
            ++ VG TG GKS   +++   +     A+ +      +     L++  V   + ++ T 
Sbjct: 44  NILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVSTV 103

Query: 79  GLFDFSAGSEFVGKEIVKCI 98
           G F      E   K IV+ I
Sbjct: 104 G-FGDQINKEDSYKPIVEFI 122

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

---

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	174
d1h65a_	257	c.37.1.8 (A:) Chloroplast protein translocon GTPas	9e-28
d1tq4a_	400	c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (	4e-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	1e-05
d2cxxa1	184	c.37.1.8 (A:2-185) GTP-binding protein engB {Pyroc	3e-04
d1t9ha2	231	c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C	0.001
d1puja_	273	c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subti	0.002
d2c78a3	204	c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N	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	0.004

>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 =  102 bits (254), Expect = 9e-28
 Identities = 37/162 (22%), Positives = 66/162 (40%), Gaps = 5/162 (3%)

Query: 12  ELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQV 71
            L        T++++G+ G GKS+T NSI+G R        S       + R+    G  
Sbjct: 24  NLKQEDVNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSR--AGFT 81

Query: 72  VNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSV-RSRFSQEEEAALHSLQ 130
           +N+IDTPGL +    ++     I     +    I  +L V  +   R    ++    ++ 
Sbjct: 82  LNIIDTPGLIEGGYINDMALNIIKSF--LLDKTIDVLLYVDRLDAYRVDNLDKLVAKAIT 139

Query: 131 TLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKV 172
             FGK I++  IV  T       +    +++  +     L+V
Sbjct: 140 DSFGKGIWNKAIVALTHAQFSPPDGLPYDEFFSKRSEALLQV 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 = 4e-11
 Identities = 25/146 (17%), Positives = 49/146 (33%), Gaps = 14/146 (9%)

Query: 12  ELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTC-EMQRTVLKDGQ 70
            L    +    V + G TG+GKS+  N++ G    +  A+ +GV     E       +  
Sbjct: 48  ALKEIDSSVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIP 107

Query: 71  VVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQ 130
            V   D PG+   +   +   +++                +    +RF + +     ++ 
Sbjct: 108 NVVFWDLPGIGSTNFPPDTYLEKMKFY--------EYDFFIIISATRFKKNDIDIAKAIS 159

Query: 131 TLFGKKIFDYMIVVFTGGDELEDNDE 156
               K+       V T  D    N+ 
Sbjct: 160 M-MKKEF----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 = 54/147 (36%), Gaps = 3/147 (2%)

Query: 22  TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF 81
            V LVG    GKS   + +   +     A     T    +      DG+   + D PGL 
Sbjct: 3   DVGLVGFPSVGKSTLLSVVSSAKP--KIADYHFTTLVPNLGMVETDDGRSFVMADLPGLI 60

Query: 82  DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYM 141
           + +     +G + ++ I      I  V+ +  +  R   ++   ++   + +  ++ +  
Sbjct: 61  EGAHQGVGLGHQFLRHIERT-RVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERP 119

Query: 142 IVVFTGGDELEDNDETLEDYLGRECPK 168
            ++     ++ +  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 = 41.2 bits (95), Expect = 1e-05
 Identities = 15/84 (17%), Positives = 35/84 (41%), Gaps = 2/84 (2%)

Query: 23  VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 82
           V LVG    GKS+   ++         A     T +  +    + + +   + D PG+ +
Sbjct: 4   VGLVGYPNAGKSSLLAAMTRAHP--KIAPYPFTTLSPNLGVVEVSEEERFTLADIPGIIE 61

Query: 83  FSAGSEFVGKEIVKCIGMAKDGIH 106
            ++  + +G E ++ I   +  ++
Sbjct: 62  GASEGKGLGLEFLRHIARTRVLLY 85

>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 = 37.4 bits (85), Expect = 3e-04
 Identities = 23/150 (15%), Positives = 49/150 (32%), Gaps = 17/150 (11%)

Query: 22  TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF 81
           T++  GR+  GKS     + G++  + +    GVT             +   +ID PG  
Sbjct: 2   TIIFAGRSNVGKSTLIYRLTGKKVRRGKR--PGVTRKIIEIEW-----KNHKIIDMPGFG 54

Query: 82  DFSAGSEFVG-------KEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFG 134
                 + V           ++      D    V+   +      + E+     +   F 
Sbjct: 55  FMMGLPKEVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFY 114

Query: 135 KKIFDY---MIVVFTGGDELEDNDETLEDY 161
           + + +     IV     D++++  E +   
Sbjct: 115 QFLRELDIPTIVAVNKLDKIKNVQEVINFL 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 = 35.9 bits (82), Expect = 0.001
 Identities = 20/77 (25%), Positives = 30/77 (38%), Gaps = 7/77 (9%)

Query: 8   DDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFK----SRASSSGVTSTCEMQR 63
            D      P   ++T V  G++G GKS+  N+I      +    S     G  +T  ++ 
Sbjct: 85  QDSLADIIPHFQDKTTVFAGQSGVGKSSLLNAISPELGLRTNEISEHLGRGKHTTRHVEL 144

Query: 64  TVLKDGQVVNVIDTPGL 80
                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 = 35.6 bits (81), Expect = 0.002
 Identities = 24/99 (24%), Positives = 40/99 (40%), Gaps = 6/99 (6%)

Query: 23  VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 82
            +++G    GKS   N +  +   K+     G        +  +K G+ + ++DTPG+  
Sbjct: 115 ALIIGIPNVGKSTLINRLAKKNIAKT-----GDRPGITTSQQWVKVGKELELLDTPGILW 169

Query: 83  FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE 121
                E VG  +    G  KD I  +  V     RF +E
Sbjct: 170 PKFEDELVGLRLA-VTGAIKDSIINLQDVAVFGLRFLEE 207

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]} Length = 204

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]

 Score = 34.5 bits (79), Expect = 0.003
 Identities = 29/151 (19%), Positives = 48/151 (31%), Gaps = 30/151 (19%)

Query: 23  VVLVGRTGNGKSATGNSIL---GRRAFKSRASSSGVTSTCEMQR-----------TVLKD 68
           V  +G   +GK+    ++                G       +R                
Sbjct: 6   VGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETA 65

Query: 69  GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHS 128
            +  + +D PG  D+        K ++       DG  A+LVV +      Q  E  L +
Sbjct: 66  KRHYSHVDCPGHADYI-------KNMITGAAQM-DG--AILVVSAADGPMPQTREHILLA 115

Query: 129 LQTLFGKKIFDYMIVVFTGGDELEDNDETLE 159
            Q   G       IVVF    ++ D+ E L+
Sbjct: 116 RQ--VGVP----YIVVFMNKVDMVDDPELLD 140

>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 = 34.6 bits (78), Expect = 0.003
 Identities = 13/64 (20%), Positives = 29/64 (45%), Gaps = 2/64 (3%)

Query: 23 VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 82
          +V+VG+   GKS   N +L     ++  +    T+   +   ++  G +  ++DT G+  
Sbjct: 3  MVIVGKPNVGKSTLLNRLLNED--RAIVTDIPGTTRDVISEEIVIRGILFRIVDTAGVRS 60

Query: 83 FSAG 86
           +  
Sbjct: 61 ETND 64

>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 = 0.004
 Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 2/58 (3%)

Query: 22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPG 79
           V +VGR   GKS   N+IL +   ++  S    T+   +   V  DG+    +DT G
Sbjct: 10 KVAIVGRPNVGKSTLFNAILNKE--RALVSPIPGTTRDPVDDEVFIDGRKYVFVDTAG 65

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	174
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.9
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.84
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.77
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.75
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.75
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.74
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.73
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.73
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.73
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.72
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.72
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.72
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.71
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.7
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.68
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.68
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.65
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.65
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.64
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.64
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.63
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.62
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.62
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.62
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.62
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.61
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.6
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.6
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.59
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.58
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.58
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	99.58
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.57
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.57
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.57
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.56
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.56
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.56
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.56
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.56
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.55
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.55
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.54
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.54
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.54
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.54
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.53
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.53
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.53
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.52
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.52
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.51
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.51
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.5
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.5
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.5
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.5
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.49
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.49
d1g2912	240	Maltose transport protein MalK, N-terminal domain	99.49
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.48
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	99.48
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	99.48
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	99.48
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.48
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.48
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.48
d2awna2	232	Maltose transport protein MalK, N-terminal domain	99.48
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.47
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.47
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.46
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	99.46
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.45
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.45
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.45
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.44
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.44
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	99.44
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.44
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.43
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.43
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	99.43
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.42
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	99.42
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.4
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.4
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	99.38
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	99.37
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	99.36
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	99.36
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	99.36
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.35
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	99.34
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	99.33
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	99.32
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	99.32
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	99.31
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	99.31
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	99.29
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.28
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.28
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	99.24
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.23
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	99.23
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	99.18
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.15
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.12
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	99.09
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	99.05
d1vmaa2	213	GTPase domain of the signal recognition particle r	99.03
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	98.95
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	98.91
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.9
d1okkd2	207	GTPase domain of the signal recognition particle r	98.88
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.83
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.83
d1ls1a2	207	GTPase domain of the signal sequence recognition p	98.69
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.53
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	98.34
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	98.34
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	97.96
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.86
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.78
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.71
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.63
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	97.62
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	97.62
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.54
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.51
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	97.47
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.46
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.44
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.42
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	97.41
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.41
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	97.38
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	97.36
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.33
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.33
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.32
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	97.31
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.3
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	97.28
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	97.27
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.26
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.25
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	97.24
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	97.23
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	97.22
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.22
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.22
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.19
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.19
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.19
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.18
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.18
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	97.18
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.17
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	97.17
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.16
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.14
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.14
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.13
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	97.12
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	97.1
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	97.1
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	97.09
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	97.08
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.05
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	97.02
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.01
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	97.01
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	97.0
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	97.0
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.99
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.98
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.97
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.94
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	96.94
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.93
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.9
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.88
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.84
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.84
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.82
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.8
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.79
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	96.76
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.75
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	96.74
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	96.72
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.72
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	96.68
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.66
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.64
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	96.63
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.61
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.59
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	96.55
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	96.42
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	96.42
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.42
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	96.4
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.39
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	96.38
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	96.37
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	96.33
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	96.23
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	96.23
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.23
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	96.22
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	96.15
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	96.07
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	96.05
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	96.03
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	95.99
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	95.97
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	95.74
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.69
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	95.68
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	95.62
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	95.6
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	95.6
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.49
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	95.48
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.36
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.35
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.31
d1xpua3	289	Transcription termination factor Rho, ATPase domai	95.29
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.23
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.22
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	95.18
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	95.06
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	95.0
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	94.77
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	94.74
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.74
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	94.73
d1tuea_	205	Replication protein E1 helicase domain {Human papi	94.42
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	94.33
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	94.3
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	93.99
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	93.79
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	93.77
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	93.62
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	92.91
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	91.68
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	91.5
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	90.44
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	90.24
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	90.2
d1d0xa2	712	Myosin S1, motor domain {Dictyostelium discoideum	89.4
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	89.39
d2mysa2	794	Myosin S1, motor domain {Chicken (Gallus gallus),	89.22
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	89.21
d1lkxa_	684	Myosin S1, motor domain {Dictyostelium discoideum,	89.21
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	89.18
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	89.18
d1br2a2	710	Myosin S1, motor domain {Chicken (Gallus gallus),	88.9
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	88.8
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	88.36
d1kk8a2	789	Myosin S1, motor domain {Bay scallop (Aequipecten	88.03
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	87.86
d1w7ja2	730	Myosin S1, motor domain {Chicken (Gallus gallus),	87.33
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	86.98
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	86.8
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	86.58
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	86.46
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	85.58
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	83.48
d1c9ka_	180	Adenosylcobinamide kinase/adenosylcobinamide phosp	82.57
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	82.17
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	81.06
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	80.17

>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=99.90  E-value=2.7e-23  Score=130.07  Aligned_cols=143  Identities=23%  Similarity=0.330  Sum_probs=110.4

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHH
Q ss_conf             98338999849999888999987388643234689874225677899974895799993899999999908899999999
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~   97 (174)
                      ....+|+++|.+|+|||||+|+|+|...+... ...+.|..+....... .+..+.++||||+.+.....+.....+...
T Consensus        30 ~~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs-~~~~~T~~~~~~~~~~-~g~~i~viDTPGl~~~~~~~~~~~~~i~~~  107 (257)
T d1h65a_          30 VNSLTILVMGKGGVGKSSTVNSIIGERVVSIS-PFQSEGPRPVMVSRSR-AGFTLNIIDTPGLIEGGYINDMALNIIKSF  107 (257)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCC-SSSCCCSSCEEEEEEE-TTEEEEEEECCCSEETTEECHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHCCCCEEEC-CCCCCCEEEEEEEEEE-CCEEEEEEEEECCCCCCCHHHHHHHHHHHH
T ss_conf             78748999899998699999998589841335-8897604678988986-338899975213467752489999999999


Q ss_pred             HHHCCCCCEEEEEEEECCC-CCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCHHHHHHHHCC
Q ss_conf             8740699319999996899-889889999999999870400082899995767889980108998502
Q 030630           98 IGMAKDGIHAVLVVFSVRS-RFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGR  164 (174)
Q Consensus        98 ~~~~~~~~~~ii~v~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~  164 (174)
                      .  ....+|+++||+..+. +++..+...++.+...++...++++++|+||+|...++...+++|+.+
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
T ss_conf             8--56898769999978887789999999999998732656638899998864477688869999876

>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=99.84  E-value=9.3e-20  Score=112.73  Aligned_cols=126  Identities=22%  Similarity=0.207  Sum_probs=89.8

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             38999849999888999987388643234689874225677899974895799993899999999908899999999874
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      ..|+++|.+|+|||||+|+|++....... ...+.|.......... .+..+.++||||+.....   .....+...+..
T Consensus         6 ~~I~lvG~~~~GKSSLin~l~~~~~~~~~-~~~~tt~~~~~~~~~~-~~~~~~~~DtpG~~~~~~---~~~~~~~~~~~~   80 (178)
T d1wf3a1           6 GFVAIVGKPNVGKSTLLNNLLGVKVAPIS-PRPQTTRKRLRGILTE-GRRQIVFVDTPGLHKPMD---ALGEFMDQEVYE   80 (178)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSCCSCCC-SSSCCCCSCEEEEEEE-TTEEEEEEECCCCCCCCS---HHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCEEEC-CCCCCCCCCCCCEEEE-EEEEEEECCCCCCCCCCC---CCCHHCCCCCCC
T ss_conf             69999999999999999999688850331-5577322112111332-001355303443111122---220000111122


Q ss_pred             CCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             069931999999689988988999999999987040008289999576788998
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus       101 ~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      +...+|++++|+|+++++...+..+.+.++... ..  .|+++|+||+|+....
T Consensus        81 ~~~~ad~il~v~D~~~~~~~~~~~i~~~l~~~~-~~--~piilv~NK~Dl~~~~  131 (178)
T d1wf3a1          81 ALADVNAVVWVVDLRHPPTPEDELVARALKPLV-GK--VPILLVGNKLDAAKYP  131 (178)
T ss_dssp             HTSSCSEEEEEEETTSCCCHHHHHHHHHHGGGT-TT--SCEEEEEECGGGCSSH
T ss_pred             CCCCCCCEEEEECHHHHHCCCCCCHHHHEECCC-CC--HHHHHHHCCCCCCCCH
T ss_conf             223320035655126630132112012100123-22--0222200016000188

>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=99.77  E-value=1.7e-18  Score=106.60  Aligned_cols=120  Identities=15%  Similarity=0.189  Sum_probs=86.9

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCC---CCCC------------CCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCC
Q ss_conf             833899984999988899998738864---3234------------6898742256778999748957999938999999
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRA---FKSR------------ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   83 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~---~~~~------------~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~   83 (174)
                      ++..|+++|+.++|||||+++|+....   ....            ....+.|.........+ ++..+.++||||+.++
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
T ss_conf             971999994789849999999999852304774113543113455775587579843799970-8818999828982654


Q ss_pred             CCCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             99908899999999874069931999999689988988999999999987040008289999576788998
Q 030630           84 SAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                             ..++.+.    ...+|++++|+|+.++...++++.+..+.... -   +++++++||+|....+
T Consensus        81 -------~~~~~~~----~~~aD~avlVvda~~Gv~~qt~~~~~~~~~~g-i---~~iiv~iNK~D~~~~~  136 (204)
T d2c78a3          81 -------IKNMITG----AAQMDGAILVVSAADGPMPQTREHILLARQVG-V---PYIVVFMNKVDMVDDP  136 (204)
T ss_dssp             -------HHHHHHH----HTTCSSEEEEEETTTCCCHHHHHHHHHHHHTT-C---CCEEEEEECGGGCCCH
T ss_pred             -------HHHHHHH----HHHCCEEEEEEECCCCCCHHHHHHHHHHHHCC-C---CEEEEEEEECCCCCCH
T ss_conf             -------9999999----98789999999899998478999999999859-9---9389999853667988

>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=99.75  E-value=1.3e-17  Score=102.18  Aligned_cols=136  Identities=20%  Similarity=0.263  Sum_probs=88.7

Q ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHH--HHHH
Q ss_conf             99983389998499998889999873886432346898742256778999748957999938999999999088--9999
Q 030630           16 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEF--VGKE   93 (174)
Q Consensus        16 ~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~--~~~~   93 (174)
                      |....++|+++|++|+|||||+|+|++.............|..  .....  ......++|+++..........  ....
T Consensus        19 p~~~~~~I~lvG~~n~GKSTLin~L~g~~~~~~~~~~~~~t~~--~~~~~--~~~~~~~~d~~~~~~~~~~~~~~~~~~~   94 (195)
T d1svia_          19 PEGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQT--LNFYI--INDELHFVDVPGYGFAKVSKSEREAWGR   94 (195)
T ss_dssp             CCSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CC--EEEEE--ETTTEEEEECCCBCCCSSCHHHHHHHHH
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHCCCCCEEEEECCCCEEEE--CCCCC--CCCCCEEEEEEEECCCCCCCCCCCHHHH
T ss_conf             9889989999899998799999985298746886034651230--12112--4543137888751332112221110366


Q ss_pred             HHHHHHHCCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCHHHHHHHH
Q ss_conf             999987406993199999968998898899999999998704000828999957678899801089985
Q 030630           94 IVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYL  162 (174)
Q Consensus        94 ~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~  162 (174)
                      +...........+++++++|+..++...+..+++.++...     .|+++|+||+|+..+  ..+++++
T Consensus        95 ~~~~~~~~~~~~~~vi~viD~~~~~~~~~~~~~~~l~~~~-----~piivv~NK~D~~~~--~~~~~~~  156 (195)
T d1svia_          95 MIETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYYG-----IPVIVIATKADKIPK--GKWDKHA  156 (195)
T ss_dssp             HHHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHTT-----CCEEEEEECGGGSCG--GGHHHHH
T ss_pred             HHHHHHCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCC-----CCCEECHHHCCCCCH--HHHHHHH
T ss_conf             7765431121101222212014564212221100000255-----751100012032588--8899999

>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=99.75  E-value=5.4e-18  Score=104.06  Aligned_cols=133  Identities=16%  Similarity=0.153  Sum_probs=81.5

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHHC
Q ss_conf             89998499998889999873886432346898742256778999748957999938999999999088999999998740
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  101 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~~  101 (174)
                      .|+++|.+|+|||||+|+|++......  ...+.+...............+.++||||+............++.+.+   
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~---   77 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHPKIA--PYPFTTLSPNLGVVEVSEEERFTLADIPGIIEGASEGKGLGLEFLRHI---   77 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEEC--CCTTCSSCCEEEEEECSSSCEEEEEECCCCCCCGGGSCCSCHHHHHHH---
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCEE--CCCCCCEEEEECEEEECCCCEEEECCCCEEECCCHHHHHHHHHHHHHH---
T ss_conf             899989999989999999968997153--468971666564155237874898288806527517779999999987---


Q ss_pred             CCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCHHHHHHHH
Q ss_conf             6993199999968998898899999999998704000828999957678899801089985
Q 030630          102 KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYL  162 (174)
Q Consensus       102 ~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~  162 (174)
                       ...++++++++...........+...+.........+|+++|+||+|+..++  ..+...
T Consensus        78 -~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~D~~~~~--~~~~~~  135 (180)
T d1udxa2          78 -ARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEEE--AVKALA  135 (180)
T ss_dssp             -TSSSEEEEEEETTSCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCHH--HHHHHH
T ss_pred             -HHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHH--HHHHHH
T ss_conf             -7534566530012465321013344431122000102110115566555277--899999

>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=99.74  E-value=3e-18  Score=105.33  Aligned_cols=115  Identities=17%  Similarity=0.202  Sum_probs=79.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEE------------------EEEECCCEEEEEECCCCCC
Q ss_conf             3899984999988899998738864323468987422567789------------------9974895799993899999
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQR------------------TVLKDGQVVNVIDTPGLFD   82 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~------------------~~~~~~~~~~iiDtpg~~~   82 (174)
                      ++|+++|++++|||||+|+|++......  .....+.......                  ..+ ....+.++||||+.+
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~iDtPGh~~   82 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGSAVASR--EAGGITQHIGATEIPMDVIEGICGDFLKKFSIRE-TLPGLFFIDTPGHEA   82 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHSCC------CCCBTTEEEEEHHHHHHHSCGGGGGCGGGG-TCCEEEEECCCTTSC
T ss_pred             CEEEEEECCCCCHHHHHHHHHHHCCHHE--ECCCEEEECCCCCCCCCCCCCCCCCCCCCEEECC-CCCCCCCCCCCCEEC
T ss_conf             8799996998549999999982366001--4574545315312321012234443321001101-113422346411000


Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             999908899999999874069931999999689988988999999999987040008289999576788998
Q 030630           83 FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      +....           ..+...+|++++|+|+.+++...+...+..+....     .|+++++||+|.....
T Consensus        83 f~~~~-----------~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~~-----~p~iivlNK~D~~~~~  138 (227)
T d1g7sa4          83 FTTLR-----------KRGGALADLAILIVDINEGFKPQTQEALNILRMYR-----TPFVVAANKIDRIHGW  138 (227)
T ss_dssp             CTTSB-----------CSSSBSCSEEEEEEETTTCCCHHHHHHHHHHHHTT-----CCEEEEEECGGGSTTC
T ss_pred             CCCCC-----------HHCCCCCCEEEEEEECCCCCCCCHHHHHHHHHCCC-----CEEEEEEECCCCCCCH
T ss_conf             00111-----------00012464589998612376320257777764379-----7599999893078814

>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=99.73  E-value=2.5e-17  Score=100.81  Aligned_cols=121  Identities=21%  Similarity=0.214  Sum_probs=78.9

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHH----HHHHHHHHH
Q ss_conf             8999849999888999987388643234689874225677899974895799993899999999908----899999999
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSE----FVGKEIVKC   97 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~----~~~~~~~~~   97 (174)
                      .|+++|.+|+|||||+|+|++.... .. ...+.|...  ....+   ..+.++||||+........    .+...+...
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~-~~-~~~g~T~~~--~~~~~---~~~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~   74 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVR-RG-KRPGVTRKI--IEIEW---KNHKIIDMPGFGFMMGLPKEVQERIKDEIVHF   74 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCS-SS-SSTTCTTSC--EEEEE---TTEEEEECCCBSCCTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCCE-EE-CCCCEEECC--CCCCC---CCCEECCCCCCEECCCCCCCCCCCCCHHHHHH
T ss_conf             8999999998899999999689853-52-789772045--42442---23110036775001211111222210245666


Q ss_pred             HHHCCCCCEEEEEEEECCC-----------CCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             8740699319999996899-----------88988999999999987040008289999576788998
Q 030630           98 IGMAKDGIHAVLVVFSVRS-----------RFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        98 ~~~~~~~~~~ii~v~~~~~-----------~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      .......+|++++++|+..           .....+..+++.+.+.     ..|+++|+||+|+....
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
T ss_conf             6530111330026642235510111343313207789999999984-----99889987643224357

>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=99.73  E-value=1.6e-17  Score=101.72  Aligned_cols=119  Identities=16%  Similarity=0.168  Sum_probs=86.6

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCCC--------------CCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCC
Q ss_conf             8338999849999888999987388643--------------23468987422567789997489579999389999999
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAF--------------KSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   84 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~--------------~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~   84 (174)
                      ++..|+++|+.++|||||+++|++...-              .......+.|.......+.+ ....+.++||||..+  
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--
T ss_conf             97189999588980999999999999873761255654104656550788417723699981-215687523731677--


Q ss_pred             CCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             990889999999987406993199999968998898899999999998704000828999957678899
Q 030630           85 AGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                               +.+....+...+|++++|+|+.+++..++++.+..+.... .   +++++++||+|....
T Consensus        79 ---------f~~~~~~~~~~aD~allVVda~~G~~~QT~~~~~~a~~~~-~---~~iIv~iNK~D~~~~  134 (196)
T d1d2ea3          79 ---------YVKNMITGTAPLDGCILVVAANDGPMPQTREHLLLARQIG-V---EHVVVYVNKADAVQD  134 (196)
T ss_dssp             ---------HHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHHHHHTT-C---CCEEEEEECGGGCSC
T ss_pred             ---------HHHHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHHHC-C---CCEEEEEECCCCCCC
T ss_conf             ---------8999999875437679999868887634899999999855-8---848999855656660

>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=99.73  E-value=1.9e-17  Score=101.36  Aligned_cols=117  Identities=19%  Similarity=0.171  Sum_probs=76.4

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCC---CCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHH
Q ss_conf             33899984999988899998738864323468987---422567789997489579999389999999990889999999
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSG---VTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   96 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~---~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~   96 (174)
                      ..+|+++|.+|+|||||+|+|+|......+....+   .|..  ...........+.++||||+.......+..    ..
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~--~~~~~~~~~~~~~l~DtPG~~~~~~~~~~~----~~  129 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTME--RHPYKHPNIPNVVFWDLPGIGSTNFPPDTY----LE  129 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CC--CEEEECSSCTTEEEEECCCGGGSSCCHHHH----HH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCEE--EEEEECCCCCEEEEEECCCCCCCCCCHHHH----HH
T ss_conf             717999899999789999999588867775678999887044--553110689707998379854333449999----98


Q ss_pred             HHHHCCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCC
Q ss_conf             9874069931999999689988988999999999987040008289999576788
Q 030630           97 CIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  151 (174)
Q Consensus        97 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~  151 (174)
                      ..  ....+|.++++.+  .+++..+..+++.+++..     +|+++|+||+|..
T Consensus       130 ~~--~~~~~d~~l~~~~--~~~~~~d~~l~~~l~~~~-----k~~~~V~nK~D~~  175 (400)
T d1tq4a_         130 KM--KFYEYDFFIIISA--TRFKKNDIDIAKAISMMK-----KEFYFVRTKVDSD  175 (400)
T ss_dssp             HT--TGGGCSEEEEEES--SCCCHHHHHHHHHHHHTT-----CEEEEEECCHHHH
T ss_pred             HH--HHHCCEEEEEECC--CCCCHHHHHHHHHHHHCC-----CCEEEEEECCCCC
T ss_conf             74--3322659999658--888788999999999769-----9879997086321

>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=99.72  E-value=3.6e-17  Score=100.03  Aligned_cols=123  Identities=22%  Similarity=0.290  Sum_probs=83.3

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHHC
Q ss_conf             89998499998889999873886432346898742256778999748957999938999999999088999999998740
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  101 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~~  101 (174)
                      +|+++|++|+|||||+|+|++....... ...+.|.......... ....+.++|+||+.....  ..........+...
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~~~-~~~~~t~~~~~~~~~~-~~~~~~~~d~~g~~~~~~--~~~~~~~~~~~~~~   77 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAIVE-DEEGVTRDPVQDTVEW-YGKTFKLVDTCGVFDNPQ--DIISQKMKEVTLNM   77 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC---------------CCSEEEEEE-TTEEEEEEECTTTTSSGG--GCCCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCEEC-CCCCEEECCCCCCCCC-CCCCCCCCCCCCEEEEEC--CCCCCCCCCCCCCC
T ss_conf             8999999999899999999677753031-4476353132221221-221111124542132101--22332222000023


Q ss_pred             CCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             6993199999968998898899999999998704000828999957678899
Q 030630          102 KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       102 ~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...+|+++++.+.++.+...+..+++.++...     .|+++++||+|+...
T Consensus        78 ~~~ad~i~~~~~~~~~~~~~~~~~~~~l~~~~-----~pviiv~NK~Dl~~~  124 (171)
T d1mkya1          78 IREADLVLFVVDGKRGITKEDESLADFLRKST-----VDTILVANKAENLRE  124 (171)
T ss_dssp             HTTCSEEEEEEETTTCCCHHHHHHHHHHHHHT-----CCEEEEEESCCSHHH
T ss_pred             CCCCCEEEEEECCCCCCCCCCCCCCCCCCCCC-----CCCCCCCHHHHHHHH
T ss_conf             55571899960112112222111122222222-----110013102334556

>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=99.72  E-value=5.3e-17  Score=99.18  Aligned_cols=126  Identities=22%  Similarity=0.210  Sum_probs=83.9

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             38999849999888999987388643234689874225677899974895799993899999999908899999999874
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .+|+++|++|+|||||+|+|++....... ...+.+.........+ .+..+.++|+||+.+...   ............
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~~~d~~g~~~~~~---~~~~~~~~~~~~   76 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGREAAIVT-DIAGTTRDVLREHIHI-DGMPLHIIDTAGLREASD---EVERIGIERAWQ   76 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSCCC-SSTTCCCSCEEEEEEE-TTEEEEEEECCCCSCCSS---HHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCEEEE-CCCCCCCCEEEEEEEC-CCCEEEECCCCCCCCCCC---CCHHHHHHHHHH
T ss_conf             89999899999899999999688866751-2466422047653202-682354136532122465---202478999999


Q ss_pred             CCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             06993199999968998898899999999998704000828999957678899
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       101 ~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      +...+|+++++++..+............+.......  .|+++|+||+|+...
T Consensus        77 ~~~~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~--~~iilv~NK~Dl~~~  127 (161)
T d2gj8a1          77 EIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAK--LPITVVRNKADITGE  127 (161)
T ss_dssp             HHHTCSEEEEEEETTTCCCCSHHHHCHHHHHHSCTT--CCEEEEEECHHHHCC
T ss_pred             HHHHCCCCCEEECCCCCCCHHHHHHHHHHHHHCCCC--CCEEECCCHHHHHHH
T ss_conf             987413320110256542034555444555420141--010204654443355

>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=99.72  E-value=6.9e-17  Score=98.64  Aligned_cols=131  Identities=21%  Similarity=0.278  Sum_probs=87.6

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHH-----HHHHHH
Q ss_conf             338999849999888999987388643234689874225677899974895799993899999999908-----899999
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSE-----FVGKEI   94 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~-----~~~~~~   94 (174)
                      ..+|+++|.+|+|||||+|+|++....... .....+.........+ .+..+.++|+||+........     ......
T Consensus         8 ~~kV~iiG~~~~GKSTLin~l~~~~~~~~~-~~~~t~~~~~~~~~~~-~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~   85 (186)
T d1mkya2           8 AIKVAIVGRPNVGKSTLFNAILNKERALVS-PIPGTTRDPVDDEVFI-DGRKYVFVDTAGLRRKSRVEPRTVEKYSNYRV   85 (186)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHTSTTEEEC-CCC------CCEEEEE-TTEEEEESSCSCC-----------CCSCCHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCCCEEE-CCCCCCCCCCEEEECC-CCCEEEEECCCCCCCCCCCCCCCCCCCHHHHH
T ss_conf             888999999999999999999778762242-2565433320012204-99234652368851012212222100011778


Q ss_pred             HHHHHHCCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCHHHHHHH
Q ss_conf             9998740699319999996899889889999999999870400082899995767889980108998
Q 030630           95 VKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDY  161 (174)
Q Consensus        95 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~  161 (174)
                      ...+.    .+|++++++|+..+.......++..+....     .|+++++||+|........++++
T Consensus        86 ~~~~~----~~dvii~v~d~~~~~~~~~~~~~~~~~~~~-----~~~i~v~nK~D~~~~~~~~~~~~  143 (186)
T d1mkya2          86 VDSIE----KADVVVIVLDATQGITRQDQRMAGLMERRG-----RASVVVFNKWDLVVHREKRYDEF  143 (186)
T ss_dssp             HHHHH----HCSEEEEEEETTTCCCHHHHHHHHHHHHTT-----CEEEEEEECGGGSTTGGGCHHHH
T ss_pred             HHHHH----CCCEEEEEECCCCCCHHHHHHHHHHHHHCC-----CCEEEECCCHHHHCCHHHHHHHH
T ss_conf             98986----099999960345650266889999999708-----86053001000110101102568

>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=99.71  E-value=2.9e-16  Score=95.57  Aligned_cols=127  Identities=18%  Similarity=0.235  Sum_probs=92.9

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCC---CCCC-------------CCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCC
Q ss_conf             83389998499998889999873886---4323-------------4689874225677899974895799993899999
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRR---AFKS-------------RASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   82 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~---~~~~-------------~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~   82 (174)
                      +-+.++++|+.++|||||+.+|+-..   ...+             ....-+.|.........| ++..+.++||||..+
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~-~~~~~n~iDtPG~~d   83 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFW-KDHRINIIDAPGHVD   83 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEE-TTEEEEEECCCSSSS
T ss_pred             HCEEEEEEECCCCCHHHHHHHHHHHCCCCCCCCCEECCCEEEECCHHHHHCCCCCCCCEEEECC-CCEEEEEECCCCHHH
T ss_conf             2029999958989989999999996485340233651846985658887518860011234315-983899952786022


Q ss_pred             CCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCHHHHHHHH
Q ss_conf             99990889999999987406993199999968998898899999999998704000828999957678899801089985
Q 030630           83 FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYL  162 (174)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~  162 (174)
                      +..       +....++.+    |..++|+|+.++....+...++...+..     .|.++++||+|....+...+-+-+
T Consensus        84 F~~-------e~~~~l~~~----D~avlVvda~~Gv~~~T~~~w~~a~~~~-----lP~i~fINKmDr~~ad~~~~l~ei  147 (276)
T d2bv3a2          84 FTI-------EVERSMRVL----DGAIVVFDSSQGVEPQSETVWRQAEKYK-----VPRIAFANKMDKTGADLWLVIRTM  147 (276)
T ss_dssp             CST-------THHHHHHHC----CEEEEEEETTTSSCHHHHHHHHHHHTTT-----CCEEEEEECTTSTTCCHHHHHHHH
T ss_pred             HHH-------HHHHHHHHH----HHEEEECCCCCCCCHHHHHHHHHHHHCC-----CCEEEEEECCCCCCCCCCHHHHHH
T ss_conf             699-------999999963----0057732256774466999999999859-----997999864456543121268999

>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=99.70  E-value=3.2e-16  Score=95.35  Aligned_cols=116  Identities=28%  Similarity=0.317  Sum_probs=87.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC---CCCCC----CC---------CCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCC
Q ss_conf             38999849999888999987388---64323----46---------8987422567789997489579999389999999
Q 030630           21 RTVVLVGRTGNGKSATGNSILGR---RAFKS----RA---------SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   84 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~---~~~~~----~~---------~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~   84 (174)
                      +.++++|+.++|||||+.+|+..   ....+    +.         ...+.|.........| ++..+.++||||..++ 
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-
T ss_conf             09999948898099999999997097553066222211356269888738768751022223-4321068806815543-


Q ss_pred             CCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             990889999999987406993199999968998898899999999998704000828999957678899
Q 030630           85 AGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                            ..++...++.+    |++++|+|+.++....+...++.+.+..     .|.++++||+|....
T Consensus        81 ------~~e~~~al~~~----D~avlvvda~~Gv~~~t~~~~~~~~~~~-----~p~~i~iNk~D~~~~  134 (267)
T d2dy1a2          81 ------VGEIRGALEAA----DAALVAVSAEAGVQVGTERAWTVAERLG-----LPRMVVVTKLDKGGD  134 (267)
T ss_dssp             ------HHHHHHHHHHC----SEEEEEEETTTCSCHHHHHHHHHHHHTT-----CCEEEEEECGGGCCC
T ss_pred             ------HHHHHHHHCCC----CCEEEEEECCCCCCCHHHHHHHHHHHCC-----CCCCCCCCCCCCCCC
T ss_conf             ------35565431246----7338984235774211578877655404-----431013332022221

>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=99.68  E-value=3e-16  Score=95.49  Aligned_cols=116  Identities=13%  Similarity=0.076  Sum_probs=79.3

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             83389998499998889999873886432346898742256778999748957999938999999999088999999998
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~   98 (174)
                      +..+++++|.+|+|||||++.+.+....     ....|.......... ++..+.++|+||...           +....
T Consensus         1 k~~ki~ivG~~~~GKTsLi~~l~~~~~~-----~~~~t~~~~~~~~~~-~~~~~~~~D~~G~~~-----------~~~~~   63 (165)
T d1ksha_           1 RELRLLMLGLDNAGKTTILKKFNGEDVD-----TISPTLGFNIKTLEH-RGFKLNIWDVGGQKS-----------LRSYW   63 (165)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTCCCS-----SCCCCSSEEEEEEEE-TTEEEEEEEECCSHH-----------HHTTG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHCCCCCC-----CCCCEEEEEEEECCC-CCCCEEEEECCCCHH-----------HHHHH
T ss_conf             9279999999998999999998089987-----302357530430113-454303663376055-----------41577


Q ss_pred             HHCCCCCEEEEEEEECCCCCCHHH-HHHH-HHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             740699319999996899889889-9999-999998704000828999957678899
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAAL-HSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~-~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ......++++++++|.++...... ..++ +.+......  ..|++++.||.|+...
T Consensus        64 ~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~--~~p~iiv~nK~Dl~~~  118 (165)
T d1ksha_          64 RNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLA--GATLLIFANKQDLPGA  118 (165)
T ss_dssp             GGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGT--TCEEEEEEECTTSTTC
T ss_pred             HHHHHHHHCCEEEEECCCCHHHHHHHHHHHHHHHHCCCC--CCCEEEEEECCCCCCC
T ss_conf             764121002402220123222788887666543210157--9966999741452012

>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=99.68  E-value=1.2e-16  Score=97.37  Aligned_cols=119  Identities=18%  Similarity=0.265  Sum_probs=80.9

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCCCCCC-----CCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHH
Q ss_conf             8338999849999888999987388643234-----68987422567789997489579999389999999990889999
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSR-----ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKE   93 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~-----~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~   93 (174)
                      +...|+++|++++|||||+|+|++.......     ....+.+.........+ .+..+.++|+||..+           
T Consensus         4 k~inIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~-~~~~~~~~d~~g~~~-----------   71 (179)
T d1wb1a4           4 KNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKL-ENYRITLVDAPGHAD-----------   71 (179)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEE-TTEEEEECCCSSHHH-----------
T ss_pred             CCEEEEEEECCCCCHHHHHHHHHHHCCCEECCCCCCEEEEEEECCCCCCCCCC-CCCCCCCCCCCCCCC-----------
T ss_conf             98799999077870999999999743956202233001213302223000013-785211012532232-----------


Q ss_pred             HHHHHHHCCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             9999874069931999999689988988999999999987040008289999576788998
Q 030630           94 IVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        94 ~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      +.+....+....|++++++++.++....++.....+....     .|+++++||+|....+
T Consensus        72 ~~~~~~~~l~~~d~~ilv~d~~~g~~~~~~~~~~~~~~~~-----~p~iiv~NKiD~~~~~  127 (179)
T d1wb1a4          72 LIRAVVSAADIIDLALIVVDAKEGPKTQTGEHMLILDHFN-----IPIIVVITKSDNAGTE  127 (179)
T ss_dssp             HHHHHHHHTTSCCEEEEEEETTTCSCHHHHHHHHHHHHTT-----CCBCEEEECTTSSCHH
T ss_pred             CCCCHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHHHHCC-----CCCEECCCCCCCCCHH
T ss_conf             1000123443024321212222211023454455555259-----7620112323445778

>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=99.65  E-value=1.1e-15  Score=92.66  Aligned_cols=124  Identities=18%  Similarity=0.127  Sum_probs=80.9

Q ss_pred             CCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHH
Q ss_conf             58999983389998499998889999873886432346898742256778999748957999938999999999088999
Q 030630           13 LTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGK   92 (174)
Q Consensus        13 ~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~   92 (174)
                      +..++.+..+|+++|.+|+|||||+|.+.+.......     .+.........+ .+..+.++|++|...          
T Consensus         9 ~~~~~~~~~kI~vvG~~~vGKSsLi~~l~~~~~~~~~-----~~~~~~~~~i~~-~~~~~~i~d~~g~~~----------   72 (176)
T d1fzqa_           9 LKSAPDQEVRILLLGLDNAGKTTLLKQLASEDISHIT-----PTQGFNIKSVQS-QGFKLNVWDIGGQRK----------   72 (176)
T ss_dssp             CSSCCSSCEEEEEEESTTSSHHHHHHHHCCSCCEEEE-----EETTEEEEEEEE-TTEEEEEEECSSCGG----------
T ss_pred             HHCCCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCE-----EEEEEEEEEECC-CCEEEEEEECCCCCC----------
T ss_conf             1178998779999999998999999999648777520-----233105898504-885676763254210----------


Q ss_pred             HHHHHHHHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             999998740699319999996899889889-99999999987040008289999576788998
Q 030630           93 EIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        93 ~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                       +...+...+..+|++++++|.++...... ..++..+...... ...|++++.||+|+....
T Consensus        73 -~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~~~~~~~~~~~-~~~pillv~nK~Dl~~~~  133 (176)
T d1fzqa_          73 -IRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKL-SCVPVLIFANKQDLLTAA  133 (176)
T ss_dssp             -GHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCGGG-TTCCEEEEEECTTSTTCC
T ss_pred             -CHHHHHHHHHCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHCC-CCCEEEEEEEECCCCCCC
T ss_conf             -0147788764155268862045654244444554433443036-998599999740545424

>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=99.65  E-value=1.9e-15  Score=91.56  Aligned_cols=130  Identities=13%  Similarity=0.135  Sum_probs=86.4

Q ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCC--------------C-----------------CCCCCCCEEEEEEEE
Q ss_conf             999833899984999988899998738864323--------------4-----------------689874225677899
Q 030630           16 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKS--------------R-----------------ASSSGVTSTCEMQRT   64 (174)
Q Consensus        16 ~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~--------------~-----------------~~~~~~t~~~~~~~~   64 (174)
                      ......+++++|+.++|||||++.|+.......              +                 ....+.+........
T Consensus         5 ~~~~~~~i~viGHVd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~d~~~~e~~~g~ti~~~~~~~   84 (222)
T d1zunb3           5 ERKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYF   84 (222)
T ss_dssp             TSCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEE
T ss_pred             CCCCCCEEEEECCCCCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCCCCHHHHCCCCCCEEEEEEE
T ss_conf             13775559999378989899999999986983567889999889862865441221001464134431587731557898


Q ss_pred             EEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEE
Q ss_conf             97489579999389999999990889999999987406993199999968998898899999999998704000828999
Q 030630           65 VLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVV  144 (174)
Q Consensus        65 ~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv  144 (174)
                      .+ ..+.+.++|+||..+       ....+.+.    ...+|++++|+|+.+++..++.+.+..+... +-   ++++++
T Consensus        85 ~~-~~~~~~iiD~PGH~d-------fv~~~~~g----~~~aD~ailVvda~~G~~~Qt~e~~~~~~~~-gv---~~iiv~  148 (222)
T d1zunb3          85 ST-AKRKFIIADTPGHEQ-------YTRNMATG----ASTCDLAIILVDARYGVQTQTRRHSYIASLL-GI---KHIVVA  148 (222)
T ss_dssp             EC-SSEEEEEEECCCSGG-------GHHHHHHH----HTTCSEEEEEEETTTCSCHHHHHHHHHHHHT-TC---CEEEEE
T ss_pred             EC-CCEEEEEEECCCHHH-------HHHHHCCC----CCCCCEEEEEECCCCCCCCCHHHHHHHHHHC-CC---CEEEEE
T ss_conf             41-523799981663255-------43332146----6557668987204567663338999999983-99---879999


Q ss_pred             EECCCCCCCCHHHHHHH
Q ss_conf             95767889980108998
Q 030630          145 FTGGDELEDNDETLEDY  161 (174)
Q Consensus       145 ~tk~D~~~~~~~~~~~~  161 (174)
                      +||+|....+...++..
T Consensus       149 vNK~D~~~~~~~~~~~~  165 (222)
T d1zunb3         149 INKMDLNGFDERVFESI  165 (222)
T ss_dssp             EECTTTTTSCHHHHHHH
T ss_pred             EECCCCCCCCCEEHHHH
T ss_conf             87001455520000356

>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=99.64  E-value=6e-16  Score=94.03  Aligned_cols=118  Identities=11%  Similarity=0.083  Sum_probs=74.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECC--CEEEEEECCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             3899984999988899998738864323468987422567789997489--57999938999999999088999999998
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~iiDtpg~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+++++|.+|+|||||++++++........  ...+.......... ..  ..+.++||||..+           +....
T Consensus         6 ~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~--~~~~~~~~~~~~~~-~~~~~~l~~wDt~G~e~-----------~~~~~   71 (169)
T d3raba_           6 FKILIIGNSSVGKTSFLFRYADDSFTPAFV--STVGIDFKVKTIYR-NDKRIKLQIWDTAGQER-----------YRTIT   71 (169)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCSSCC--CCCSEEEEEEEEEE-TTEEEEEEEEEECCSGG-----------GHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCC--CCCCCCEEEEEEEE-ECCEEEEEEEECCCCHH-----------HHHHH
T ss_conf             899999999919899999997398886514--55553104689986-24369999998998554-----------58899


Q ss_pred             HHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             740699319999996899889889-99999999987040008289999576788998
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        99 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      ..++..+|++++|+|.++.-+... ..+...+.......  .+++++.||+|.....
T Consensus        72 ~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~--~~iivv~nK~D~~~~~  126 (169)
T d3raba_          72 TAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDN--AQVLLVGNKCDMEDER  126 (169)
T ss_dssp             HTTTTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCSC--CEEEEEEECTTCGGGC
T ss_pred             HHHHHCCCEEEEEEECCCCHHHHHHHHHHHHHHCCCCCC--CEEEEEEEECCCCCCC
T ss_conf             999743877899997811043431234433210236775--2488997311422233

>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=99.64  E-value=3e-16  Score=95.50  Aligned_cols=136  Identities=18%  Similarity=0.173  Sum_probs=79.7

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHHC
Q ss_conf             89998499998889999873886432346898742256778999748957999938999999999088999999998740
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  101 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~~  101 (174)
                      .|+++|++|+|||||+|+|++......  ...+.|.........+.....+.++||||+.+...............+..+
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~~~~~--~~~~~T~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~   80 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAKPKIA--DYHFTTLVPNLGMVETDDGRSFVMADLPGLIEGAHQGVGLGHQFLRHIERT   80 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEES--STTSSCCCCCEEEEECSSSCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCEE--CCCCCEEEEEECEEEECCCCEEEEECCCCCCCCCHHHHHHHHHHHHHHHHH
T ss_conf             699989999879999999968997355--589844756545057318968998147875567607789999999999985


Q ss_pred             CCCCEEEEEEEECCC--CCCHHHHHH-HHHHHHHHHHH-HCCCEEEEEECCCCCCCCHHHHHHHHCC
Q ss_conf             699319999996899--889889999-99999987040-0082899995767889980108998502
Q 030630          102 KDGIHAVLVVFSVRS--RFSQEEEAA-LHSLQTLFGKK-IFDYMIVVFTGGDELEDNDETLEDYLGR  164 (174)
Q Consensus       102 ~~~~~~ii~v~~~~~--~~~~~~~~~-~~~l~~~~~~~-~~~~~~iv~tk~D~~~~~~~~~~~~~~~  164 (174)
                          +.++++++...  ......... ........... ..+|+++++||+|..... ..++.+.+.
T Consensus        81 ----~~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~~~-~~~~~~~~~  142 (185)
T d1lnza2          81 ----RVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA-ENLEAFKEK  142 (185)
T ss_dssp             ----CEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH-HHHHHHHHH
T ss_pred             ----HHHHHEEEECCCCCCHHHHHHHHHHHCCCHHHHHCCCCCCHHHCCCCCHHHHH-HHHHHHHHH
T ss_conf             ----54552012103433102333223321010001110378602310124327689-999999997

>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=99.63  E-value=8.7e-16  Score=93.24  Aligned_cols=125  Identities=18%  Similarity=0.177  Sum_probs=77.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEE-CCCEEEEEECCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             38999849999888999987388643234689874225677899974-89579999389999999990889999999987
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .+++++|..|+|||||++.+++...........+.+.  ........ ....+.++||||...+...           +.
T Consensus         7 ~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~--~~~~i~~~~~~~~l~i~Dt~G~e~~~~~-----------~~   73 (194)
T d2bcgy1           7 FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDF--KIKTVELDGKTVKLQIWDTAGQERFRTI-----------TS   73 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCE--EEEEEEETTEEEEEEEECCTTTTTTTCC-----------CG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHCCCCCCCCCCCCEEE--EEEEEEEEEEEEEEEEEECCCCHHHHHH-----------HH
T ss_conf             8999999999098999999961988887288543257--8999999657899999989985435789-----------99


Q ss_pred             HCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCHHHHHH
Q ss_conf             40699319999996899889889-99999999987040008289999576788998010899
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLED  160 (174)
Q Consensus       100 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~  160 (174)
                      ..+..+|++++|+|.++..+... ..+...+.......  .|++++.||.|.........+.
T Consensus        74 ~~~~~a~~~i~v~d~t~~~s~~~~~~~~~~~~~~~~~~--~~iilv~nK~D~~~~~~~~~~~  133 (194)
T d2bcgy1          74 SYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATST--VLKLLVGNKCDLKDKRVVEYDV  133 (194)
T ss_dssp             GGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTT--CEEEEEEECTTCTTTCCSCHHH
T ss_pred             HHHCCCCEEEEEEECCCHHHHHHHHHHHHHHHHCCCCC--CEEEEEEECCCCCCCCCHHHHH
T ss_conf             98325878999996762344566766445566404677--5399997214531023215888

>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=99.62  E-value=1.2e-15  Score=92.61  Aligned_cols=128  Identities=15%  Similarity=0.088  Sum_probs=82.2

Q ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHH
Q ss_conf             99983389998499998889999873886432346898742256778999748957999938999999999088999999
Q 030630           16 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIV   95 (174)
Q Consensus        16 ~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~   95 (174)
                      ...+..+|+++|.+|+|||||++.+.+.......     .|.......... +...+.++|+||.....           
T Consensus        13 ~~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~~~~-----~t~~~~~~~~~~-~~~~~~i~D~~g~~~~~-----------   75 (182)
T d1moza_          13 GSNKELRILILGLDGAGKTTILYRLQIGEVVTTK-----PTIGFNVETLSY-KNLKLNVWDLGGQTSIR-----------   75 (182)
T ss_dssp             TCSSCEEEEEEEETTSSHHHHHHHTCCSEEEEEC-----SSTTCCEEEEEE-TTEEEEEEEEC----CC-----------
T ss_pred             CCCCEEEEEEECCCCCCHHHHHHHHHCCCCCCCC-----CCCCEEEEEEEE-CCEEEEEEECCCCCCCC-----------
T ss_conf             7896689999999999889999887338777643-----306547999963-88999999556420011-----------


Q ss_pred             HHHHHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCHHHHHHHHC
Q ss_conf             998740699319999996899889889-99999999987040008289999576788998010899850
Q 030630           96 KCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLG  163 (174)
Q Consensus        96 ~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~  163 (174)
                      ......+..++++++|+|.++...... ..++..+..... ....|++++.||+|+...  ...++..+
T Consensus        76 ~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~l~~~~~~~~-~~~~piliv~NK~Dl~~~--~~~~~i~~  141 (182)
T d1moza_          76 PYWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEE-LQDAALLVFANKQDQPGA--LSASEVSK  141 (182)
T ss_dssp             TTGGGTTTTEEEEEEEEETTCTTTHHHHHHHHHHHTTSST-TSSCEEEEEEECTTSTTC--CCHHHHHH
T ss_pred             HHHHHHHCCCEEEEEEEEECCCCCCHHHHHHHHHHHHHHC-CCCCCEEEEEEEECCCCC--CCHHHHHH
T ss_conf             4577651344068888641122110258999999877531-477626999996256666--67899999

>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=99.62  E-value=1.2e-15  Score=92.47  Aligned_cols=118  Identities=14%  Similarity=0.137  Sum_probs=77.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECC--CEEEEEECCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             3899984999988899998738864323468987422567789997489--57999938999999999088999999998
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~iiDtpg~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+++++|.+|+|||||++.+++......  .....+.......... ..  ..+.++||||...           +....
T Consensus         6 ~Ki~lvG~~~vGKTsLi~~l~~~~f~~~--~~~~~~~~~~~~~~~~-~~~~~~l~i~Dt~G~e~-----------~~~~~   71 (171)
T d2ew1a1           6 FKIVLIGNAGVGKTCLVRRFTQGLFPPG--QGATIGVDFMIKTVEI-NGEKVKLQIWDTAGQER-----------FRSIT   71 (171)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCCTT--CCCCCSEEEEEEEEEE-TTEEEEEEEEEECCSGG-----------GHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHCCCCCC--CCCCCCCEEEEEEEEE-CCEEEEEEEEECCCCHH-----------HHHHH
T ss_conf             9999999999198999999972999876--4665542378999999-99999999998998543-----------58899


Q ss_pred             HHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             740699319999996899889889-99999999987040008289999576788998
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        99 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      ...+..++++++|+|.++..+... ..+...+.+.....  .|++++.||+|.....
T Consensus        72 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~--~~~ilvgnK~D~~~~~  126 (171)
T d2ew1a1          72 QSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNK--VITVLVGNKIDLAERR  126 (171)
T ss_dssp             GGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECGGGGGGC
T ss_pred             HHHHHCCCEEEEEEECCCCHHHHHHHHHHHHHCCCCCCC--CCEEEEEEECCCCCCC
T ss_conf             999743266888422143200112456655420133463--5689999621422000

>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=99.62  E-value=3.2e-15  Score=90.45  Aligned_cols=118  Identities=15%  Similarity=0.136  Sum_probs=77.9

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHH
Q ss_conf             98338999849999888999987388643234689874225677899974895799993899999999908899999999
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~   97 (174)
                      .+..+++++|.+|+|||||++.+.........     .|.......... ....+.++|+||...           ....
T Consensus        10 ~k~~kIvlvG~~~vGKTSli~rl~~~~~~~~~-----~t~~~~~~~~~~-~~~~~~i~D~~g~~~-----------~~~~   72 (173)
T d1e0sa_          10 NKEMRILMLGLDAAGKTTILYKLKLGQSVTTI-----PTVGFNVETVTY-KNVKFNVWDVGGQDK-----------IRPL   72 (173)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHTTCCCCEEEE-----EETTEEEEEEEE-TTEEEEEEEESCCGG-----------GHHH
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCCCCCCC-----CEEEEEEEEEEC-CCEEEEEECCCCCCH-----------HHHH
T ss_conf             97479999999998789999998448888743-----213256777503-524447862798610-----------1467


Q ss_pred             HHHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             8740699319999996899889889-9999999998704000828999957678899
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        98 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      +...+..++++++|+|.++...... ..++...... ......|++++.||+|+...
T Consensus        73 ~~~~~~~~~~ii~v~D~s~~~~~~~~~~~l~~~~~~-~~~~~~piiiv~NK~Dl~~~  128 (173)
T d1e0sa_          73 WRHYYTGTQGLIFVVDCADRDRIDEARQELHRIIND-REMRDAIILIFANKQDLPDA  128 (173)
T ss_dssp             HGGGTTTCCEEEEEEETTCGGGHHHHHHHHHHHHTS-GGGTTCEEEEEEECTTSTTC
T ss_pred             HHHHHCCCCEEEEEEECCCCHHHHHHHHHHHHHHHH-CCCCCCEEEEEEECCCCCCC
T ss_conf             776512662489998415422178999999987530-14666513112101356100

>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=99.62  E-value=2.1e-16  Score=96.25  Aligned_cols=129  Identities=21%  Similarity=0.266  Sum_probs=81.0

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCC--HHHHHHHHHHHH
Q ss_conf             389998499998889999873886432346898742256778999748957999938999999999--088999999998
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAG--SEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~--~~~~~~~~~~~~   98 (174)
                      .+|+++|.+|+|||||+|+|++....... ...+.+.......... .+..+.++||||+......  ........+..+
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~   78 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNEDRAIVT-DIPGTTRDVISEEIVI-RGILFRIVDTAGVRSETNDLVERLGIERTLQEI   78 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCC-CSSCCSSCSCCEEEEE-TTEEEEEEESSCCCSSCCTTCCCCCHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCEEEE-CCCCCCCCCEEEEEEE-CCEEEEECCCCCCCCCCCCHHHHHHHHHHHHHH
T ss_conf             98999999999999999999589963553-0356321110479975-890588616666125770077889999999999


Q ss_pred             HHCCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCHHHHHHHHCC
Q ss_conf             740699319999996899889889999999999870400082899995767889980108998502
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGR  164 (174)
Q Consensus        99 ~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~  164 (174)
                      ..    +|++++++|++++....+..+...+    .   ..++++++|+.|.....  ..++....
T Consensus        79 ~~----ad~ii~v~d~~~~~~~~~~~~~~~~----~---~~~~i~~~~k~d~~~~~--~~~~~~~~  131 (160)
T d1xzpa2          79 EK----ADIVLFVLDASSPLDEEDRKILERI----K---NKRYLVVINKVDVVEKI--NEEEIKNK  131 (160)
T ss_dssp             HH----CSEEEEEEETTSCCCHHHHHHHHHH----T---TSSEEEEEEECSSCCCC--CHHHHHHH
T ss_pred             HH----CCEEEEEEECCCCCCHHHHHHHHHC----C---CCCCEEEEEECCCCCHH--HHHHHHHH
T ss_conf             86----9999999747888625666653312----2---43100234301343303--46999998

>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=99.61  E-value=3.6e-15  Score=90.20  Aligned_cols=126  Identities=16%  Similarity=0.071  Sum_probs=79.2

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             33899984999988899998738864323468987422567789997489579999389999999990889999999987
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~   99 (174)
                      +.+++++|++|+|||||++.+.+.... ..   ...|.......... ....+.++|+||...           +...+.
T Consensus         2 e~ki~i~G~~~~GKTsLl~~l~~~~~~-~~---~~~T~~~~~~~~~~-~~~~~~i~D~~G~~~-----------~~~~~~   65 (164)
T d1zd9a1           2 EMELTLVGLQYSGKTTFVNVIASGQFN-ED---MIPTVGFNMRKITK-GNVTIKLWDIGGQPR-----------FRSMWE   65 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCC-CS---CCCCCSEEEEEEEE-TTEEEEEEEECCSHH-----------HHTTHH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHCCCCC-CC---CCCCCEEEEEEEEE-EEEEEEEEECCCCCC-----------CCCCCC
T ss_conf             379999999998989999999719788-74---05641024424542-268888840100012-----------112222


Q ss_pred             HCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCHHHHHHHHCC
Q ss_conf             40699319999996899889889-999999999870400082899995767889980108998502
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGR  164 (174)
Q Consensus       100 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~  164 (174)
                      .....++++++++|.++...... ..++..+...... -..|++++.||.|.....  ..++..+.
T Consensus        66 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~-~~~pi~lv~nK~Dl~~~~--~~~~i~~~  128 (164)
T d1zd9a1          66 RYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQL-QGIPVLVLGNKRDLPGAL--DEKELIEK  128 (164)
T ss_dssp             HHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGG-TTCCEEEEEECTTSTTCC--CHHHHHHH
T ss_pred             CCCCCCCHHHCCCCCCCCCCCCHHHHHHHHHHHHHCC-CCCCEEEEEECCCCCHHH--HHHHHHHH
T ss_conf             2222331011013321221110024666665544214-698589998525630125--67889999

>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=99.60  E-value=2.1e-15  Score=91.40  Aligned_cols=117  Identities=22%  Similarity=0.098  Sum_probs=74.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECC--CEEEEEECCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             3899984999988899998738864323468987422567789997489--57999938999999999088999999998
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~iiDtpg~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+|+++|.+|+|||||++.+.+.... .... .....  ....... ++  ..+.++|+||...+.           ...
T Consensus         2 fKi~lvG~~~vGKTsLi~~~~~~~~~-~~~~-~~~~~--~~~~i~~-~~~~~~l~i~D~~g~e~~~-----------~~~   65 (168)
T d2gjsa1           2 YKVLLLGAPGVGKSALARIFGGVEDG-PEAE-AAGHT--YDRSIVV-DGEEASLMVYDIWEQDGGR-----------WLP   65 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC-----------CEE--EEEEEEE-TTEEEEEEEEECC------------------CH
T ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCC-CCCC-EEEEE--ECCEEEC-CCCCCCEEEEECCCCCCCC-----------EEC
T ss_conf             69999898993999999998188567-7588-15665--3001001-2333210342011122200-----------002


Q ss_pred             HHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             740699319999996899889889-99999999987040008289999576788998
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        99 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      ..++..+|++++|+|.+++.+... ..|+..+...... ...|++++.||+|+....
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
T ss_conf             31011111010001342222211212121100002455-531379850365526651

>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=99.60  E-value=2.3e-15  Score=91.14  Aligned_cols=118  Identities=15%  Similarity=0.150  Sum_probs=74.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEE-ECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             3899984999988899998738864323468987422567789997-489579999389999999990889999999987
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .+|+++|.+|+|||||++.+.+.... .... .............. .....+.++||||...           +.....
T Consensus         6 ~KI~lvG~~~vGKTsll~~~~~~~~~-~~~~-~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-----------~~~~~~   72 (174)
T d2bmea1           6 FKFLVIGNAGTGKSCLLHQFIEKKFK-DDSN-HTIGVEFGSKIINVGGKYVKLQIWDTAGQER-----------FRSVTR   72 (174)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCC-TTCC-CCSEEEEEEEEEEETTEEEEEEEEEECCSGG-----------GHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHCCCC-CCCC-CCCCCCEEEEEEEECCCCEEEEEEECCCCHH-----------HHHHHH
T ss_conf             99999999990999999999709888-6555-3310102567997167101588997898333-----------146578


Q ss_pred             HCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             40699319999996899889889-9999999998704000828999957678899
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .+...++++++|+|.++.-+... ..+...+.......  .|++++.||+|....
T Consensus        73 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~piivv~nK~D~~~~  125 (174)
T d2bmea1          73 SYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQN--IVIILCGNKKDLDAD  125 (174)
T ss_dssp             TTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECGGGGGG
T ss_pred             HHHHHCCEEEEEEECCCCHHHHHHHHHHCCCCCCCCCC--EEEEEEEECCCCCCH
T ss_conf             88652779999995554056777765301111246873--189999703443210

>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=99.59  E-value=2.7e-15  Score=90.79  Aligned_cols=128  Identities=18%  Similarity=0.220  Sum_probs=86.1

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHC---CCCC-------------CC-------------CCCCCCCCEEEEEEEEEEECC
Q ss_conf             833899984999988899998738---8643-------------23-------------468987422567789997489
Q 030630           19 GERTVVLVGRTGNGKSATGNSILG---RRAF-------------KS-------------RASSSGVTSTCEMQRTVLKDG   69 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~---~~~~-------------~~-------------~~~~~~~t~~~~~~~~~~~~~   69 (174)
                      +...|+++|+.++|||||+..|+-   ....             ..             .....+.|.......+.+ .+
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
T ss_conf             85479999478998999999999981896688999999999983687642000035302432240012442047624-99


Q ss_pred             CEEEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCC-------CCHHHHHHHHHHHHHHHHHHCCCEE
Q ss_conf             579999389999999990889999999987406993199999968998-------8988999999999987040008289
Q 030630           70 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSR-------FSQEEEAALHSLQTLFGKKIFDYMI  142 (174)
Q Consensus        70 ~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~-------~~~~~~~~~~~l~~~~~~~~~~~~~  142 (174)
                      ..+.++||||..+           +..-+......+|++++|+++.++       ...++++.+...... +-   ++++
T Consensus        84 ~~i~iiDtPGH~d-----------f~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~~~~~~~-gv---~~ii  148 (239)
T d1f60a3          84 YQVTVIDAPGHRD-----------FIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFTL-GV---RQLI  148 (239)
T ss_dssp             EEEEEEECCCCTT-----------HHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHHT-TC---CEEE
T ss_pred             EEEEEEECCCCHH-----------HHHHHHHHHHHHCEEEEEEECCCCCCCCCCCCHHHHHHHHHHHHHC-CC---CEEE
T ss_conf             8999998989688-----------8999999999758899999899885414557317699999999984-99---8089


Q ss_pred             EEEECCCCCCCCHHHHHHHH
Q ss_conf             99957678899801089985
Q 030630          143 VVFTGGDELEDNDETLEDYL  162 (174)
Q Consensus       143 iv~tk~D~~~~~~~~~~~~~  162 (174)
                      +++||+|....+...+++..
T Consensus       149 v~iNKmD~~~~d~~~~~~~~  168 (239)
T d1f60a3         149 VAVNKMDSVKWDESRFQEIV  168 (239)
T ss_dssp             EEEECGGGGTTCHHHHHHHH
T ss_pred             EEEECCCCCCCCHHHHHHHH
T ss_conf             99988878888889999999

>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=99.58  E-value=4.7e-15  Score=89.64  Aligned_cols=119  Identities=23%  Similarity=0.182  Sum_probs=73.9

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEE-ECCCEEEEEECCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             33899984999988899998738864323468987422567789997-48957999938999999999088999999998
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~   98 (174)
                      ..+++++|.+|+|||||++++++.........+.+.....  ..... .....+.++||+|..+......          
T Consensus         2 ~iKv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~--~~~~~~~~~~~~~i~d~~g~~~~~~~~~----------   69 (164)
T d1z2aa1           2 AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLE--RQIQVNDEDVRLMLWDTAGQEEFDAITK----------   69 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEE--EEEEETTEEEEEEEECCTTGGGTTCCCH----------
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCE--EEEEECCCEEEEEEECCCCCCCHHHHHH----------
T ss_conf             4999999989959899999998298886435432122110--1011068403565421378632103245----------


Q ss_pred             HHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             740699319999996899889889-99999999987040008289999576788998
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        99 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                       .....++++++|+|.++..+... ..|++.+....+ .  .|+++|.||+|+....
T Consensus        70 -~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~--~~iilVgnK~Dl~~~~  122 (164)
T d1z2aa1          70 -AYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVG-D--IPTALVQNKIDLLDDS  122 (164)
T ss_dssp             -HHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHC-S--CCEEEEEECGGGGGGC
T ss_pred             -HHHCCCCEEEEEEECCCHHHHHHCCCCCCCCCCCCC-C--CEEEEEECCCCCCCCE
T ss_conf             -463068669999942322444302234332222389-8--3277763257753444

>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=99.58  E-value=8.8e-15  Score=88.30  Aligned_cols=119  Identities=13%  Similarity=0.132  Sum_probs=76.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEE-CCCEEEEEECCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             38999849999888999987388643234689874225677899974-89579999389999999990889999999987
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .+|+++|.+|+|||||++.+++............  ........... ....+.++|++|...           ......
T Consensus         4 fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~--~~~~~~~~~~~~~~~~~~~~d~~g~~~-----------~~~~~~   70 (167)
T d1z08a1           4 FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLG--ASFLTKKLNIGGKRVNLAIWDTAGQER-----------FHALGP   70 (167)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCS--CEEEEEEEESSSCEEEEEEEECCCC------------------C
T ss_pred             EEEEEECCCCCCHHHHHHHHHHCCCCCCCCCCCC--CCHHEEEECCCCCCCEEEEECCCCCCE-----------ECCCCH
T ss_conf             7999999999398999999982998864454200--100001101378531254402688604-----------510350


Q ss_pred             HCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             40699319999996899889889-99999999987040008289999576788998
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus       100 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      ..+..+|++++|+|.+++-+... ..+++.+.......  .+++++.||.|+....
T Consensus        71 ~~~~~~~~~i~v~d~~~~~Sf~~~~~~~~~~~~~~~~~--~~~ilvgnK~Dl~~~~  124 (167)
T d1z08a1          71 IYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNE--ICLCIVGNKIDLEKER  124 (167)
T ss_dssp             CSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGGG--SEEEEEEECGGGGGGC
T ss_pred             HHCCCCCEEEEEEECCCHHHHHHHHHHHHHCCCCCCCC--CCEEEECCCCCCCCCC
T ss_conf             00038966699980995567775543322001111233--2124523210201012

>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=99.58  E-value=1.1e-14  Score=87.82  Aligned_cols=120  Identities=22%  Similarity=0.295  Sum_probs=81.1

Q ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHCCCCCCC--------------CCCCCCCCEEEEEEEEEEE---------------
Q ss_conf             99833899984999988899998738864323--------------4689874225677899974---------------
Q 030630           17 SNGERTVVLVGRTGNGKSATGNSILGRRAFKS--------------RASSSGVTSTCEMQRTVLK---------------   67 (174)
Q Consensus        17 ~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~--------------~~~~~~~t~~~~~~~~~~~---------------   67 (174)
                      ...-+.|+++|+.++|||||+.+|+.......              .+...+.|.........+.               
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
T ss_conf             31674899996888869999999999779866355632322446456775683696787899942676554201002356


Q ss_pred             CCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEEC
Q ss_conf             89579999389999999990889999999987406993199999968998898899999999998704000828999957
Q 030630           68 DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTG  147 (174)
Q Consensus        68 ~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk  147 (174)
                      +...+.++||||..++.       .+....++.+    |++++|+|+.++....+...++......     .|.++++||
T Consensus        94 ~~~~inliDtPGh~dF~-------~ev~~al~~~----D~allVVda~eGv~~qT~~~~~~a~~~~-----~p~i~viNK  157 (341)
T d1n0ua2          94 NSFLINLIDSPGHVDFS-------SEVTAALRVT----DGALVVVDTIEGVCVQTETVLRQALGER-----IKPVVVINK  157 (341)
T ss_dssp             SEEEEEEECCCCCCSSC-------HHHHHHHHTC----SEEEEEEETTTBSCHHHHHHHHHHHHTT-----CEEEEEEEC
T ss_pred             CCEEEEEECCCCCHHHH-------HHHHHHHHHC----CCEEEEEECCCCCCHHHHHHHHHHHHCC-----CCEEEEEEC
T ss_conf             65379997378738899-------9999887523----7249998656682046999999998769-----986999877


Q ss_pred             CCCCC
Q ss_conf             67889
Q 030630          148 GDELE  152 (174)
Q Consensus       148 ~D~~~  152 (174)
                      +|...
T Consensus       158 iDr~~  162 (341)
T d1n0ua2         158 VDRAL  162 (341)
T ss_dssp             HHHHH
T ss_pred             CCCCC
T ss_conf             26555

>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=99.57  E-value=3.9e-15  Score=90.03  Aligned_cols=121  Identities=10%  Similarity=0.132  Sum_probs=72.2

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             33899984999988899998738864323468987422567789997489579999389999999990889999999987
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~   99 (174)
                      +++|+++|++|+|||||+|.|++....      ...|.........+ .+..+.++|+||.....   ..+.......  
T Consensus         3 ~p~V~lvG~~n~GKTSLln~l~~~~~~------~~tt~~~~~~~~~~-~~~~~~l~D~~g~~~~~---~~~~~~~~~~--   70 (209)
T d1nrjb_           3 QPSIIIAGPQNSGKTSLLTLLTTDSVR------PTVVSQEPLSAADY-DGSGVTLVDFPGHVKLR---YKLSDYLKTR--   70 (209)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHSSCC------CBCCCSSCEEETTG-GGSSCEEEECCCCGGGT---HHHHHHHHHH--
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCCC------CEEEECCEEEEEEE-CCEEEEEEECCCCCCHH---HHHHHHHHHH--
T ss_conf             889999999998899999999679999------82776242899985-88489998525553213---6799999887--


Q ss_pred             HCCCCCEEEEEEEECCCCCC--HHHHHHHHHHHHHHHH--HHCCCEEEEEECCCCCCCC
Q ss_conf             40699319999996899889--8899999999998704--0008289999576788998
Q 030630          100 MAKDGIHAVLVVFSVRSRFS--QEEEAALHSLQTLFGK--KIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus       100 ~~~~~~~~ii~v~~~~~~~~--~~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~~~~  154 (174)
                        ....+.++++++......  .....++..+......  ....|+++++||+|.....
T Consensus        71 --~~~~~~~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~~~  127 (209)
T d1nrjb_          71 --AKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTAR  127 (209)
T ss_dssp             --GGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCC
T ss_pred             --HHHCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEEECCCCCC
T ss_conf             --641245624899734623399999999999999999874369869999800345567

>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=99.57  E-value=7.4e-15  Score=88.68  Aligned_cols=117  Identities=20%  Similarity=0.198  Sum_probs=75.6

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECC--CEEEEEECCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             3899984999988899998738864323468987422567789997489--57999938999999999088999999998
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~iiDtpg~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+++++|.+|+|||||++.+.+.......  ....+.......... ++  ..+.++|+||..++.....          
T Consensus         5 ~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~--~~~~~~~~~~~~~~~-~~~~~~~~i~d~~g~e~~~~~~~----------   71 (175)
T d2f9la1           5 FKVVLIGDSGVGKSNLLSRFTRNEFNLES--KSTIGVEFATRSIQV-DGKTIKAQIWDTAGQERYRRITS----------   71 (175)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSCCCC-----CCCSCEEEEEEEEE-TTEEEEEEEEECSSGGGTTCCCH----------
T ss_pred             EEEEEECCCCCCHHHHHHHHHHCCCCCCC--CCCCCCEEEEEEEEE-CCEEEEEEECCCCCCHHHHHHHH----------
T ss_conf             89999999990989999999829988765--655321035579999-99888998425687377888889----------


Q ss_pred             HHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             740699319999996899889889-9999999998704000828999957678899
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                       .....++++++|+|.++.-+... ..++..+.......  .|+++|.||+|....
T Consensus        72 -~~~~~~~~~i~v~d~~~~~S~~~~~~~~~~i~~~~~~~--~piilvgnK~Dl~~~  124 (175)
T d2f9la1          72 -AYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSN--IVIMLVGNKSDLRHL  124 (175)
T ss_dssp             -HHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECTTCGGG
T ss_pred             -HHHHCCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCCC--CCEEEEEEEECCCCC
T ss_conf             -77540675899997888654034788999999845899--839999765154002

>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=99.57  E-value=4.3e-15  Score=89.82  Aligned_cols=122  Identities=17%  Similarity=0.123  Sum_probs=73.3

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEE-ECCCEEEEEECCCCCCCCCCHHHHHHHHHH
Q ss_conf             9833899984999988899998738864323468987422567789997-489579999389999999990889999999
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   96 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~   96 (174)
                      .+..+|+++|.+|+|||||++.+..............  .......... .....+.++|++|.....           .
T Consensus         2 ~k~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~--~~~~~~~~~~~~~~~~~~i~d~~g~~~~~-----------~   68 (167)
T d1z0ja1           2 LRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIG--ASFMTKTVQYQNELHKFLIWDTAGLERFR-----------A   68 (167)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCS--EEEEEEEEEETTEEEEEEEEEECCSGGGG-----------G
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHHHCCCCCCCCCCCC--CCCCCCCCCCCCCCCCEEEEECCCCHHHH-----------H
T ss_conf             7453899999899499999999973988864465300--12112211123332100353047741245-----------7


Q ss_pred             HHHHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             98740699319999996899889889-99999999987040008289999576788998
Q 030630           97 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        97 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      ........++++++++|.+++-+... ..+...+.......  .|+++|.||+|+....
T Consensus        69 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~~iilvgnK~Dl~~~~  125 (167)
T d1z0ja1          69 LAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPS--IVVAIAGNKCDLTDVR  125 (167)
T ss_dssp             GTHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTT--SEEEEEEECTTCGGGC
T ss_pred             HHHHHHHHCCCEEEEEEECHHHHHHHHHHHHHHHHHCCCCC--CEEEEECCCCHHCCCC
T ss_conf             77998753054589863010245556777655544036886--2389962311010023

>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=99.56  E-value=5.6e-15  Score=89.27  Aligned_cols=125  Identities=15%  Similarity=0.138  Sum_probs=78.0

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEE-CCCEEEEEECCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             38999849999888999987388643234689874225677899974-89579999389999999990889999999987
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .+|+++|..|+|||||++++++.... .. ................. ....+.++|++|....           .....
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~-~~-~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~-----------~~~~~   67 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFD-NT-YQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERF-----------RSLIP   67 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCC-SS-CCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGG-----------GGGHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHCCCC-CC-CCCCEEEECCCEEECCCCCCEEEEECCCCCCCHH-----------CCCHH
T ss_conf             98999998990989999999849998-76-3662231000001105997235654256885110-----------00438


Q ss_pred             HCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCHHHHHH
Q ss_conf             40699319999996899889889-99999999987040008289999576788998010899
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLED  160 (174)
Q Consensus       100 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~  160 (174)
                      ..+..++++++++|.++..+... ..++..+.......  .|+++|.||.|+........++
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
T ss_conf             88616644999606554313266676689999850899--6499973103404544566889

>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=99.56  E-value=6.7e-15  Score=88.89  Aligned_cols=122  Identities=14%  Similarity=0.072  Sum_probs=75.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             38999849999888999987388643234689874225677899974895799993899999999908899999999874
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .+|+++|.+|+|||||++.+++...........+.+...............+.++||||...           .......
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
T ss_conf             89999999996989999999709888763765453101234640576312012210387201-----------2467788


Q ss_pred             CCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHH--HCCCEEEEEECCCCCCC
Q ss_conf             0699319999996899889889-99999999987040--00828999957678899
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKK--IFDYMIVVFTGGDELED  153 (174)
Q Consensus       101 ~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~  153 (174)
                      ....++++++++|.++..+... ..|++.+.......  ...|++++.||+|+...
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
T ss_conf             75215548998500123332113320115666641013566867998124220122

>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=99.56  E-value=5.1e-15  Score=89.47  Aligned_cols=118  Identities=15%  Similarity=0.204  Sum_probs=73.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECC--CEEEEEECCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             3899984999988899998738864323468987422567789997489--57999938999999999088999999998
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~iiDtpg~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+++++|.+|+|||||++++++.......  ....+.......... .+  ..+.++|+||.....           ...
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~~~~~~~--~~~~~~~~~~~~~~~-~~~~~~l~i~D~~g~~~~~-----------~~~   70 (166)
T d1z0fa1           5 FKYIIIGDMGVGKSCLLHQFTEKKFMADC--PHTIGVEFGTRIIEV-SGQKIKLQIWDTAGQERFR-----------AVT   70 (166)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCSSC--TTSCCCCEEEEEEEE-TTEEEEEEEEECTTGGGTC-----------HHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHCCCCCCC--CCCCCCCCEEEEEEE-CCEEEEEEEECCCCCHHHH-----------HHH
T ss_conf             89999999994989999999729988756--544343212579998-9999988871567733677-----------888


Q ss_pred             HHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             740699319999996899889889-99999999987040008289999576788998
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        99 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      ......+|++++|+|.++.-+... ..++..+.+.....  .|++++.||.|+....
T Consensus        71 ~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~--~~iilvgnK~Dl~~~~  125 (166)
T d1z0fa1          71 RSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPN--TVIILIGNKADLEAQR  125 (166)
T ss_dssp             HHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECTTCGGGC
T ss_pred             HHHHCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHCCCC--CEEEEECCCCCCHHHC
T ss_conf             887237858999740675677777888899998614565--2399980365653210

>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=99.56  E-value=2.6e-15  Score=90.93  Aligned_cols=123  Identities=14%  Similarity=0.155  Sum_probs=77.8

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECC--CEEEEEECCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             3899984999988899998738864323468987422567789997489--57999938999999999088999999998
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~iiDtpg~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+|+++|.+|+|||||++++++........  ...+.......... ++  ..+.++||||...           .....
T Consensus         7 ~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~--~t~~~~~~~~~~~~-~~~~~~l~i~D~~G~e~-----------~~~~~   72 (173)
T d2fu5c1           7 FKLLLIGDSGVGKTCVLFRFSEDAFNSTFI--STIGIDFKIRTIEL-DGKRIKLQIWDTAGQER-----------FRTIT   72 (173)
T ss_dssp             EEEEEECCCCC----------------CHH--HHHCEEEEEEEEEE-TTEEEEEEEEEC--------------------C
T ss_pred             EEEEEECCCCCCHHHHHHHHHHCCCCCCCC--CCCCCEEEEEEEEE-CCEEEEEEEEECCCCHH-----------HHHHH
T ss_conf             999999999949999999997098887547--64541278999999-99999999998998564-----------58899


Q ss_pred             HHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCHHHHH
Q ss_conf             740699319999996899889889-9999999998704000828999957678899801089
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLE  159 (174)
Q Consensus        99 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~  159 (174)
                      ..++..++++++|+|.+++.+... ..+.+.+.......  .+++++.||.|.........+
T Consensus        73 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~~iilv~~k~D~~~~~~~~~~  132 (173)
T d2fu5c1          73 TAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASAD--VEKMILGNKCDVNDKRQVSKE  132 (173)
T ss_dssp             CTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTT--CEEEEEEEC--CCSCCCSCHH
T ss_pred             HHHCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHCCCC--CEEEEEEECCCCHHHCCCHHH
T ss_conf             985269989999998987144899988887765330478--529999821452000130799

>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=99.56  E-value=1.6e-14  Score=87.04  Aligned_cols=118  Identities=22%  Similarity=0.180  Sum_probs=72.9

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEE-EEEEEECC--CEEEEEECCCCCCCCCCHHHHHHHHHH
Q ss_conf             338999849999888999987388643234689874225677-89997489--579999389999999990889999999
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM-QRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVK   96 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~--~~~~iiDtpg~~~~~~~~~~~~~~~~~   96 (174)
                      ..+|+++|.+|+|||||++++++.... ..   ...|..... ..... ..  ..+.++|++|.....           .
T Consensus         2 ~~Ki~viG~~~vGKTsLi~r~~~~~f~-~~---~~~T~~~~~~~~~~~-~~~~~~l~~~d~~g~~~~~-----------~   65 (171)
T d2erxa1           2 DYRVAVFGAGGVGKSSLVLRFVKGTFR-ES---YIPTVEDTYRQVISC-DKSICTLQITDTTGSHQFP-----------A   65 (171)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCC-SS---CCCCSCEEEEEEEEE-TTEEEEEEEEECCSCSSCH-----------H
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHCCCC-CC---CCCCEEECCCCCEEE-CCCCCEECCCCCCCCCCCC-----------C
T ss_conf             718999998997989999999709998-76---376133101121000-2200000111235652111-----------0


Q ss_pred             HHHHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             98740699319999996899889889-9999999998704000828999957678899
Q 030630           97 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        97 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .....+..++++++|+|.+++-+... ..+...+.+..+.....|+++|.||+|+...
T Consensus        66 ~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~  123 (171)
T d2erxa1          66 MQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPS  123 (171)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGG
T ss_pred             CCCCCCCCEEEEEEEEECCCCCCHHCCCCHHHHHHHHHCCCCCCCEEEEEECCCCCCC
T ss_conf             1243433203899972022211001021023433334046789868999606653223

>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=99.55  E-value=8.2e-15  Score=88.45  Aligned_cols=125  Identities=18%  Similarity=0.173  Sum_probs=75.9

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEE-CCCEEEEEECCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             338999849999888999987388643234689874225677899974-8957999938999999999088999999998
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~   98 (174)
                      ..+|+++|.+|+|||||++.++............+  ........... ....+.++|++|....           ....
T Consensus         6 ~~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~--~~~~~~~~~~~~~~~~~~~~d~~g~~~~-----------~~~~   72 (170)
T d1r2qa_           6 QFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIG--AAFLTQTVCLDDTTVKFEIWDTAGQERY-----------HSLA   72 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSS--EEEEEEEEEETTEEEEEEEEEECCSGGG-----------GGGH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHCCCCCCCCCCCC--CCCCCCEEECCCEEEEEEECCCCCCHHH-----------HHHH
T ss_conf             88999999999498999999985988854344202--2000000000214787774157873110-----------0547


Q ss_pred             HHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCHHHHH
Q ss_conf             740699319999996899889889-9999999998704000828999957678899801089
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLE  159 (174)
Q Consensus        99 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~  159 (174)
                      ...+..++++++++|.++.-+... ..+...+.+.....  .|++++.||+|+........+
T Consensus        73 ~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~--~~iilvgnK~Dl~~~~~v~~e  132 (170)
T d1r2qa_          73 PMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN--IVIALSGNKADLANKRAVDFQ  132 (170)
T ss_dssp             HHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTT--CEEEEEEECGGGGGGCCSCHH
T ss_pred             HHHHHCCCEEEEEECCCHHHHHHHHHHHHHHHHHCCCCC--CEEEEECCCCCCCCCCCCCHH
T ss_conf             998608665899732504667787888764332036898--459863241243223456177

>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=99.55  E-value=4e-14  Score=85.09  Aligned_cols=124  Identities=19%  Similarity=0.180  Sum_probs=78.3

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEE-EEEEEECC--CEEEEEECCCCCCCCCCHHHHHHHHH
Q ss_conf             8338999849999888999987388643234689874225677-89997489--57999938999999999088999999
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM-QRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIV   95 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~--~~~~iiDtpg~~~~~~~~~~~~~~~~   95 (174)
                      +..+|+++|.+|+|||||++++++.... ...   ..|..... ..... ++  ..+.++|++|...+.....       
T Consensus         3 k~~Kv~liG~~~vGKTsLl~~~~~~~f~-~~~---~~t~~~~~~~~~~~-~~~~~~l~i~d~~g~~~~~~~~~-------   70 (167)
T d1xtqa1           3 KSRKIAILGYRSVGKSSLTIQFVEGQFV-DSY---DPTIENTFTKLITV-NGQEYHLQLVDTAGQDEYSIFPQ-------   70 (167)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSCCC-SCC---CSSCCEEEEEEEEE-TTEEEEEEEEECCCCCTTCCCCG-------
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHCCCC-CCC---CCCEECCCCEEEEC-CCEEEEEEECCCCCCCCCCCCCC-------
T ss_conf             6338999998992989999999719888-544---75421131038831-76798763011246422223432-------


Q ss_pred             HHHHHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCHHHHH
Q ss_conf             998740699319999996899889889-9999999998704000828999957678899801089
Q 030630           96 KCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLE  159 (174)
Q Consensus        96 ~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~  159 (174)
                          ..+..+|++++|+|.+++-+... ..|+..+.+..+.. ..|++++.||+|+........+
T Consensus        71 ----~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~-~~piilvgnK~Dl~~~r~v~~~  130 (167)
T d1xtqa1          71 ----TYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKV-QIPIMLVGNKKDLHMERVISYE  130 (167)
T ss_dssp             ----GGTSSCCEEEEEEETTCHHHHHHHHHHHHHHHHHHCSS-CCCEEEEEECTTCGGGCCSCHH
T ss_pred             ----HHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHCCCCC-CCCEEEECCCCCCCCCCCHHHH
T ss_conf             ----12232221100102210233455553101221000134-5440450533353322211589

>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=99.54  E-value=2.4e-14  Score=86.12  Aligned_cols=122  Identities=17%  Similarity=0.103  Sum_probs=75.3

Q ss_pred             CCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEE-CCCEEEEEECCCCCCCCCCHHHHHHH
Q ss_conf             99998338999849999888999987388643234689874225677899974-89579999389999999990889999
Q 030630           15 SPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKE   93 (174)
Q Consensus        15 ~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~iiDtpg~~~~~~~~~~~~~~   93 (174)
                      .|.....+|+++|.+|+|||||++.++.... .....  +............. ....+.++|++|...+...       
T Consensus         4 ~~~~~~~Ki~lvG~~~vGKTsLi~r~~~~~f-~~~~~--~Ti~~~~~~~~~~~~~~~~l~i~D~~g~e~~~~~-------   73 (185)
T d2atxa1           4 GPGALMLKCVVVGDGAVGKTCLLMSYANDAF-PEEYV--PTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDRL-------   73 (185)
T ss_dssp             CCEEEEEEEEEEECTTSSHHHHHHHHHHSSC-CCSCC--CSSCCCEEEEEESSSCEEEEEEECCCCSSSSTTT-------
T ss_pred             CCCCCEEEEEEECCCCCCHHHHHHHHHHCCC-CCCCC--CCEEEEEEEEEEECCCEEEEECCCCCCCCHHHHH-------
T ss_conf             9987189999999999899999999964999-87677--7134324689850795587520466542000011-------


Q ss_pred             HHHHHHHCCCCCEEEEEEEECCCCCCHHH--HHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             99998740699319999996899889889--9999999998704000828999957678899
Q 030630           94 IVKCIGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        94 ~~~~~~~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                          ....+..+|++++|+|.+++-+...  ..+...++.. ...  .|+++|.||+|+...
T Consensus        74 ----~~~~~~~a~~~ilv~d~t~~~Sf~~~~~~~~~~~~~~-~~~--~~~ilvgnK~Dl~~~  128 (185)
T d2atxa1          74 ----RPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY-APN--VPFLLIGTQIDLRDD  128 (185)
T ss_dssp             ----GGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-STT--CCEEEEEECTTSTTC
T ss_pred             ----HHHCCCCCCEEEECCCCCHHHHHHHHHHHHHHHHHHC-CCC--CCEEEEEECCCCCCC
T ss_conf             ----2313442111211124635788887889999999960-788--870676424433221

>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=99.54  E-value=2.1e-14  Score=86.42  Aligned_cols=116  Identities=19%  Similarity=0.112  Sum_probs=74.0

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEE-EEEEEEEE-ECCCEEEEEECCCCCCCCCCHHHHHHHHHHH
Q ss_conf             338999849999888999987388643234689874225-67789997-4895799993899999999908899999999
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTST-CEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~-~~~~~~~~-~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~   97 (174)
                      ..+++++|.+|+|||||++.++..... ..   ...|.. ........ .....+.++|++|....           ...
T Consensus         2 r~KivvvG~~~vGKTsLi~~~~~~~f~-~~---~~~t~~~~~~~~~~~~~~~~~l~i~D~~g~~~~-----------~~~   66 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVNSKDQFP-EV---YVPTVFENYVADIEVDGKQVELALWDTAGLEDY-----------DRL   66 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCC-SS---CCCCSEEEEEEEEEETTEEEEEEEEEECCSGGG-----------TTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHCCCC-CC---CCCCEEEECCCCCCCCCCCEEEECCCCCCCCHH-----------CCC
T ss_conf             479999998993889999999719998-87---288224411221003542024502456764000-----------003


Q ss_pred             HHHCCCCCEEEEEEEECCCCCCHH--HHHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             874069931999999689988988--99999999998704000828999957678899
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQE--EEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        98 ~~~~~~~~~~ii~v~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ....+..+|++++|+|.+++-+..  ...+...+... .+.  .|++++.||+|....
T Consensus        67 ~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~-~~~--~piilvgnK~Dl~~~  121 (177)
T d1kmqa_          67 RPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF-CPN--VPIILVGNKKDLRND  121 (177)
T ss_dssp             GGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-STT--SCEEEEEECGGGTTC
T ss_pred             CHHHCCCCHHHHHHCCCCHHHHHHHHHHHHHHHHHHH-CCC--CCEEEEEECCCCCCH
T ss_conf             0221031004434202102578887888779999973-899--756886632566421

>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=99.54  E-value=3.7e-14  Score=85.21  Aligned_cols=118  Identities=18%  Similarity=0.158  Sum_probs=69.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEE--ECCCEEEEEECCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             3899984999988899998738864323468987422567789997--48957999938999999999088999999998
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL--KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~   98 (174)
                      +.|+++|++|+|||||+|++++...... .  .  +.........+  .....+.++|+||...       ..   ...+
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~~~~~~-~--~--t~~~~~~~~~~~~~~~~~~~~~d~~g~~~-------~~---~~~~   65 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTGQYRDT-Q--T--SITDSSAIYKVNNNRGNSLTLIDLPGHES-------LR---FQLL   65 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSCCCCB-C--C--CCSCEEEEEECSSTTCCEEEEEECCCCHH-------HH---HHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCCC-C--C--CEEEEEEEEEEEEEEEEEEEEEECCCCCC-------CC---CHHH
T ss_conf             9899999999898999999980998764-2--8--70278999999645435444420211234-------33---0156


Q ss_pred             HHCCCCCEEEEEEEECCCCCCHH--HHHHH-HHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             74069931999999689988988--99999-999998704000828999957678899
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQE--EEAAL-HSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~ii~v~~~~~~~~~~--~~~~~-~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ......++.+++|+|.++.....  ...++ +.+..........|++++.||+|+...
T Consensus        66 ~~~~~~~~~~i~v~D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a  123 (207)
T d2fh5b1          66 DRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMA  123 (207)
T ss_dssp             HHHGGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTC
T ss_pred             HHHHHHCCCCCEEEECCCCCCCHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCC
T ss_conf             6655430556347776665345999999999999768875158947999988546788

>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=99.54  E-value=8.4e-15  Score=88.41  Aligned_cols=122  Identities=22%  Similarity=0.265  Sum_probs=75.0

Q ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECC--CEEEEEECCCCCCCCCCHHHHHHH
Q ss_conf             999833899984999988899998738864323468987422567789997489--579999389999999990889999
Q 030630           16 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKE   93 (174)
Q Consensus        16 ~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~iiDtpg~~~~~~~~~~~~~~   93 (174)
                      |+.+..+|+++|.+|+|||||++.++..... ......  ........... ++  ..+.++|++|..+......     
T Consensus         2 ~~~~~~Kv~lvG~~~vGKTsLi~r~~~~~f~-~~~~~t--~~~~~~~~~~~-~~~~~~l~~~d~~g~~~~~~~~~-----   72 (173)
T d2fn4a1           2 PPSETHKLVVVGGGGVGKSALTIQFIQSYFV-SDYDPT--IEDSYTKICSV-DGIPARLDILDTAGQEEFGAMRE-----   72 (173)
T ss_dssp             CSSCEEEEEEEECTTSSHHHHHHHHHHSSCC-SSCCTT--CCEEEEEEEEE-TTEEEEEEEEECCCTTTTSCCHH-----
T ss_pred             CCCCEEEEEEECCCCCCHHHHHHHHHHCCCC-CCCCCC--CCCCEEEEECC-CCEEEEEECCCCCCCCCCCCCCC-----
T ss_conf             9887279999997996989999999739997-100344--11100257503-98330010121245532234521-----


Q ss_pred             HHHHHHHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             99998740699319999996899889889-9999999998704000828999957678899
Q 030630           94 IVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        94 ~~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                        .    .+..++++++|+|.++..+... ..|...+....... ..|+++|.||+|+...
T Consensus        73 --~----~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~-~~p~ilvgnK~Dl~~~  126 (173)
T d2fn4a1          73 --Q----YMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRD-DFPVVLVGNKADLESQ  126 (173)
T ss_dssp             --H----HHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTSS-CCCEEEEEECGGGGGG
T ss_pred             --H----HHCCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHCCC-CCCEEEEEEEECHHHC
T ss_conf             --1----2012003456401144566202231247999872567-8865999984060221

>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=99.53  E-value=4.6e-15  Score=89.67  Aligned_cols=116  Identities=21%  Similarity=0.145  Sum_probs=74.2

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEE---CCCEEEEEECCCCCCCCCCHHHHHHHHHH
Q ss_conf             338999849999888999987388643234689874225677899974---89579999389999999990889999999
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK---DGQVVNVIDTPGLFDFSAGSEFVGKEIVK   96 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~---~~~~~~iiDtpg~~~~~~~~~~~~~~~~~   96 (174)
                      ..+++++|.+|+|||||+++++.......    ...|...........   ....+.++|++|....           ..
T Consensus         3 ~~Ki~vvG~~~vGKTsli~~~~~~~f~~~----~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~~~-----------~~   67 (170)
T d1i2ma_           3 QFKLVLVGDGGTGKTTFVKRHLTGEFEKK----YVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKF-----------GG   67 (170)
T ss_dssp             EEEEEEEECTTSSHHHHHHTTC-----CC----EEEETTEEEEEEEECBTTCCEEEEEEECTTHHHH-----------SS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHCCCCCC----CCCCEECCCCCCCCCCCCCCCCCCCCCCCCCCCC-----------CE
T ss_conf             68999999999088999999984988854----4653001100011222233322211123465330-----------00


Q ss_pred             HHHHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             98740699319999996899889889-9999999998704000828999957678899
Q 030630           97 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        97 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .....+..++++++|+|.+++-+... ..++..+.... +.  .|++++.||+|+...
T Consensus        68 ~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~-~~--~piilvgnK~Dl~~~  122 (170)
T d1i2ma_          68 LRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC-EN--IPIVLCGNKVDIKDR  122 (170)
T ss_dssp             CGGGGTTTCCEEEEEEETTSGGGGTTHHHHHHHHHHHH-CS--CCEEEEEECCCCSCS
T ss_pred             ECCHHCCCCCCHHHCCCCCCCCCCCHHHHHHHHHHHCC-CC--CCEEEECCHHHHHHH
T ss_conf             02001133211000113221101002677788876404-79--723534465545551

>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=99.53  E-value=2.2e-13  Score=81.40  Aligned_cols=122  Identities=16%  Similarity=0.184  Sum_probs=75.4

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCC------CCCCEEEEEEEE----------------------EEECC
Q ss_conf             98338999849999888999987388643234689------874225677899----------------------97489
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASS------SGVTSTCEMQRT----------------------VLKDG   69 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~------~~~t~~~~~~~~----------------------~~~~~   69 (174)
                      .+...++++|+.++|||||++.|++..........      ............                      .....
T Consensus         6 ~p~ini~iiGhVd~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (205)
T d2qn6a3           6 QPEVNIGVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFL   85 (205)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHSCCC--------------CEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEE
T ss_pred             CCCEEEEEEECCCCCHHHHHHHHHHHHCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHEEEECCCCEEEEEECCCCCE
T ss_conf             99708999972488699999999704121228898760221036134335656654332025411342344331025643


Q ss_pred             CEEEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCC-CHHHHHHHHHHHHHHHHHHCCCEEEEEECC
Q ss_conf             5799993899999999908899999999874069931999999689988-988999999999987040008289999576
Q 030630           70 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRF-SQEEEAALHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus        70 ~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      +.+.++|+||..+           +......+...+|.+++++++.+++ ...+++.+..+... +.   +++++++||+
T Consensus        86 r~~~iiD~PGH~d-----------f~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~-~i---~~iIV~vNK~  150 (205)
T d2qn6a3          86 RRISFIDAPGHEV-----------LMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGII-GV---KNLIIVQNKV  150 (205)
T ss_dssp             EEEEEEECSCHHH-----------HHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHT-TC---CCEEEEEECG
T ss_pred             EEEEEECCCHHHH-----------HHHHHHCCEECCCCCCCCCCCCCCCCCHHHHHHHHHHHHC-CC---CEEEECCCCC
T ss_conf             7889842613888-----------8764014250266442000001401332678999999981-98---3265414567


Q ss_pred             CCCCCC
Q ss_conf             788998
Q 030630          149 DELEDN  154 (174)
Q Consensus       149 D~~~~~  154 (174)
                      |+...+
T Consensus       151 Dl~~~~  156 (205)
T d2qn6a3         151 DVVSKE  156 (205)
T ss_dssp             GGSCHH
T ss_pred             CCCCCH
T ss_conf             876514

>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=99.53  E-value=5.9e-14  Score=84.23  Aligned_cols=123  Identities=18%  Similarity=0.152  Sum_probs=74.8

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECC--CEEEEEECCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             3899984999988899998738864323468987422567789997489--57999938999999999088999999998
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~iiDtpg~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+++++|.+++|||||++.+++....... ................ .+  ..+.++||||...           .....
T Consensus         7 fKi~vvG~~~vGKTsli~~~~~~~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~l~i~Dt~G~e~-----------~~~~~   73 (170)
T d2g6ba1           7 FKVMLVGDSGVGKTCLLVRFKDGAFLAGT-FISTVGIDFRNKVLDV-DGVKVKLQMWDTAGQER-----------FRSVT   73 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCCCC-CCCCCSCEEEEEEEEE-TTEEEEEEEEECCCC------------------
T ss_pred             EEEEEECCCCCCHHHHHHHHHHCCCCCCC-CCCEEEEEEEEEEEEE-CCCEEEEEEEECCCCHH-----------HHHHH
T ss_conf             89999999992999999999719988654-1202300367778885-48389999998998366-----------68888


Q ss_pred             HHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCHHHH
Q ss_conf             740699319999996899889889-999999999870400082899995767889980108
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETL  158 (174)
Q Consensus        99 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~  158 (174)
                      ......+|++++|+|.++..+... ..+...+.......  .+++++.||.|.........
T Consensus        74 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~~iilv~~k~d~~~~~~v~~  132 (170)
T d2g6ba1          74 HAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHD--VALMLLGNKVDSAHERVVKR  132 (170)
T ss_dssp             -CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECCSTTSCCCSCH
T ss_pred             HHHHCCCCEEEEEECCCCCCCHHHHHHHHHHHHHCCCCC--CEEEEEEEEECHHHCCCCCH
T ss_conf             986147865589862875555034555545544315877--35999973303032066569

>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=99.52  E-value=7e-15  Score=88.80  Aligned_cols=118  Identities=14%  Similarity=0.145  Sum_probs=74.3

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEE-ECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             3899984999988899998738864323468987422567789997-489579999389999999990889999999987
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .+|+++|.+|+|||||++++++....... ... .+.......... .....+.++|++|........           .
T Consensus         4 ~KivvvG~~~vGKTsli~r~~~~~~~~~~-~~~-~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~-----------~   70 (173)
T d2a5ja1           4 FKYIIIGDTGVGKSCLLLQFTDKRFQPVH-DLT-IGVEFGARMVNIDGKQIKLQIWDTAGQESFRSIT-----------R   70 (173)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSCCCC-------CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCC-----------H
T ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCC-CCC-EEECCCEEEEEEEEEEEEEEEECCCCCCCHHHHH-----------H
T ss_conf             89999999993999999999629999875-664-1101101332130168878764146863224677-----------8


Q ss_pred             HCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             40699319999996899889889-9999999998704000828999957678899
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      .....+|++++|+|.+++-+... ..++..+.......  .|++++.||+|....
T Consensus        71 ~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~--~piilv~nK~D~~~~  123 (173)
T d2a5ja1          71 SYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSN--MVIMLIGNKSDLESR  123 (173)
T ss_dssp             HHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECTTCGGG
T ss_pred             HHHHCCCEEEEEEEECCHHHHHHHHHHHHHHHHHCCCC--CEEEEEECCCCHHHH
T ss_conf             87404678999975258488776788899999857999--859999527752554

>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=99.52  E-value=4.3e-14  Score=84.90  Aligned_cols=119  Identities=18%  Similarity=0.160  Sum_probs=72.1

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECC--CEEEEEECCCCCCCCCCHHHHHHHHHH
Q ss_conf             833899984999988899998738864323468987422567789997489--579999389999999990889999999
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVK   96 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~iiDtpg~~~~~~~~~~~~~~~~~   96 (174)
                      +..+|+++|.+|+|||||++++++...........   .......... .+  ..+.++|++|....    ..       
T Consensus         2 k~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~---~~~~~~~~~~-~~~~~~l~~~d~~g~~~~----~~-------   66 (167)
T d1kaoa_           2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTI---EDFYRKEIEV-DSSPSVLEILDTAGTEQF----AS-------   66 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTC---CEEEEEEEEE-TTEEEEEEEEECCCTTCC----HH-------
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHHCCCCCCCCCCE---EEEEEEEEEC-CCCEEEECCCCCCCCCCC----CC-------
T ss_conf             56599999989939999999997199987668861---1355335404-761576213457775123----44-------


Q ss_pred             HHHHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             98740699319999996899889889-9999999998704000828999957678899
Q 030630           97 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        97 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ........++++++|+|.++..+... ..+...+..... ....|+++|.||+|+...
T Consensus        67 ~~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~piilvgnK~Dl~~~  123 (167)
T d1kaoa_          67 MRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKR-YEKVPVILVGNKVDLESE  123 (167)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTT-TSCCCEEEEEECGGGGGG
T ss_pred             CHHHHHHCCCCEEEEEEECCHHHHHHHHCHHHHHHHHCC-CCCCCEEEEEECCCHHHC
T ss_conf             427776153511566421356665400000466655304-899988999972250320

>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=99.51  E-value=3.5e-14  Score=85.35  Aligned_cols=118  Identities=20%  Similarity=0.194  Sum_probs=72.2

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEE-EEEEEECC--CEEEEEECCCCCCCCCCHHHHHHHHH
Q ss_conf             8338999849999888999987388643234689874225677-89997489--57999938999999999088999999
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM-QRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIV   95 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~--~~~~iiDtpg~~~~~~~~~~~~~~~~   95 (174)
                      +-.+++++|.+|+|||||++.++..... ....   .|..... ..... .+  ..+.++|++|..+.    ...     
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~~~f~-~~~~---~T~~~~~~~~~~~-~~~~~~l~i~d~~g~~~~----~~~-----   68 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMYDEFV-EDYE---PTKADSYRKKVVL-DGEEVQIDILDTAGQEDY----AAI-----   68 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCC-SCCC---TTCCEEEEEEEEE-TTEEEEEEEEECCC---C----HHH-----
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHHCCCC-CCCC---CCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCH----HHH-----
T ss_conf             5269999998995889999999729998-6547---7534310111134-543322223344565312----345-----


Q ss_pred             HHHHHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             998740699319999996899889889-9999999998704000828999957678899
Q 030630           96 KCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        96 ~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                        ....+..++++++|+|.++..+... ..|++.+.+..... ..|+++|.||+|....
T Consensus        69 --~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~-~~piiivgnK~Dl~~~  124 (168)
T d1u8za_          69 --RDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDE-NVPFLLVGNKSDLEDK  124 (168)
T ss_dssp             --HHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCCT-TSCEEEEEECGGGGGG
T ss_pred             --HHHCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCCC-CCCEEEEECCCCCCCC
T ss_conf             --4311423316689852541134555899999999961889-9818999536421223

>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=99.51  E-value=1.1e-14  Score=87.88  Aligned_cols=120  Identities=16%  Similarity=0.160  Sum_probs=72.9

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEE-CCCEEEEEECCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             38999849999888999987388643234689874225677899974-89579999389999999990889999999987
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .+|+++|..|+|||||++++.+.... ... ....+........... ....+.++||||..+....           ..
T Consensus         8 iKi~vvG~~~vGKTsli~~l~~~~~~-~~~-~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~-----------~~   74 (177)
T d1x3sa1           8 LKILIIGESGVGKSSLLLRFTDDTFD-PEL-AATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTL-----------TP   74 (177)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCC-TTC-CCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCS-----------HH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHCCCC-CCC-CCCEEECCEEEEEEEECCCCEEEEEECCCCHHHHHH-----------HH
T ss_conf             28999998990889999999719988-750-442210003679999512348999989984655889-----------99


Q ss_pred             HCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             40699319999996899889889-99999999987040008289999576788998
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus       100 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      .....++++++|+|.++..+... ..++..+.... .....+++++.||.|.....
T Consensus        75 ~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~~~i~~~~nk~d~~~~~  129 (177)
T d1x3sa1          75 SYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYC-TRNDIVNMLVGNKIDKENRE  129 (177)
T ss_dssp             HHHTTCCEEEEEEETTCHHHHHTHHHHHHHHTTCC-SCSCCEEEEEEECTTSSSCC
T ss_pred             HHHHCCCEEEEEEECCCCCCCCCCHHHHHHHCCCC-CCCCEEEEEEEECCCCCCCC
T ss_conf             99762888999998978612211022210110245-54430357874023333323

>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=99.50  E-value=2.5e-14  Score=86.09  Aligned_cols=126  Identities=21%  Similarity=0.177  Sum_probs=76.2

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEE-ECCCEEEEEECCCCCCCCCCHHHHHHHHHHH
Q ss_conf             833899984999988899998738864323468987422567789997-4895799993899999999908899999999
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~   97 (174)
                      |..+++++|..|+|||||++.+++.... ....+...  ......... .....+.++|++|........       .  
T Consensus         3 pt~Ki~lvG~~~vGKTsll~~~~~~~~~-~~~~~t~~--~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~-------~--   70 (169)
T d1x1ra1           3 PTYKLVVVGDGGVGKSALTIQFFQKIFV-PDYDPTIE--DSYLKHTEIDNQWAILDVLDTAGQEEFSAMR-------E--   70 (169)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCC-TTCCTTCC--EEEEEEEEETTEEEEEEEEECCSCGGGCSSH-------H--
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHCCCC-CCCCCCEE--ECCCCCCCCCCCCCCCCCCCCCCCCCCCCCH-------H--
T ss_conf             8579999998995989999999709888-54576312--0101111235532201220124642322112-------4--


Q ss_pred             HHHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCHHHHH
Q ss_conf             8740699319999996899889889-9999999998704000828999957678899801089
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLE  159 (174)
Q Consensus        98 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~  159 (174)
                        ..+..+|++++|+|.+++-+... ..|+..+.+.... ...|++++.||+|+........+
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
T ss_conf             --4530033899832101002343220246778763145-67638998436546662300031

>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=99.50  E-value=9.3e-14  Score=83.26  Aligned_cols=119  Identities=23%  Similarity=0.283  Sum_probs=78.2

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCC-----------------------------CCCCCCCCCCCEEEEEEEEEEECC
Q ss_conf             833899984999988899998738864-----------------------------323468987422567789997489
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRA-----------------------------FKSRASSSGVTSTCEMQRTVLKDG   69 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~-----------------------------~~~~~~~~~~t~~~~~~~~~~~~~   69 (174)
                      +...|+++|+.++|||||+.+|+....                             ........+.+.........+ ++
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
T ss_conf             95189999447999999999999985983288999999988751766555420145733441477652421799951-88


Q ss_pred             CEEEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCH-------HHHHHHHHHHHHHHHHHCCCEE
Q ss_conf             579999389999999990889999999987406993199999968998898-------8999999999987040008289
Q 030630           70 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQ-------EEEAALHSLQTLFGKKIFDYMI  142 (174)
Q Consensus        70 ~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~-------~~~~~~~~l~~~~~~~~~~~~~  142 (174)
                      ..+.++||||..+           +.........-+|++++|+|+.++...       ...+.+...... +   .++++
T Consensus        81 ~~i~iiDtPGH~d-----------f~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~-~---~~~iI  145 (224)
T d1jnya3          81 YFFTIIDAPGHRD-----------FVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTM-G---LDQLI  145 (224)
T ss_dssp             CEEEECCCSSSTT-----------HHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHT-T---CTTCE
T ss_pred             CEEEEEECCCCHH-----------HHHHHHHHHHHHCEEEEEEECCCCCCCCCCCCCCHHHHHHHHHHHH-C---CCCEE
T ss_conf             1268751898487-----------8999999997506579987415575454224442249999999980-9---98348


Q ss_pred             EEEECCCCCCC
Q ss_conf             99957678899
Q 030630          143 VVFTGGDELED  153 (174)
Q Consensus       143 iv~tk~D~~~~  153 (174)
                      +++||+|...+
T Consensus       146 v~iNK~D~~~~  156 (224)
T d1jnya3         146 VAVNKMDLTEP  156 (224)
T ss_dssp             EEEECGGGSSS
T ss_pred             EEEECCCCCCC
T ss_conf             99980357775

>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=99.50  E-value=7.4e-14  Score=83.76  Aligned_cols=122  Identities=17%  Similarity=0.168  Sum_probs=74.7

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             83389998499998889999873886432346898742256778999748957999938999999999088999999998
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~   98 (174)
                      +..+|+++|.+|+|||||++++++...........+  ...............+.++|++|....           ....
T Consensus         2 ~e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~l~~~d~~~~~~~-----------~~~~   68 (166)
T d1ctqa_           2 TEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE--DSYRKQVVIDGETCLLDILDTAGQEEY-----------SAMR   68 (166)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSE--EEEEEEEEETTEEEEEEEEEECCCGGG-----------HHHH
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHHCCCCCCCCCCCC--EEECCCEEEECEEEEEEEEECCCCCCC-----------CCCH
T ss_conf             766999999799899999999980988986577410--010110231010002333411575322-----------3321


Q ss_pred             HHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             740699319999996899889889-99999999987040008289999576788998
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        99 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      ...+..++++++|+|.+++.+... ..|+..+.+....+ ..|++++.||+|+....
T Consensus        69 ~~~~~~~~~~iiv~d~~~~~s~~~~~~~~~~i~~~~~~~-~~piilv~nK~Dl~~~~  124 (166)
T d1ctqa_          69 DQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSD-DVPMVLVGNKCDLAART  124 (166)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCS-SCCEEEEEECTTCSCCC
T ss_pred             HHHHHCCCCCCEEECCCCCCCHHHHHHHHHHHHHHCCCC-CCEEEEEECCCCCCCCC
T ss_conf             665310233330111243350778889999999863789-97099996145545444

>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=99.50  E-value=3.4e-14  Score=85.39  Aligned_cols=120  Identities=14%  Similarity=0.130  Sum_probs=73.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEE-ECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             3899984999988899998738864323468987422567789997-489579999389999999990889999999987
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .+|+++|.+|+|||||++.+++.........+.+.+.  ....... .....+.++|++|........           .
T Consensus         3 ~Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~--~~~~~~~~~~~~~~~~~d~~g~~~~~~~~-----------~   69 (184)
T d1vg8a_           3 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADF--LTKEVMVDDRLVTMQIWDTAGQERFQSLG-----------V   69 (184)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEE--EEEEEESSSCEEEEEEEEECSSGGGSCSC-----------C
T ss_pred             EEEEEECCCCCCHHHHHHHHHHCCCCCCCCCCCCEEE--EEEEEEECCCEEEEEEEECCCCCCCCCCC-----------C
T ss_conf             9999999999198999999971989887388434123--10013308934777764037864111211-----------2


Q ss_pred             HCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHH--HCCCEEEEEECCCCCCC
Q ss_conf             40699319999996899889889-99999999987040--00828999957678899
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKK--IFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~  153 (174)
                      .....++++++++|.++..+... ..+++.+.......  ...|+++|.||+|+...
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
T ss_conf             224675589983025411332100256789998733233567778999875033312

>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=99.49  E-value=2e-13  Score=81.62  Aligned_cols=120  Identities=16%  Similarity=0.253  Sum_probs=73.1

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCCCCC-CCCCCCCCEEEEEEEEEE----------------------ECCCEEEEE
Q ss_conf             833899984999988899998738864323-468987422567789997----------------------489579999
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKS-RASSSGVTSTCEMQRTVL----------------------KDGQVVNVI   75 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~-~~~~~~~t~~~~~~~~~~----------------------~~~~~~~ii   75 (174)
                      +...|+++|+.++|||||+|+|++...-.. .....+.|.........+                      .....+.++
T Consensus         4 ~~inIaiiGhvd~GKSTL~~~L~g~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   83 (195)
T d1kk1a3           4 AEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFI   83 (195)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEEE
T ss_pred             CCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHCCCHHHHCCCEEEEEEEEEEECCCEEEEEE
T ss_conf             95799999345884999999997034466689997176533342122231353021034225665541020575047652


Q ss_pred             ECCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCC-CHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             3899999999908899999999874069931999999689988-98899999999998704000828999957678899
Q 030630           76 DTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRF-SQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        76 Dtpg~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ||||..+           +..........+|++++++++.++. ...+++.+..+... +.   +++++++||+|..+.
T Consensus        84 DtPGh~~-----------f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~-~~---~~iiv~inK~D~~d~  147 (195)
T d1kk1a3          84 DAPGHEA-----------LMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQII-GQ---KNIIIAQNKIELVDK  147 (195)
T ss_dssp             ECSSHHH-----------HHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHH-TC---CCEEEEEECGGGSCH
T ss_pred             CCCHHHH-----------HHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH-CC---CCCEEEEECCCCHHH
T ss_conf             4310355-----------6677653322223310000113566653167999999982-37---552345412330246

>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=99.49  E-value=1.1e-13  Score=82.93  Aligned_cols=116  Identities=23%  Similarity=0.171  Sum_probs=73.8

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEE-EEEEEECC--CEEEEEECCCCCCCCCCHHHHHHHHH
Q ss_conf             8338999849999888999987388643234689874225677-89997489--57999938999999999088999999
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM-QRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIV   95 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~--~~~~iiDtpg~~~~~~~~~~~~~~~~   95 (174)
                      +..+|+++|.+|+|||||++.+...... ...  . .|..... ..... .+  ..+.++|++|..++.           
T Consensus         2 ~~iKvvllG~~~vGKTSli~r~~~~~f~-~~~--~-~t~~~~~~~~~~~-~~~~~~l~i~D~~g~~~~~-----------   65 (191)
T d2ngra_           2 QTIKCVVVGDGAVGKTCLLISYTTNKFP-SEY--V-PTVFDNYAVTVMI-GGEPYTLGLFDTAGQEDYD-----------   65 (191)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSCCC-SSC--C-CCSEEEEEEEEEE-TTEEEEEEEEEECCSGGGT-----------
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHCCCC-CCC--C-CCEEEECCEEEEE-CCCEEEEECCCCCCCHHHH-----------
T ss_conf             7569999999996999999999719999-875--8-8310210025750-7942465024444203232-----------


Q ss_pred             HHHHHCCCCCEEEEEEEECCCCCCHHH--HHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             998740699319999996899889889--9999999998704000828999957678899
Q 030630           96 KCIGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        96 ~~~~~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ......+..+|++++|+|.+++-+...  ..+.+.+... ...  .|++++.||.|+...
T Consensus        66 ~~~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~-~~~--~~i~lvgnK~Dl~~~  122 (191)
T d2ngra_          66 RLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHH-CPK--TPFLLVGTQIDLRDD  122 (191)
T ss_dssp             TTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-CTT--CCEEEEEECGGGGGC
T ss_pred             HHHHHCCCCCCEEECCCCCCHHHHHHHHHHHHHHHHHHC-CCC--CCEEEEECCCCCCCC
T ss_conf             445422320102311411451889999999999987521-799--736877405444432

>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=99.49  E-value=6.9e-14  Score=83.92  Aligned_cols=141  Identities=15%  Similarity=0.120  Sum_probs=88.1

Q ss_pred             CCCCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEE---EECCCEEEEEECCC
Q ss_conf             887766543358999983389998499998889999873886432346898742256778999---74895799993899
Q 030630            3 GGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTV---LKDGQVVNVIDTPG   79 (174)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~---~~~~~~~~iiDtpg   79 (174)
                      |+..+.++++|+++.|  ..++++|++|||||||++.|+|...+.+|................   ..+....++.+.|.
T Consensus        14 g~~~al~~vsl~i~~G--e~~~liG~sGaGKSTll~~i~gl~~p~sG~I~~~g~~i~~~~~~~~~~~~~r~ig~v~Q~~~   91 (240)
T d1g2912          14 GEVTAVREMSLEVKDG--EFMILLGPSGCGKTTTLRMIAGLEEPSRGQIYIGDKLVADPEKGIFVPPKDRDIAMVFQSYA   91 (240)
T ss_dssp             TTEEEEEEEEEEEETT--CEEEEECSTTSSHHHHHHHHHTSSCCSEEEEEETTEEEEEGGGTEECCGGGSSEEEECSCCC
T ss_pred             CCEEEECCEEEEECCC--CEEEEECCCCCHHHHHHHHHHCCCCCCCCEEEECCEEECCCCHHHHCCCCCCCCEECCCCHH
T ss_conf             9999985606688699--89999999998099999999648788989899999980356644424532255120022122


Q ss_pred             CCCCCCCHHHH-----------------------------------------HHHHHHHHHHCCCCCEEEEEEEECCCCC
Q ss_conf             99999990889-----------------------------------------9999999874069931999999689988
Q 030630           80 LFDFSAGSEFV-----------------------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRF  118 (174)
Q Consensus        80 ~~~~~~~~~~~-----------------------------------------~~~~~~~~~~~~~~~~~ii~v~~~~~~~  118 (174)
                      +.+..+..+.+                                         .++-...++.....|++++ +..++..+
T Consensus        92 L~~~ltV~eni~~~~~~~~~~~~e~~~~v~~~l~~~~l~~~~~~~p~~LSGGqkQRv~IAraL~~~P~iLl-lDEPt~~L  170 (240)
T d1g2912          92 LYPHMTVYDNIAFPLKLRKVPRQEIDQRVREVAELLGLTELLNRKPRELSGGQRQRVALGRAIVRKPQVFL-MDEPLSNL  170 (240)
T ss_dssp             CCTTSCHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHTCGGGTTCCGGGSCHHHHHHHHHHHHHHTCCSEEE-EECTTTTS
T ss_pred             HCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHCCCHHHCCHHHHHHHHHHHHHHCCCCEEE-ECCCCCCC
T ss_conf             23101166763306877299989999999999987599667629933499999999999999826998898-25887656


Q ss_pred             CHHH-HHHHHHHHHHHHHHHCCCEEEEEECC
Q ss_conf             9889-99999999987040008289999576
Q 030630          119 SQEE-EAALHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus       119 ~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      ++.. ..+.+.+.+...+.  ..+++++||-
T Consensus       171 D~~~~~~i~~~l~~l~~~~--g~tvi~vTHd  199 (240)
T d1g2912         171 DAKLRVRMRAELKKLQRQL--GVTTIYVTHD  199 (240)
T ss_dssp             CHHHHHHHHHHHHHHHHHH--TCEEEEEESC
T ss_pred             CHHHHHHHHHHHHHHHHCC--CCEEEEECCC
T ss_conf             9899989999999998636--9889999599

>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=99.48  E-value=5.6e-14  Score=84.35  Aligned_cols=123  Identities=15%  Similarity=0.083  Sum_probs=74.1

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             33899984999988899998738864323468987422567789997489579999389999999990889999999987
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~   99 (174)
                      -.+|+++|..|+|||||++.++............+............ ....+.++|++|.....          .....
T Consensus         2 ~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~----------~~~~~   70 (165)
T d1z06a1           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDG-ERIKIQLWDTAGQERFR----------KSMVQ   70 (165)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETT-EEEEEEEEECCCSHHHH----------TTTHH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEEEC-CCEEEEEEECCCCHHHC----------CCCCE
T ss_conf             89999999999298999999973999886476424220013445640-22179998505731103----------21210


Q ss_pred             HCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             40699319999996899889889-99999999987040008289999576788998
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus       100 ~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      ..+..+|++++|+|.+++-+... ..++..+....... ..|++++.||.|+....
T Consensus        71 ~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~-~~pi~lvgnK~Dl~~~~  125 (165)
T d1z06a1          71 HYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLAN-DIPRILVGNKCDLRSAI  125 (165)
T ss_dssp             HHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCCS-CCCEEEEEECTTCGGGC
T ss_pred             EEECCCCCEEEEEEEEHHHHHHHHHHHHHHHHHHCCCC-CCEEEEEECCCCCHHCC
T ss_conf             36427882499998523566665542127877632589-97199992135500101

>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=99.48  E-value=2.4e-13  Score=81.27  Aligned_cols=140  Identities=16%  Similarity=0.185  Sum_probs=75.4

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCC-CCCEEEE--------------------------------------
Q ss_conf             3389998499998889999873886432346898-7422567--------------------------------------
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSS-GVTSTCE--------------------------------------   60 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~-~~t~~~~--------------------------------------   60 (174)
                      -++++++|..++|||||+|+|+|......+..+. ...+...                                      
T Consensus        24 lP~ivVvG~~ssGKSSliNaLlG~~~lP~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~  103 (306)
T d1jwyb_          24 LPQIVVVGSQSSGKSSVLENIVGRDFLPRGSGIVTRRPLILQLTHLPIADDGSQTQEWGEFLHKPNDMFYDFSEIREEII  103 (306)
T ss_dssp             CCEEEEEECSSSSHHHHHHHHHTSCCCCC--------CEEEEEEECCCCTTSCCCCCEEEESSSTTCCBCCTHHHHHHHH
T ss_pred             CCEEEEEECCCCCHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCHHHHHHHHHCCCCEECCHHHHHHHHH
T ss_conf             88599981898979999999968997887897540688899994577666765306566776268862237899999999


Q ss_pred             ------------------EEEEEEECCCEEEEEECCCCCCCCCCH--HHHHHHHHHHHHHCCCCCEEE-EEEEECCCCCC
Q ss_conf             ------------------789997489579999389999999990--889999999987406993199-99996899889
Q 030630           61 ------------------MQRTVLKDGQVVNVIDTPGLFDFSAGS--EFVGKEIVKCIGMAKDGIHAV-LVVFSVRSRFS  119 (174)
Q Consensus        61 ------------------~~~~~~~~~~~~~iiDtpg~~~~~~~~--~~~~~~~~~~~~~~~~~~~~i-i~v~~~~~~~~  119 (174)
                                        ...........+.++||||+.......  ..........+......++.+ ++++++...+.
T Consensus       104 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~~~~~~~~  183 (306)
T d1jwyb_         104 RDTDRMTGKNKGISAQPINLKIYSPHVVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLA  183 (306)
T ss_dssp             HHCC--------CCCCCEEEEEEETTSCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCST
T ss_pred             HHHHHHCCCCCCCCCCCEEEEECCCCCCCCEEECCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEECCCCCCC
T ss_conf             99987427777656650699824789888068658886443668840358999999999998277751687632563100


Q ss_pred             HHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCHHHHHHHHCC
Q ss_conf             889999999999870400082899995767889980108998502
Q 030630          120 QEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGR  164 (174)
Q Consensus       120 ~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~~  164 (174)
                      ...  ....++..-+.  ..++++|+||+|..+.. .....++..
T Consensus       184 ~~~--~~~~~~~~~~~--~~r~i~Vitk~D~~~~~-~~~~~~l~~  223 (306)
T d1jwyb_         184 NSD--ALQLAKEVDPE--GKRTIGVITKLDLMDKG-TDAMEVLTG  223 (306)
T ss_dssp             TCS--HHHHHHHHCSS--CSSEEEEEECTTSSCSS-CCCHHHHTT
T ss_pred             CCH--HHHHHHHHCCC--CCEEEEEEECCCCCCCH-HHHHHHHHC
T ss_conf             349--99999973867--88589998204445316-689999847

>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=99.48  E-value=8.4e-13  Score=78.57  Aligned_cols=139  Identities=17%  Similarity=0.186  Sum_probs=76.7

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCC-CCCEEEEEE------------------------------------
Q ss_conf             3389998499998889999873886432346898-742256778------------------------------------
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSS-GVTSTCEMQ------------------------------------   62 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~-~~t~~~~~~------------------------------------   62 (174)
                      .++++++|..++|||||+|+|+|......+.... ...+.....                                    
T Consensus        26 ~P~ivvvG~~SsGKSsliNaLlg~~~lP~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  105 (299)
T d2akab1          26 LPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVTG  105 (299)
T ss_dssp             CCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHCS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCEEEEEECCCCCEEEEEECCCCEECCHHHHHHHHHHHHHHHHC
T ss_conf             88699976898979999999968986887897403578899972356522689868997147889999999999988507


Q ss_pred             ------------EEEEECCCEEEEEECCCCCCCCCCH--HHHHHHHHHHHHHCCCCC-EEEEEEEECCCCCCHHHHHHHH
Q ss_conf             ------------9997489579999389999999990--889999999987406993-1999999689988988999999
Q 030630           63 ------------RTVLKDGQVVNVIDTPGLFDFSAGS--EFVGKEIVKCIGMAKDGI-HAVLVVFSVRSRFSQEEEAALH  127 (174)
Q Consensus        63 ------------~~~~~~~~~~~iiDtpg~~~~~~~~--~~~~~~~~~~~~~~~~~~-~~ii~v~~~~~~~~~~~~~~~~  127 (174)
                                  .........+.++|+||+.......  ......+...+....... +.++++.++...++...  ...
T Consensus       106 ~~~~~~~~~i~l~~~~p~~~~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~--~~~  183 (299)
T d2akab1         106 TNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSD--ALK  183 (299)
T ss_dssp             STTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCH--HHH
T ss_pred             CCCCCCCCCEEEEECCCCCCCEEEECCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCEEEEECCCCCCHHHHH--HHH
T ss_conf             776767760799974799887257716874334667763147999999999986275603566403454211259--999


Q ss_pred             HHHHHHHHHHCCCEEEEEECCCCCCCCHHHHHHHHC
Q ss_conf             999987040008289999576788998010899850
Q 030630          128 SLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLG  163 (174)
Q Consensus       128 ~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~~  163 (174)
                      .++..-+..  .++++|+||+|..... ......++
T Consensus       184 ~~~~~~~~~--~r~i~Vltk~D~~~~~-~~~~~~~~  216 (299)
T d2akab1         184 IAKEVDPQG--QRTIGVITKLDLMDEG-TDARDVLE  216 (299)
T ss_dssp             HHHHHCTTC--SSEEEEEECGGGSCTT-CCCHHHHT
T ss_pred             HHHHHCCCC--CCEEEEEECCCCCCCH-HHHHHHHH
T ss_conf             999738677--8136677026655313-26788874

>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=99.48  E-value=3.2e-14  Score=85.52  Aligned_cols=137  Identities=17%  Similarity=0.114  Sum_probs=83.2

Q ss_pred             CCCCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCC
Q ss_conf             88776654335899998338999849999888999987388643234689874225677899974895799993899999
Q 030630            3 GGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   82 (174)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~   82 (174)
                      |+..+.++++|+++.|  ..++++|+||||||||++.|+|...+..|..............  . +....++.+.|++..
T Consensus        17 g~~~al~~vsl~v~~G--e~~~liGpsGaGKSTLl~~i~Gl~~p~sG~I~i~g~~i~~~~~--~-~r~ig~v~Q~~~l~~   91 (239)
T d1v43a3          17 GNFTAVNKLNLTIKDG--EFLVLLGPSGCGKTTTLRMIAGLEEPTEGRIYFGDRDVTYLPP--K-DRNISMVFQSYAVWP   91 (239)
T ss_dssp             TTEEEEEEEEEEECTT--CEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEETTEECTTSCG--G-GGTEEEEEC------
T ss_pred             CCEEEECCEEEEECCC--CEEEEECCCCCHHHHHHHHHHCCCCCCCCEEEECCEECCCCCC--C-CCEEEEEEECHHHCC
T ss_conf             9999981306788799--8999999999829999999975899987879991641354770--0-015899800335342


Q ss_pred             CCCCHHHH-----------------------------------------HHHHHHHHHHCCCCCEEEEEEEECCCCCCHH
Q ss_conf             99990889-----------------------------------------9999999874069931999999689988988
Q 030630           83 FSAGSEFV-----------------------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE  121 (174)
Q Consensus        83 ~~~~~~~~-----------------------------------------~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~  121 (174)
                      ..+..+.+                                         .++-...++.....|++++ +..++..+++.
T Consensus        92 ~ltv~enl~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LSGGq~QRvaiAraL~~~P~iLl-lDEPts~LD~~  170 (239)
T d1v43a3          92 HMTVYENIAFPLKIKKFPKDEIDKRVRWAAELLQIEELLNRYPAQLSGGQRQRVAVARAIVVEPDVLL-MDEPLSNLDAK  170 (239)
T ss_dssp             CCCHHHHHHTTCC--CCCHHHHHHHHHHHHHHTTCGGGTTSCTTTCCSSCHHHHHHHHHHTTCCSEEE-EESTTTTSCHH
T ss_pred             CCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHCCCHHHCCHHHHHHHHHHHHHCCCCCCEE-ECCCCCCCCHH
T ss_conf             22099999999987399999999999999987598556609954699999889999766404998243-06886668989


Q ss_pred             H-HHHHHHHHHHHHHHHCCCEEEEEEC
Q ss_conf             9-9999999998704000828999957
Q 030630          122 E-EAALHSLQTLFGKKIFDYMIVVFTG  147 (174)
Q Consensus       122 ~-~~~~~~l~~~~~~~~~~~~~iv~tk  147 (174)
                      . ..+.+.+.+...+.  ..+++++||
T Consensus       171 ~~~~i~~ll~~l~~~~--g~tii~vTH  195 (239)
T d1v43a3         171 LRVAMRAEIKKLQQKL--KVTTIYVTH  195 (239)
T ss_dssp             HHHHHHHHHHHHHHHH--TCEEEEEES
T ss_pred             HHHHHHHHHHHHHHHC--CCEEEEEEC
T ss_conf             9989999999998731--980799948

>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=99.48  E-value=2.1e-14  Score=86.41  Aligned_cols=117  Identities=14%  Similarity=0.183  Sum_probs=71.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECC--CEEEEEECCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             3899984999988899998738864323468987422567789997489--57999938999999999088999999998
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~iiDtpg~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+|+++|.+|+|||||++.+++........  ...+.......... .+  ..+.++||||.......           .
T Consensus         3 ~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~--~t~~~~~~~~~i~~-~~~~~~~~i~Dt~G~~~~~~~-----------~   68 (166)
T d1g16a_           3 MKILLIGDSGVGKSCLLVRFVEDKFNPSFI--TTIGIDFKIKTVDI-NGKKVKLQIWDTAGQERFRTI-----------T   68 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCCC---------CCEEEEEEES-SSCEEEEEEECCTTGGGTSCC-----------C
T ss_pred             EEEEEECCCCCCHHHHHHHHHHCCCCCCCC--CCCCEEEEEEEEEE-CCEEEEEEEEECCCCHHHHHH-----------H
T ss_conf             999999999967899999998688987637--74230378999998-898999999989995556899-----------9


Q ss_pred             HHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             740699319999996899889889-9999999998704000828999957678899
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...+..++++++|+|.+++-+... ..+...+......  ..+.+++.++.|....
T Consensus        69 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~~~i~~~~k~d~~~~  122 (166)
T d1g16a_          69 TAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHAND--EAQLLLVGNKSDMETR  122 (166)
T ss_dssp             HHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSCT--TCEEEEEEECTTCTTC
T ss_pred             HHHHHCCCEEEEEEECCCCCCHHHHHHHHHHHHCCCCC--CCEEEEECCHHHHHHH
T ss_conf             99973498999999899765799997544000101467--6504652110023321

>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=99.48  E-value=6.1e-14  Score=84.18  Aligned_cols=116  Identities=22%  Similarity=0.212  Sum_probs=72.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECC--CEEEEEECCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             3899984999988899998738864323468987422567789997489--57999938999999999088999999998
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~iiDtpg~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+++++|.+|+|||||++.+++...........+  .......... ..  ..+.++|++|.....           ...
T Consensus         4 iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~--~~~~~~~i~~-~~~~~~l~i~d~~g~~~~~-----------~~~   69 (170)
T d1ek0a_           4 IKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIG--AAFLTQRVTI-NEHTVKFEIWDTAGQERFA-----------SLA   69 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSS--EEEEEEEEEE-TTEEEEEEEEEECCSGGGG-----------GGH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHCCCCCCCCCCCC--CEEECCCCCC-CCCCCCCCCCCCCCCHHHH-----------HHH
T ss_conf             9999999999198999999972999865465301--0120232211-1123223455568716678-----------888


Q ss_pred             HHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCC
Q ss_conf             740699319999996899889889-999999999870400082899995767889
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  152 (174)
Q Consensus        99 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~  152 (174)
                      ...+..+|++++|+|.+++.+... ..+...+.......  .+.+++.||.|+..
T Consensus        70 ~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~--~~~~~v~nk~d~~~  122 (170)
T d1ek0a_          70 PMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKD--IIIALVGNKIDMLQ  122 (170)
T ss_dssp             HHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTT--CEEEEEEECGGGGG
T ss_pred             HHHHHCCCEEEEEEECCCCCCHHHHHHHHHHHCCCCCCC--CCEEEEECCCCCCC
T ss_conf             888734650799980784443034552021101333333--20232100234101

>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=99.48  E-value=8e-14  Score=83.58  Aligned_cols=117  Identities=22%  Similarity=0.209  Sum_probs=70.9

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECC--CEEEEEECCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             3899984999988899998738864323468987422567789997489--57999938999999999088999999998
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~iiDtpg~~~~~~~~~~~~~~~~~~~   98 (174)
                      .+|+++|.+|+|||||++++++.... ....+.  ........... .+  ..+.++|++|..+..   ...        
T Consensus         6 ~Ki~lvG~~~vGKTsLi~r~~~~~f~-~~~~~t--~~~~~~~~~~~-~~~~~~~~~~d~~g~~~~~---~~~--------   70 (171)
T d2erya1           6 YRLVVVGGGGVGKSALTIQFIQSYFV-TDYDPT--IEDSYTKQCVI-DDRAARLDILDTAGQEEFG---AMR--------   70 (171)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSCCC-SSCCTT--CCEEEEEEEEE-TTEEEEEEEEECC----CC---HHH--------
T ss_pred             EEEEEECCCCCCHHHHHHHHHHCCCC-CCCCCC--CCCCEEEEEEE-CCCCCCCCCCCCCCCCCCC---CCC--------
T ss_conf             28999999997999999999739988-545766--45200000100-1212111221125653225---454--------


Q ss_pred             HHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             740699319999996899889889-9999999998704000828999957678899
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ......+|++++|+|.++.-+... ..+...+....... ..|++++.||+|....
T Consensus        71 ~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~-~~p~ilvgnK~Dl~~~  125 (171)
T d2erya1          71 EQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRD-EFPMILIGNKADLDHQ  125 (171)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTSS-CCSEEEEEECTTCTTS
T ss_pred             CCCCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHCCCC-CCCEEEEEECCCHHHH
T ss_conf             433424516899604543443146788768887630357-8877999830206653

>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=99.48  E-value=2e-14  Score=86.53  Aligned_cols=138  Identities=17%  Similarity=0.135  Sum_probs=78.6

Q ss_pred             CCCCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCC
Q ss_conf             88776654335899998338999849999888999987388643234689874225677899974895799993899999
Q 030630            3 GGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   82 (174)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~   82 (174)
                      |+..+.++++|+++.|  ..++++|+||||||||++.++|...+..|..............   .+....++++.|.+..
T Consensus        11 g~~~~l~~isl~i~~G--ei~~liGpsGsGKSTLl~~i~Gl~~p~sG~I~i~g~~i~~~~~---~~r~ig~v~Q~~~l~~   85 (232)
T d2awna2          11 GEVVVSKDINLDIHEG--EFVVFVGPSGCGKSTLLRMIAGLETITSGDLFIGEKRMNDTPP---AERGVGMVFQSYALYP   85 (232)
T ss_dssp             TTEEEEEEEEEEECTT--CEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEESSSCCTTSCG---GGTCEEEECSSCCC--
T ss_pred             CCEEEEEEEEEEECCC--CEEEEECCCCCHHHHHHHHHHCCCCCCCCEEEECCEECCCCCH---HHCEEEEECCCCCCCC
T ss_conf             9999981117788699--8999998999829999999965878888889999997788864---4432223433420264


Q ss_pred             CCCCHHH--------------H---------------------------HHHHHHHHHHCCCCCEEEEEEEECCCCCCHH
Q ss_conf             9999088--------------9---------------------------9999999874069931999999689988988
Q 030630           83 FSAGSEF--------------V---------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE  121 (174)
Q Consensus        83 ~~~~~~~--------------~---------------------------~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~  121 (174)
                      ..+..+.              .                           .++-...++.....|++ +++..++..+++.
T Consensus        86 ~~tv~eni~~~~~~~~~~~~~~~~~v~~~l~~~~l~~~~~~~~~~LSGGqkQRvaiAraL~~~P~i-lllDEPts~LD~~  164 (232)
T d2awna2          86 HLSVAENMSFGLKLAGAKKEVINQRVNQVAEVLQLAHLLDRKPKALSGGQRQRVAIGRTLVAEPSV-FLLDEPLSNLDAA  164 (232)
T ss_dssp             -------------------CHHHHHHHHHHHHC---------------------CHHHHHHTCCSE-EEEESTTTTSCHH
T ss_pred             CHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHCCHHHCCHHHHHHHHHHHHHHCCCCE-EEECCCCCCCCHH
T ss_conf             333788978999875998899999999999757886566489656999999999999997039988-9975888788988


Q ss_pred             HH-HHHHHHHHHHHHHHCCCEEEEEECC
Q ss_conf             99-9999999987040008289999576
Q 030630          122 EE-AALHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus       122 ~~-~~~~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      .+ .+++.+.+...+.  ..+++++||-
T Consensus       165 ~~~~i~~~l~~l~~~~--g~tii~vTHd  190 (232)
T d2awna2         165 LRVQMRIEISRLHKRL--GRTMIYVTHD  190 (232)
T ss_dssp             HHHHHHHHHHHHHHHS--CCEEEEEESC
T ss_pred             HHHHHHHHHHHHHHHC--CCEEEEEECC
T ss_conf             9989999999998742--9879999489

>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=99.47  E-value=9.5e-13  Score=78.31  Aligned_cols=130  Identities=15%  Similarity=0.186  Sum_probs=75.8

Q ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHH
Q ss_conf             99833899984999988899998738864323468987422567789997489579999389999999990889999999
Q 030630           17 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   96 (174)
Q Consensus        17 ~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~   96 (174)
                      .....+|+++|.+|+|||||+|+|++....... ... .+...................++++.................
T Consensus        13 ~~~~~~I~lvG~~NvGKSSL~n~L~~~~~~~~~-~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (188)
T d1puia_          13 SDTGIEVAFAGRSNAGKSSALNTLTNQKSLART-SKT-PGRTQLINLFEVADGKRLVDLPGYGYAEVPEEMKRKWQRALG   90 (188)
T ss_dssp             CSCSEEEEEEECTTSSHHHHHTTTCCC---------------CCEEEEEEETTEEEEECCCCC------CCHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHCCCCEEEE-CCC-CCCEEECCCEECCCCCCEEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             766978999889999899999998589854754-566-650231110111465420342001221102445444445556


Q ss_pred             HHHHCCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             987406993199999968998898899999999998704000828999957678899
Q 030630           97 CIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        97 ~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ...........++.+.+...........++..+....     .+.++++||+|+...
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~v~~k~D~~~~  142 (188)
T d1puia_          91 EYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVDSN-----IAVLVLLTKADKLAS  142 (188)
T ss_dssp             HHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHTT-----CCEEEEEECGGGSCH
T ss_pred             HHHHHHHHEEEEEEEECCCCCCHHHHHHHHHHHHHCC-----CCCCCHHHHHHCCCH
T ss_conf             5565420035899840122331267778888764033-----222011133311588

>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=99.47  E-value=3.3e-13  Score=80.57  Aligned_cols=132  Identities=17%  Similarity=0.061  Sum_probs=79.2

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEE-CCCEEEEEECCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             338999849999888999987388643234689874225677899974-8957999938999999999088999999998
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~   98 (174)
                      -.+|+++|.+|+|||||++.++..........+.+  ........... ....+.++|++|...           .....
T Consensus         6 ~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~--~~~~~~~~~~~~~~~~~~i~d~~g~~~-----------~~~~~   72 (174)
T d1wmsa_           6 LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIG--VEFLNKDLEVDGHFVTMQIWDTAGQER-----------FRSLR   72 (174)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCC----CCS--EEEEEEEEEETTEEEEEEEEECCCCGG-----------GHHHH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHCCCCCCCCCCEE--EEEEEEEEEECCCEEEEEEECCCCCCE-----------EHHHH
T ss_conf             47999999999799999999984978876566323--214445554258401576520368600-----------03455


Q ss_pred             HHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHH--HCCCEEEEEECCCCCCCC--HHHHHHHHCC
Q ss_conf             740699319999996899889889-99999999987040--008289999576788998--0108998502
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKK--IFDYMIVVFTGGDELEDN--DETLEDYLGR  164 (174)
Q Consensus        99 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~~~--~~~~~~~~~~  164 (174)
                      ......++++++++|.++..+... ..|++.+.......  ...|+++|.||.|+.+..  ....+++.++
T Consensus        73 ~~~~~~~~~~i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~~~v~~~~~~~~~~~  143 (174)
T d1wmsa_          73 TPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISERQVSTEEAQAWCRD  143 (174)
T ss_dssp             GGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSSCSSCHHHHHHHHHH
T ss_pred             HHHHHCCCEEEEEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCHHHCCCCHHHHHHHHHH
T ss_conf             66650661578998640246642246689999998510257772099941324054322769999999997

>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=99.46  E-value=3e-13  Score=80.79  Aligned_cols=124  Identities=21%  Similarity=0.294  Sum_probs=73.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             38999849999888999987388643234689874225677899974895799993899999999908899999999874
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      ..|+++|.+|+|||||+|+|++......  .....+...............+..+|+|+.....  ..............
T Consensus         6 ~~I~iiG~~nvGKSSLin~L~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~   81 (179)
T d1egaa1           6 GFIAIVGRPNVGKSTLLNKLLGQKISIT--SRKAQTTRHRIVGIHTEGAYQAIYVDTPGLHMEE--KRAINRLMNKAASS   81 (179)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHTCSEEEC--CCCSSCCSSCEEEEEEETTEEEEEESSSSCCHHH--HHHHHHHHTCCTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCEEE--CCCCCCEEEEEEEEEECCCCEEEEECCCCCEECC--HHHHHHHHHHCCCC
T ss_conf             1999997999989999999958986343--2688713788875550587314760488730110--23444443210221


Q ss_pred             CCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             069931999999689988988999999999987040008289999576788998
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus       101 ~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      ....++.++++.+.. ........+...+...   .  .+.++++|++|.....
T Consensus        82 ~~~~~~~~l~~~d~~-~~~~~~~~~~~~l~~~---~--~~~i~v~~k~d~~~~~  129 (179)
T d1egaa1          82 SIGDVELVIFVVEGT-RWTPDDEMVLNKLREG---K--APVILAVNKVDNVQEK  129 (179)
T ss_dssp             CCCCEEEEEEEEETT-CCCHHHHHHHHHHHSS---S--SCEEEEEESTTTCCCH
T ss_pred             CHHHCCEEEEEEECC-CCCHHHHHHHHHHHHC---C--CCEEEEEEEEECCCHH
T ss_conf             021144467987457-6622678998775413---5--7515555434412102

>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=99.46  E-value=3e-14  Score=85.66  Aligned_cols=140  Identities=13%  Similarity=0.116  Sum_probs=81.0

Q ss_pred             CCCCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCC
Q ss_conf             88776654335899998338999849999888999987388643234689874225677899974895799993899999
Q 030630            3 GGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   82 (174)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~   82 (174)
                      |+..+.++++|+++.|  ..++++|+||||||||++.|+|...+..|..................+....++.+.+.+.+
T Consensus        17 g~~~al~~vs~~i~~G--ei~~liGpnGaGKSTl~~~i~Gl~~p~~G~I~~~G~~i~~~~~~~~~r~gi~~~~q~~~l~~   94 (240)
T d1ji0a_          17 GAIHAIKGIDLKVPRG--QIVTLIGANGAGKTTTLSAIAGLVRAQKGKIIFNGQDITNKPAHVINRMGIALVPEGRRIFP   94 (240)
T ss_dssp             TTEEEEEEEEEEEETT--CEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEETTEECTTCCHHHHHHTTEEEECSSCCCCT
T ss_pred             CCEEEEEEEEEEECCC--CEEEEECCCCCCHHHHHHHHHCCCCCCCCEEEECCCCCCCCCHHHHHHHCCCCCCCCCCCCC
T ss_conf             9988883025788899--79999999998599999999678888803898424434466088888742355676554577


Q ss_pred             CCCCHHHH-----------------------------------------HHHHHHHHHHCCCCCEEEEEEEECCCCCCHH
Q ss_conf             99990889-----------------------------------------9999999874069931999999689988988
Q 030630           83 FSAGSEFV-----------------------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE  121 (174)
Q Consensus        83 ~~~~~~~~-----------------------------------------~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~  121 (174)
                      ..+..+..                                         .++....++....+|+.++ +..++..+++.
T Consensus        95 ~ltv~en~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~LSGG~~Qrv~iAraL~~~P~lLl-lDEPt~gLD~~  173 (240)
T d1ji0a_          95 ELTVYENLMMGAYNRKDKEGIKRDLEWIFSLFPRLKERLKQLGGTLSGGEQQMLAIGRALMSRPKLLM-MDEPSLGLAPI  173 (240)
T ss_dssp             TSBHHHHHHGGGTTCCCSSHHHHHHHHHHHHCHHHHTTTTSBSSSSCHHHHHHHHHHHHHTTCCSEEE-EECTTTTCCHH
T ss_pred             CCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCHHHHHHCCHHHCCHHHHHHHHHHHHHHHCCCEEE-ECCCCCCCCHH
T ss_conf             63699999988873278889999999999874176888758543389999999999999982998740-03988679999


Q ss_pred             H-HHHHHHHHHHHHHHHCCCEEEEEECC
Q ss_conf             9-99999999987040008289999576
Q 030630          122 E-EAALHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus       122 ~-~~~~~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      . ..+.+.+++. ...  ..++++++|-
T Consensus       174 ~~~~i~~~i~~l-~~~--g~til~~tH~  198 (240)
T d1ji0a_         174 LVSEVFEVIQKI-NQE--GTTILLVEQN  198 (240)
T ss_dssp             HHHHHHHHHHHH-HHT--TCCEEEEESC
T ss_pred             HHHHHHHHHHHH-HHC--CCEEEEEECC
T ss_conf             999999999999-968--9989999588

>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=99.45  E-value=9.4e-14  Score=83.24  Aligned_cols=120  Identities=17%  Similarity=0.171  Sum_probs=73.7

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEE-EEEE-ECCCEEEEEECCCCCCCCCCHHHHHHHHHH
Q ss_conf             83389998499998889999873886432346898742256778-9997-489579999389999999990889999999
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ-RTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   96 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~-~~~~-~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~   96 (174)
                      +..+|+++|.+|+|||||++.++..... ....   .+...... .... .....+.++|++|........         
T Consensus         2 r~~KivvvG~~~vGKTsli~r~~~~~f~-~~~~---~t~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~---------   68 (167)
T d1c1ya_           2 REYKLVVLGSGGVGKSALTVQFVQGIFV-EKYD---PTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTAMR---------   68 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCC-CSCC---CCSEEEEEEEEESSSCEEEEEEEEECSSCSSTTHH---------
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHCCCCC-CCCC---CCCCCCCCEEEEEEEEEEEECCCCCCCCCCCCCCC---------
T ss_conf             5659999998998999999999709898-7558---75021110368862268874000246752234454---------


Q ss_pred             HHHHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             98740699319999996899889889-99999999987040008289999576788998
Q 030630           97 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        97 ~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                        ...+..+|++++++|.+++.+... ..+++.+.+....+ ..|+++|.||+|+....
T Consensus        69 --~~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~-~~p~ilvgnK~Dl~~~~  124 (167)
T d1c1ya_          69 --DLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTE-DVPMILVGNKCDLEDER  124 (167)
T ss_dssp             --HHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCS-CCCEEEEEECTTCGGGC
T ss_pred             --CCCCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHCCCC-CCEEEEEEEECCCCCCC
T ss_conf             --311223553588521043466676799999998851788-97099999843755431

>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=99.45  E-value=1e-13  Score=83.05  Aligned_cols=118  Identities=18%  Similarity=0.079  Sum_probs=72.9

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEE-ECCCEEEEEECCCCCCCCCCHHHHHHHHHHH
Q ss_conf             833899984999988899998738864323468987422567789997-4895799993899999999908899999999
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~   97 (174)
                      +..+|+++|.+|+|||||++.++.............   ......... .....+.++|++|.....           ..
T Consensus         4 ~~iKivviG~~~vGKTsli~~~~~~~f~~~~~~ti~---~~~~~~~~~~~~~~~~~~~d~~g~~~~~-----------~~   69 (183)
T d1mh1a_           4 QAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF---DNYSANVMVDGKPVNLGLWDTAGQEDYD-----------RL   69 (183)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSC---CEEEEEEEETTEEEEEEEECCCCSGGGT-----------TT
T ss_pred             EEEEEEEECCCCCCHHHHHHHHHHCCCCCCCCCCEE---ECEEEEEECCCCCEEEEEECCCCCCCCH-----------HH
T ss_conf             069999999999799999999974989854466311---0001100036863489860354300100-----------10


Q ss_pred             HHHCCCCCEEEEEEEECCCCCCHHH--HHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             8740699319999996899889889--9999999998704000828999957678899
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        98 ~~~~~~~~~~ii~v~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ....+..+|++++|+|.++.-+...  ..+...++.. ...  .|+++|.||+|+...
T Consensus        70 ~~~~~~~~~~~ilv~d~~~~~sf~~i~~~~~~~~~~~-~~~--~piilvgnK~Dl~~~  124 (183)
T d1mh1a_          70 RPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHH-CPN--TPIILVGTKLDLRDD  124 (183)
T ss_dssp             GGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-STT--SCEEEEEECHHHHTC
T ss_pred             HHHCCCCCCEEEEEECCCHHHHHHHHHHHHHHHHHHH-CCC--CCEEEEEECCCCHHH
T ss_conf             2212344551445203534788998999999999973-899--868998402222121

>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=99.45  E-value=6.9e-13  Score=78.98  Aligned_cols=119  Identities=14%  Similarity=0.116  Sum_probs=73.1

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHH
Q ss_conf             98338999849999888999987388643234689874225677899974895799993899999999908899999999
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~   97 (174)
                      .+..+|+++|.+|+|||||++++.+....... ....    ........ ....+.++|+++.....           ..
T Consensus        13 ~k~~kI~vvG~~~~GKSsLi~rl~~~~~~~~~-~~~~----~~~~~~~~-~~~~~~~~d~~~~~~~~-----------~~   75 (177)
T d1zj6a1          13 HQEHKVIIVGLDNAGKTTILYQFSMNEVVHTS-PTIG----SNVEEIVI-NNTRFLMWDIGGQESLR-----------SS   75 (177)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCEEEE-CCSC----SSCEEEEE-TTEEEEEEECCC----C-----------GG
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHHCCCCCCCC-CCCC----EEEEEEEE-CCEEEEEECCCCCCCCC-----------CC
T ss_conf             98579999999998989999999668887302-4333----35799840-53699995155310122-----------11


Q ss_pred             HHHCCCCCEEEEEEEECCCCCCHHHH-HHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             87406993199999968998898899-9999999987040008289999576788998
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEEE-AALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        98 ~~~~~~~~~~ii~v~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      .......++.++++++.++....... ......... ......|++++.||+|.....
T Consensus        76 ~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~-~~~~~~p~iiv~nK~Dl~~~~  132 (177)
T d1zj6a1          76 WNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAH-EDLRKAGLLIFANKQDVKECM  132 (177)
T ss_dssp             GHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTS-GGGTTCEEEEEEECTTSTTCC
T ss_pred             HHHHHCCCEEEEEECCCCCCCCHHHHHHHHHHHHHC-CCCCCEEEEEEEECCCCCCCC
T ss_conf             113321541566521445642145542001344320-355533799999705631217

>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=99.44  E-value=1.7e-13  Score=82.04  Aligned_cols=116  Identities=16%  Similarity=0.086  Sum_probs=71.6

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEE-ECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             3899984999988899998738864323468987422567789997-489579999389999999990889999999987
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~   99 (174)
                      .+++++|.+|+|||||++.++..... ....  +............ .....+.++|++|......           ...
T Consensus         3 ~KivliG~~~vGKTsli~r~~~~~f~-~~~~--~t~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~-----------~~~   68 (179)
T d1m7ba_           3 CKIVVVGDSQCGKTALLHVFAKDCFP-ENYV--PTVFENYTASFEIDTQRIELSLWDTSGSPYYDN-----------VRP   68 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCCC-SSCC--CCSEEEEEEEEECSSCEEEEEEEEECCSGGGTT-----------TGG
T ss_pred             EEEEEECCCCCCHHHHHHHHHHCCCC-CCCC--CCEEECCCCCCCCCCEEEEECCCCCCCCCCCCC-----------CCC
T ss_conf             69999999995989999999729999-8658--720101122102564477621333221111233-----------554


Q ss_pred             HCCCCCEEEEEEEECCCCCCHHH-H-HHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             40699319999996899889889-9-999999998704000828999957678899
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQEE-E-AALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~ii~v~~~~~~~~~~~-~-~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..+..+|++++|+|.++.-+... . .+...+... ...  .|+++|.||.|....
T Consensus        69 ~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~-~~~--~~iilVgnK~Dl~~~  121 (179)
T d1m7ba_          69 LSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEF-CPN--TKMLLVGCKSDLRTD  121 (179)
T ss_dssp             GGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-CTT--CEEEEEEECGGGGGC
T ss_pred             CHHHHHHHHHEEEECCCCCCHHHHHHHHHHHHHCC-CCC--CEEEEEEECCCCCCC
T ss_conf             10001234430230346777999988788887404-885--169998740344334

>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=99.44  E-value=5.8e-14  Score=84.26  Aligned_cols=120  Identities=14%  Similarity=0.054  Sum_probs=68.8

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEE-----------CCCEEEEEECCCCCCCCCCHHH
Q ss_conf             38999849999888999987388643234689874225677899974-----------8957999938999999999088
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-----------DGQVVNVIDTPGLFDFSAGSEF   89 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~-----------~~~~~~iiDtpg~~~~~~~~~~   89 (174)
                      .+|+++|.+|+|||||++.+++........  ...+.........+.           ....+.++||||..+       
T Consensus         6 ~Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~--~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e~-------   76 (186)
T d2f7sa1           6 IKLLALGDSGVGKTTFLYRYTDNKFNPKFI--TTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQER-------   76 (186)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHCSCCCCEEE--EEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHH-------
T ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCC--CCCCCEEEEEEEEEECCCCCCCCCCCCEEEECCCCCCCCHH-------
T ss_conf             899999999919899999996199998647--86540366789999010000134666358862555786456-------


Q ss_pred             HHHHHHHHHHHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             999999998740699319999996899889889-99999999987040008289999576788998
Q 030630           90 VGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                          +......++..++++++|+|.++..+... ..+...+.... .....|+++|.||.|+....
T Consensus        77 ----~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~~iilv~nK~Dl~~~~  137 (186)
T d2f7sa1          77 ----FRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANA-YCENPDIVLIGNKADLPDQR  137 (186)
T ss_dssp             ----HHHHHHHHHTTCCEEEEEEETTCHHHHHHHHHHHHTCCCCC-TTTCCEEEEEEECTTCGGGC
T ss_pred             ----HHHHHHHHHHCCCEEEEEEECCCCCCCEEEEECCCHHHHHC-CCCCCEEEEEEEECCCHHHH
T ss_conf             ----68899999726988999996323454114542112012213-67784299996312410221

>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=99.44  E-value=1.4e-13  Score=82.41  Aligned_cols=139  Identities=12%  Similarity=0.076  Sum_probs=87.7

Q ss_pred             CCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEE--EECCCEEEEEECCCCCC
Q ss_conf             7766543358999983389998499998889999873886432346898742256778999--74895799993899999
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTV--LKDGQVVNVIDTPGLFD   82 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~--~~~~~~~~iiDtpg~~~   82 (174)
                      ..+.++++|+++.|  ..++++|+||||||||++.|.+...+..|................  ..+....++++.|.+.+
T Consensus        18 ~~aL~~vsl~i~~G--e~~~iiG~sGsGKSTll~~i~gl~~p~~G~I~~~g~~i~~~~~~~~~~~rr~ig~vfQ~~~L~p   95 (242)
T d1oxxk2          18 VVALDNVNINIENG--ERFGILGPSGAGKTTFMRIIAGLDVPSTGELYFDDRLVASNGKLIVPPEDRKIGMVFQTWALYP   95 (242)
T ss_dssp             EEEEEEEEEEECTT--CEEEEECSCHHHHHHHHHHHHTSSCCSEEEEEETTEEEEETTEESSCGGGSCEEEEETTSCCCT
T ss_pred             EEEEECEEEEECCC--CEEEEECCCCCCHHHHHHHHHCCCCCCCCEEEECCEEEECCCHHHCCHHHCCCEEEECCCCCCC
T ss_conf             89980407898799--8999998999809999999975868887459999999513731115312045147730433466


Q ss_pred             CCCCHHHH-----------------------------------------HHHHHHHHHHCCCCCEEEEEEEECCCCCCHH
Q ss_conf             99990889-----------------------------------------9999999874069931999999689988988
Q 030630           83 FSAGSEFV-----------------------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE  121 (174)
Q Consensus        83 ~~~~~~~~-----------------------------------------~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~  121 (174)
                      ..+..+.+                                         .++-...++.....|+.++ +..++..+++.
T Consensus        96 ~ltv~eni~~~l~~~~~~~~~~~~~v~~~l~~~gL~~~~~~~p~~LSGGqkQRvaiARaL~~~P~lll-lDEPt~~LD~~  174 (242)
T d1oxxk2          96 NLTAFENIAFPLTNMKMSKEEIRKRVEEVAKILDIHHVLNHFPRELSGAQQQRVALARALVKDPSLLL-LDEPFSNLDAR  174 (242)
T ss_dssp             TSCHHHHHHGGGTTSSCCHHHHHHHHHHHHHHTTCGGGTTSCGGGSCHHHHHHHHHHHHHTTCCSEEE-EESTTTTSCGG
T ss_pred             CCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCHHHHHHCCHHHCCHHHHHHHHHHHHHHHCCCCEE-ECCCCCCCCHH
T ss_conf             66577776655676137999999999999866591766648954599999858998757760466145-44786679989


Q ss_pred             H-HHHHHHHHHHHHHHHCCCEEEEEECC
Q ss_conf             9-99999999987040008289999576
Q 030630          122 E-EAALHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus       122 ~-~~~~~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      . ..+++.+.+...+.  .-+++++||-
T Consensus       175 ~~~~i~~~i~~l~~~~--g~tvi~vTHd  200 (242)
T d1oxxk2         175 MRDSARALVKEVQSRL--GVTLLVVSHD  200 (242)
T ss_dssp             GHHHHHHHHHHHHHHH--CCEEEEEESC
T ss_pred             HHHHHHHHHHHHHHCC--CCEEEEEECC
T ss_conf             9889989999998635--9879999799

>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=99.44  E-value=1.9e-12  Score=76.85  Aligned_cols=116  Identities=13%  Similarity=0.041  Sum_probs=71.9

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             38999849999888999987388643234689874225677899974895799993899999999908899999999874
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      .+|+++|++|+|||||+|++++........     +.......... ....+.++|+||...           .......
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~~-----~~~~~~~~~~~-~~~~~~~~d~~g~~~-----------~~~~~~~   63 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIP-----TIGFNVETVEY-KNISFTVWDVGGQDK-----------IRPLWRH   63 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCC-----CSSCCEEEEEC-SSCEEEEEECCCCGG-----------GHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCCCCC-----CEEEEEEEEEE-EEEEEEEECCCCCCC-----------CHHHHHH
T ss_conf             989999999989899999996598886221-----11467999730-169998862788400-----------0156666


Q ss_pred             CCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             0699319999996899889889-99999999987040008289999576788998
Q 030630          101 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus       101 ~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      ....++++++++|..+...... ..+...+..... ....+++++.||.|.....
T Consensus        64 ~~~~~~~~i~~~d~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~~v~~k~d~~~~~  117 (160)
T d1r8sa_          64 YFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDE-LRDAVLLVFANKQDLPNAM  117 (160)
T ss_dssp             HTTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCGG-GTTCEEEEEEECTTSTTCC
T ss_pred             HHCCCEEEEEEEEECCHHHHHHHHHHHHHHHHHHC-CCCCEEEEEEECCCCCCCC
T ss_conf             42053268999874273777777777788877640-4575499975102443444

>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=99.43  E-value=1.4e-12  Score=77.46  Aligned_cols=117  Identities=21%  Similarity=0.137  Sum_probs=70.2

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECC--CEEEEEECCCCCCCCCCHHHHHHHHHHH
Q ss_conf             33899984999988899998738864323468987422567789997489--5799993899999999908899999999
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~iiDtpg~~~~~~~~~~~~~~~~~~   97 (174)
                      ..+++++|.+|+|||||+++++..... ..   ...|............+  ..+.++|++|....    ..    ....
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~~~f~-~~---~~pTi~~~~~~~~~~~~~~~~l~i~D~~g~~~~----~~----~~~~   69 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLTKRFI-WE---YDPTLESTYRHQATIDDEVVSMEILDTAGQEDT----IQ----REGH   69 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSCCC-SC---CCTTCCEEEEEEEEETTEEEEEEEEECCCCCCC----HH----HHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHCCCC-CC---CCCCEECCCCCCCCCCCCCEEEEEEECCCCCCC----CC----CHHH
T ss_conf             679999998997899999999739898-76---377310011121124663217888511122223----44----3154


Q ss_pred             HHHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             8740699319999996899889889-9999999998704000828999957678899
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        98 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                          +..++++++|+|.+++.+... ..+.......... ...|++++.||+|+...
T Consensus        70 ----~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~-~~~piilvgnK~Dl~~~  121 (168)
T d2atva1          70 ----MRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKP-KNVTLILVGNKADLDHS  121 (168)
T ss_dssp             ----HHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTT-SCCCEEEEEECGGGGGG
T ss_pred             ----HCCCCCCEEECCCCCCCCHHHHHHHCCCCCCCCCC-CCCCEEEECCCHHHHHH
T ss_conf             ----33641000102568865324455400112111134-67522665141025553

>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=99.43  E-value=1.1e-12  Score=78.05  Aligned_cols=122  Identities=20%  Similarity=0.126  Sum_probs=71.8

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCCCCC-CCCCCCCEEEEEEEEEEE-CCCEEEEEECCCCCCCCCCHHHHHHHHHHH
Q ss_conf             338999849999888999987388643234-689874225677899974-895799993899999999908899999999
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSR-ASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~-~~~~~~t~~~~~~~~~~~-~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~   97 (174)
                      -.+|+++|.+|+|||||++.+++....... ..+.+.....  ...... +...+.++|+|+...     ..   ++  .
T Consensus         3 ~~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~--~~~~~~~~~~~~~~~d~~~~~g-----~e---~~--~   70 (172)
T d2g3ya1           3 YYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYE--RTLMVDGESATIILLDMWENKG-----EN---EW--L   70 (172)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEE--EEEEETTEEEEEEEECCTTTTH-----HH---HH--H
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHCCCCCCCCCCCEEEECCE--EEECCCCCEEEEEEECCCCCCC-----CC---CC--C
T ss_conf             87999999899299999999972867756656625531000--0000488515555621443122-----22---12--2


Q ss_pred             HHHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             8740699319999996899889889-99999999987040008289999576788998
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        98 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      ...++..+|++++|+|.++.-+... ..+...+....+. ...|+++|.||+|+....
T Consensus        71 ~~~~~~~~~~~ilvfd~t~~~s~~~~~~~~~~i~~~~~~-~~~piilvgnK~Dl~~~~  127 (172)
T d2g3ya1          71 HDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQT-EDIPIILVGNKSDLVRCR  127 (172)
T ss_dssp             HHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGGG-TTSCEEEEEECTTCGGGC
T ss_pred             CCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCC-CCCEEEEEECCCCCCCCC
T ss_conf             333333442033431122000122123555554300246-771299984044533334

>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=99.43  E-value=9.7e-14  Score=83.18  Aligned_cols=134  Identities=18%  Similarity=0.117  Sum_probs=85.0

Q ss_pred             CCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCC
Q ss_conf             76654335899998338999849999888999987388643234689874225677899974895799993899999999
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~   85 (174)
                      ...++++|+++.|  ..++++|+||||||||++.|+|...+.+|..............  . +....++++.|.+....+
T Consensus        14 ~aL~~vs~~i~~G--e~~~liGpsGaGKSTll~~l~Gl~~p~sG~I~~~G~~i~~~~~--~-~r~ig~v~Q~~~l~~~~t   88 (229)
T d3d31a2          14 FSLDNLSLKVESG--EYFVILGPTGAGKTLFLELIAGFHVPDSGRILLDGKDVTDLSP--E-KHDIAFVYQNYSLFPHMN   88 (229)
T ss_dssp             CEEEEEEEEECTT--CEEEEECCCTHHHHHHHHHHHTSSCCSEEEEEETTEECTTSCH--H-HHTCEEECTTCCCCTTSC
T ss_pred             EEEEEEEEEECCC--CEEEEECCCCCCHHHHHHHHHCCCCCCCCEEEECCEECCCCCH--H-HHCCEEECCCCCCCCCCC
T ss_conf             7884337898799--8999998999829999999964768887889995673465216--5-740561512111174665


Q ss_pred             CHHHH--------------------------------------HHHHHHHHHHCCCCCEEEEEEEECCCCCCHHH-HHHH
Q ss_conf             90889--------------------------------------99999998740699319999996899889889-9999
Q 030630           86 GSEFV--------------------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAAL  126 (174)
Q Consensus        86 ~~~~~--------------------------------------~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~  126 (174)
                      ..+.+                                      .++-...++.....|..++ +..++..+++.. ..+.
T Consensus        89 V~enl~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LSGG~~QRvaiAraL~~~P~iLl-lDEPts~LD~~~~~~i~  167 (229)
T d3d31a2          89 VKKNLEFGMRMKKIKDPKRVLDTARDLKIEHLLDRNPLTLSGGEQQRVALARALVTNPKILL-LDEPLSALDPRTQENAR  167 (229)
T ss_dssp             HHHHHHHHHHHHCCCCHHHHHHHHHHTTCTTTTTSCGGGSCHHHHHHHHHHHHTTSCCSEEE-EESSSTTSCHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCHHHHHHHHHHHHCCHHHHHCCHHHCCHHHHCCHHHHHHHHCCCCCEE-ECCCCCCCCHHHHHHHH
T ss_conf             77888887764055389999999998256555758955479998401403043443677144-34787679989999999


Q ss_pred             HHHHHHHHHHHCCCEEEEEEC
Q ss_conf             999998704000828999957
Q 030630          127 HSLQTLFGKKIFDYMIVVFTG  147 (174)
Q Consensus       127 ~~l~~~~~~~~~~~~~iv~tk  147 (174)
                      +.+.+...+.  .-+++++||
T Consensus       168 ~~l~~l~~~~--g~tii~vtH  186 (229)
T d3d31a2         168 EMLSVLHKKN--KLTVLHITH  186 (229)
T ss_dssp             HHHHHHHHHT--TCEEEEEES
T ss_pred             HHHHHHHHCC--CCEEEEECC
T ss_conf             9999998647--968999749

>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=99.42  E-value=3.8e-13  Score=80.28  Aligned_cols=118  Identities=21%  Similarity=0.250  Sum_probs=74.0

Q ss_pred             CEEEEEECCCCCCHHHHHHHHH---CCCCCC--------------------------CCCCCCCCCEEEEEEEEEEECCC
Q ss_conf             3389998499998889999873---886432--------------------------34689874225677899974895
Q 030630           20 ERTVVLVGRTGNGKSATGNSIL---GRRAFK--------------------------SRASSSGVTSTCEMQRTVLKDGQ   70 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~---~~~~~~--------------------------~~~~~~~~t~~~~~~~~~~~~~~   70 (174)
                      ...|+++|+.++|||||+..|+   |.....                          ......+.+.........+ ...
T Consensus        24 ~iNi~iiGHVD~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~-~~~  102 (245)
T d1r5ba3          24 HVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFET-EHR  102 (245)
T ss_dssp             EEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEEC-SSE
T ss_pred             CEEEEEEEECCCCHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCCC-CCC
T ss_conf             2499999527989999999999984994588999999887742775421134430233112468655444221211-331


Q ss_pred             EEEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCC-------HHHHHHHHHHHHHHHHHHCCCEEE
Q ss_conf             7999938999999999088999999998740699319999996899889-------889999999999870400082899
Q 030630           71 VVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFS-------QEEEAALHSLQTLFGKKIFDYMIV  143 (174)
Q Consensus        71 ~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~-------~~~~~~~~~l~~~~~~~~~~~~~i  143 (174)
                      .+.++||||..++           ..........+|++++|+++.++.-       ..+.+.+..+... +   .+++++
T Consensus       103 ~i~~iDtPGH~df-----------~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~~-~---i~~iiv  167 (245)
T d1r5ba3         103 RFSLLDAPGHKGY-----------VTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQ-G---INHLVV  167 (245)
T ss_dssp             EEEECCCCC----------------------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHT-T---CSSEEE
T ss_pred             EEEEECCCCCCCC-----------HHHHHHHHHHHCCEEEEEECCCCCCCCCCCCCCCHHHHHHHHHHC-C---CCEEEE
T ss_conf             0355425555442-----------366652144303004678747776677653320229999999985-9---995999


Q ss_pred             EEECCCCCCC
Q ss_conf             9957678899
Q 030630          144 VFTGGDELED  153 (174)
Q Consensus       144 v~tk~D~~~~  153 (174)
                      ++||+|....
T Consensus       168 ~iNKmD~~~~  177 (245)
T d1r5ba3         168 VINKMDEPSV  177 (245)
T ss_dssp             EEECTTSTTC
T ss_pred             EEECCCCCCC
T ss_conf             9976887753

>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=99.42  E-value=1.3e-13  Score=82.63  Aligned_cols=137  Identities=13%  Similarity=0.069  Sum_probs=84.0

Q ss_pred             CCCCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCC
Q ss_conf             88776654335899998338999849999888999987388643234689874225677899974895799993899999
Q 030630            3 GGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   82 (174)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~   82 (174)
                      |+..+.++++|++++|  ..++++|+||||||||++.|+|...+..|........... ..... +....++.+.+++..
T Consensus        13 g~~~vl~~vs~~v~~G--ei~glvG~nGaGKSTLl~~l~G~~~p~~G~i~i~G~~i~~-~~~~~-~~~i~~vpq~~~~~~   88 (238)
T d1vpla_          13 GKKEILKGISFEIEEG--EIFGLIGPNGAGKTTTLRIISTLIKPSSGIVTVFGKNVVE-EPHEV-RKLISYLPEEAGAYR   88 (238)
T ss_dssp             TTEEEEEEEEEEECTT--CEEEEECCTTSSHHHHHHHHTTSSCCSEEEEEETTEETTT-CHHHH-HTTEEEECTTCCCCT
T ss_pred             CCEEEECCCEEEECCC--CEEEEECCCCCCHHHHHHHHHCCCCCCCCEEEECCEECCC-CHHHH-HHHEEEEEECCCCCC
T ss_conf             9999980625688489--7999999999999999999966988788879998672446-83988-721867500154687


Q ss_pred             CCCCHHHH-----------------------------------------HHHHHHHHHHCCCCCEEEEEEEECCCCCCHH
Q ss_conf             99990889-----------------------------------------9999999874069931999999689988988
Q 030630           83 FSAGSEFV-----------------------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE  121 (174)
Q Consensus        83 ~~~~~~~~-----------------------------------------~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~  121 (174)
                      .....+.+                                         .++-...++.....|.. +++..++.++++.
T Consensus        89 ~ltv~e~l~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~lSgG~~qrv~iA~al~~~p~i-llLDEPt~gLD~~  167 (238)
T d1vpla_          89 NMQGIEYLRFVAGFYASSSSEIEEMVERATEIAGLGEKIKDRVSTYSKGMVRKLLIARALMVNPRL-AILDEPTSGLDVL  167 (238)
T ss_dssp             TSBHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCGGGGGSBGGGCCHHHHHHHHHHHHHTTCCSE-EEEESTTTTCCHH
T ss_pred             CCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCE-EEECCCCCCCCHH
T ss_conf             866778889899861799899999999999867978888504533799898999999998659998-8733798897989


Q ss_pred             HH-HHHHHHHHHHHHHHCCCEEEEEEC
Q ss_conf             99-999999998704000828999957
Q 030630          122 EE-AALHSLQTLFGKKIFDYMIVVFTG  147 (174)
Q Consensus       122 ~~-~~~~~l~~~~~~~~~~~~~iv~tk  147 (174)
                      .+ .+.+.+++. ...  ..+++++||
T Consensus       168 ~~~~i~~~i~~~-~~~--g~tii~~tH  191 (238)
T d1vpla_         168 NAREVRKILKQA-SQE--GLTILVSSH  191 (238)
T ss_dssp             HHHHHHHHHHHH-HHT--TCEEEEEEC
T ss_pred             HHHHHHHHHHHH-HHC--CCEEEEEEC
T ss_conf             999999999999-965--998999959

>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=99.40  E-value=2.8e-12  Score=75.98  Aligned_cols=121  Identities=9%  Similarity=0.040  Sum_probs=76.8

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHHC
Q ss_conf             89998499998889999873886432346898742256778999748957999938999999999088999999998740
Q 030630           22 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  101 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~~  101 (174)
                      +|+++|++|+|||||+|.+++.....     ...+.........+ ......++|+++...           ........
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~~-----~~~t~~~~~~~~~~-~~~~~~~~~~~~~~~-----------~~~~~~~~   64 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLAT-----LQPTWHPTSEELAI-GNIKFTTFDLGGHIQ-----------ARRLWKDY   64 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCC-----CCCCCSCEEEEECC-TTCCEEEEECCCSGG-----------GGGGGGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCE-----EECEEEEEEEEECC-CCEEEEEEEECCCHH-----------HHHHHHHH
T ss_conf             89999999999999999995899871-----50246276899505-875678874032113-----------46667654


Q ss_pred             CCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCHHHHHHHH
Q ss_conf             699319999996899889889-9999999998704000828999957678899801089985
Q 030630          102 KDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYL  162 (174)
Q Consensus       102 ~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~  162 (174)
                      ....++++++++..+...... ..+....... ......+++++.||.|....  ...++..
T Consensus        65 ~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~i~~~k~d~~~~--~~~~~i~  123 (166)
T d2qtvb1          65 FPEVNGIVFLVDAADPERFDEARVELDALFNI-AELKDVPFVILGNKIDAPNA--VSEAELR  123 (166)
T ss_dssp             CTTCSEEEEEEETTCGGGHHHHHHHHHHHHTC-TTTTTCCEEEEEECTTSSSC--CCHHHHH
T ss_pred             HHHEEEEEEECCCCCHHHHHHHHHHHHHHHHH-HCCCCCEEEEEECCCCCCCC--CCHHHHH
T ss_conf             00004642300033402103456787763200-10378549998413364123--7899999

>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=99.40  E-value=8.6e-13  Score=78.53  Aligned_cols=115  Identities=21%  Similarity=0.139  Sum_probs=70.0

Q ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECC--CEEEEEECCCCCCCCCCHHHHHHHH
Q ss_conf             99833899984999988899998738864323468987422567789997489--5799993899999999908899999
Q 030630           17 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEI   94 (174)
Q Consensus        17 ~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~iiDtpg~~~~~~~~~~~~~~~   94 (174)
                      +.+..+++++|..|+|||||++++++... ... ...  +.......... ++  ..+.++||+|...     ..     
T Consensus         2 ~~p~~ki~vlG~~~vGKTsLi~~~~~~~f-~~~-~~t--~~~~~~~~i~v-~~~~~~l~i~Dt~g~~~-----~~-----   66 (175)
T d2bmja1           2 SIPELRLGVLGDARSGKSSLIHRFLTGSY-QVL-EKT--ESEQYKKEMLV-DGQTHLVLIREEAGAPD-----AK-----   66 (175)
T ss_dssp             CCCEEEEEEECCTTTTHHHHHHHHHHSCC-CCC-CCS--SCEEEEEEEEE-TTEEEEEEEEECSSCCC-----HH-----
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHCCC-CCC-CCC--CCEEEEEEEEC-CCEEEEEEEEECCCCCC-----CC-----
T ss_conf             98837999999899789999999971978-776-775--54047787404-85689999850453210-----01-----


Q ss_pred             HHHHHHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHH-HCCCEEEEEECCCCCC
Q ss_conf             9998740699319999996899889889-99999999987040-0082899995767889
Q 030630           95 VKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKK-IFDYMIVVFTGGDELE  152 (174)
Q Consensus        95 ~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~-~~~~~~iv~tk~D~~~  152 (174)
                        .    +..+|++++|+|.+++-+... ..|.+.+....... ...|+++|.||.|.-.
T Consensus        67 --~----~~~ad~~ilVfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~  120 (175)
T d2bmja1          67 --F----SGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISA  120 (175)
T ss_dssp             --H----HHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCS
T ss_pred             --C----CCCCCEEEEEEECCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCCH
T ss_conf             --3----55665368886101211244157888889998640367861788753047404

>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=99.38  E-value=5.7e-14  Score=84.30  Aligned_cols=143  Identities=14%  Similarity=0.084  Sum_probs=80.3

Q ss_pred             CCCCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCC
Q ss_conf             88776654335899998338999849999888999987388643234689874225677899974895799993899999
Q 030630            3 GGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   82 (174)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~   82 (174)
                      |+..+.++++|+.+.|  ..++++|+||||||||++.|+|...+..|..................+....++.+.|.+..
T Consensus        15 g~~~aL~~vs~~v~~G--ei~~liG~nGaGKSTLl~~i~Gl~~p~~G~I~~~g~~i~~~~~~~~~~~gi~~v~Q~~~~~~   92 (254)
T d1g6ha_          15 GEFKALDGVSISVNKG--DVTLIIGPNGSGKSTLINVITGFLKADEGRVYFENKDITNKEPAELYHYGIVRTFQTPQPLK   92 (254)
T ss_dssp             TTEEEEEEECCEEETT--CEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEETTEECTTCCHHHHHHHTEEECCCCCGGGG
T ss_pred             CCEEEECCEEEEECCC--CEEEEECCCCCCHHHHHHHHHCCCCCCCCEEEECCEECCCHHHHHHHHHCCCCCCCCCCCCC
T ss_conf             9968871217998899--79999999998499999999779768873799999966405699999833872577642478


Q ss_pred             CCCC---------------------------HHHH---------------------------HHHHHHHHHHCCCCCEEE
Q ss_conf             9999---------------------------0889---------------------------999999987406993199
Q 030630           83 FSAG---------------------------SEFV---------------------------GKEIVKCIGMAKDGIHAV  108 (174)
Q Consensus        83 ~~~~---------------------------~~~~---------------------------~~~~~~~~~~~~~~~~~i  108 (174)
                      ..+.                           ....                           .++....++.....|++ 
T Consensus        93 ~ltv~enl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~LSgG~~Qrv~iAraL~~~P~l-  171 (254)
T d1g6ha_          93 EMTVLENLLIGEICPGESPLNSLFYKKWIPKEEEMVEKAFKILEFLKLSHLYDRKAGELSGGQMKLVEIGRALMTNPKM-  171 (254)
T ss_dssp             GSBHHHHHHGGGTSTTSCHHHHHHHCSSCCCCHHHHHHHHHHHHHTTCGGGTTSBGGGSCHHHHHHHHHHHHHHTCCSE-
T ss_pred             CCEEEEEEEEHHHHCCCCCHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCHHCCCCHHHCCCHHHHHHHHHHHHHHCCCC-
T ss_conf             8742321430133303450456654213532899999999998761963020595356991888899999999759272-


Q ss_pred             EEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEEC-CCCC
Q ss_conf             99996899889889-9999999998704000828999957-6788
Q 030630          109 LVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTG-GDEL  151 (174)
Q Consensus       109 i~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk-~D~~  151 (174)
                      +++..++..++... ..+.+.+.+. ...  ..++++++| ++.+
T Consensus       172 lilDEPt~gLD~~~~~~i~~~i~~l-~~~--g~til~vsHdl~~~  213 (254)
T d1g6ha_         172 IVMDEPIAGVAPGLAHDIFNHVLEL-KAK--GITFLIIEHRLDIV  213 (254)
T ss_dssp             EEEESTTTTCCHHHHHHHHHHHHHH-HHT--TCEEEEECSCCSTT
T ss_pred             HHHCCCCCCCCHHHHHHHHHHHHHH-HHC--CCEEEEEECCHHHH
T ss_conf             3243976569999999999999999-978--99899994769999

>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=99.37  E-value=1.2e-13  Score=82.69  Aligned_cols=137  Identities=15%  Similarity=0.069  Sum_probs=79.1

Q ss_pred             CCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCC-
Q ss_conf             7665433589999833899984999988899998738864323468987422567789997489579999389999999-
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS-   84 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~-   84 (174)
                      -+.++++|+++.|  ..++++|++|||||||++.|++...+..|................+ .....++...|.+.... 
T Consensus        28 ~vL~~isl~i~~G--e~vaivG~sGsGKSTLl~li~gl~~p~~G~I~i~g~~i~~~~~~~~-r~~i~~v~Q~~~lf~~tv  104 (251)
T d1jj7a_          28 LVLQGLTFTLRPG--EVTALVGPNGSGKSTVAALLQNLYQPTGGQLLLDGKPLPQYEHRYL-HRQVAAVGQEPQVFGRSL  104 (251)
T ss_dssp             CSEEEEEEEECTT--CEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEETTEEGGGBCHHHH-HHHEEEECSSCCCCSSBH
T ss_pred             EEEECEEEEECCC--CEEEEECCCCCCHHHHHHHHHCCCCCCCCEEEECCEECCHHHHHHH-HHHHHHCCCCCCCCCCCH
T ss_conf             7674438998499--8999999999849999999861437876899889985311013788-877654045650027634


Q ss_pred             -----------CCHHH----------------------------------HHHHHHHHHHHCCCCCEEEEEEEECCCCCC
Q ss_conf             -----------99088----------------------------------999999998740699319999996899889
Q 030630           85 -----------AGSEF----------------------------------VGKEIVKCIGMAKDGIHAVLVVFSVRSRFS  119 (174)
Q Consensus        85 -----------~~~~~----------------------------------~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~  119 (174)
                                 .....                                  -.++....++..+..+++++ +..+++.++
T Consensus       105 ~eni~~g~~~~~~~~~~~~~~~~~~~~~~i~~l~~g~~~~i~~~~~~LSGGqkQRvaiARal~~~p~ili-lDEpTs~LD  183 (251)
T d1jj7a_         105 QENIAYGLTQKPTMEEITAAAVKSGAHSFISGLPQGYDTEVDEAGSQLSGGQRQAVALARALIRKPCVLI-LDDATSALD  183 (251)
T ss_dssp             HHHHHCSCSSCCCHHHHHHHHHHHTCHHHHHTSTTGGGCBCCSSCSSSCHHHHHHHHHHHHHTTCCSEEE-EESTTTTCC
T ss_pred             HHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHCCCCCCCHHHCEEEEEEECCCCCCCEEE-ECCCCCCCC
T ss_conf             6554542101302788999999998999998561211136751676689547048998604456870787-167576568


Q ss_pred             HHH-HHHHHHHHHHHHHHHCCCEEEEEECC
Q ss_conf             889-99999999987040008289999576
Q 030630          120 QEE-EAALHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus       120 ~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      ... ..+++.+.+.....  ..+++++||-
T Consensus       184 ~~~~~~i~~~l~~l~~~~--~~Tvi~itH~  211 (251)
T d1jj7a_         184 ANSQLQVEQLLYESPERY--SRSVLLITQH  211 (251)
T ss_dssp             HHHHHHHHHHHHTCGGGG--GCEEEEECSC
T ss_pred             HHHHHHHHHHHHHHHHHC--CCEEEEEECC
T ss_conf             536899999999976506--9899999597

>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=99.36  E-value=2.7e-13  Score=81.01  Aligned_cols=137  Identities=15%  Similarity=0.115  Sum_probs=80.4

Q ss_pred             CCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEE---EECCCEEEEEECCCCCCC
Q ss_conf             66543358999983389998499998889999873886432346898742256778999---748957999938999999
Q 030630            7 IDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTV---LKDGQVVNVIDTPGLFDF   83 (174)
Q Consensus         7 ~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~---~~~~~~~~iiDtpg~~~~   83 (174)
                      +.++++|+++.|  ..++++|++|||||||++.|.|...+..|................   +++....++.+.|.+...
T Consensus        20 al~~isl~i~~G--e~~~iiG~sGsGKSTLl~~i~gl~~p~sG~I~~~g~~i~~~~~~~~~~~r~~~ig~v~Q~~~l~~~   97 (230)
T d1l2ta_          20 ALKNVNLNIKEG--EFVSIMGPSGSGKSTMLNIIGCLDKPTEGEVYIDNIKTNDLDDDELTKIRRDKIGFVFQQFNLIPL   97 (230)
T ss_dssp             EEEEEEEEECTT--CEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEETTEECTTCCHHHHHHHHHHHEEEECTTCCCCTT
T ss_pred             EEECEEEEECCC--CEEEEECCCCCCCCHHHHHCCCCCCCCCCEEEECCEECCCCCHHHCCHHHCCEEEEEECCHHHCCC
T ss_conf             871337788499--799998899998216557506887777662699999857688555123125557788041241768


Q ss_pred             CCCHHHH---------------------------------------------HHHHHHHHHHCCCCCEEEEEEEECCCCC
Q ss_conf             9990889---------------------------------------------9999999874069931999999689988
Q 030630           84 SAGSEFV---------------------------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRF  118 (174)
Q Consensus        84 ~~~~~~~---------------------------------------------~~~~~~~~~~~~~~~~~ii~v~~~~~~~  118 (174)
                      .+..+..                                             .++-...++.....|+. +++..++..+
T Consensus        98 ~tv~eni~~~~~~~~~~~~~~~~~~~~~~~~l~~~~L~~~~~~~~p~~LSGGqkQRvaIAraL~~~P~l-LllDEPTs~L  176 (230)
T d1l2ta_          98 LTALENVELPLIFKYRGAMSGEERRKRALECLKMAELEERFANHKPNQLSGGQQQRVAIARALANNPPI-ILADQPTGAL  176 (230)
T ss_dssp             SCHHHHHHHHHHTCCSSCCCHHHHHHHHHHHHHHTTCCGGGTTCCGGGSCHHHHHHHHHHHHHTTCCSE-EEEESTTTTS
T ss_pred             CCHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHCHHHHHHCCCHHHCCHHHHHHHHHHHHHHCCCCE-EEECCCCCCC
T ss_conf             668887757888722478999999999999887624234553488023899999999987565227888-9946876546


Q ss_pred             CHHH-HHHHHHHHHHHHHHHCCCEEEEEECC
Q ss_conf             9889-99999999987040008289999576
Q 030630          119 SQEE-EAALHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus       119 ~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      ++.. ..+++.+.+...+.  ..+++++||-
T Consensus       177 D~~~~~~i~~~l~~l~~~~--g~tii~vTHd  205 (230)
T d1l2ta_         177 DSKTGEKIMQLLKKLNEED--GKTVVVVTHD  205 (230)
T ss_dssp             CHHHHHHHHHHHHHHHHTT--CCEEEEECSC
T ss_pred             CHHHHHHHHHHHHHHHHHH--CCEEEEECCC
T ss_conf             9899999999999999843--9999998788

>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=99.36  E-value=1.1e-13  Score=82.82  Aligned_cols=135  Identities=12%  Similarity=0.084  Sum_probs=78.6

Q ss_pred             CCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCC-
Q ss_conf             7766543358999983389998499998889999873886432346898742256778999748957999938999999-
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF-   83 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~-   83 (174)
                      ..+..+++|++++|  ..++++|++|||||||++.|+|...+..|................+ .....++...|.+... 
T Consensus        15 ~~vL~~isl~i~~G--e~vaivG~sGsGKSTLl~ll~gl~~p~~G~I~i~g~~i~~~~~~~~-r~~i~~v~Q~~~lf~~t   91 (242)
T d1mv5a_          15 EQILRDISFEAQPN--SIIAFAGPSGGGKSTIFSLLERFYQPTAGEITIDGQPIDNISLENW-RSQIGFVSQDSAIMAGT   91 (242)
T ss_dssp             SCSEEEEEEEECTT--EEEEEECCTTSSHHHHHHHHTTSSCCSBSCEEETTEESTTTSCSCC-TTTCCEECCSSCCCCEE
T ss_pred             CCEEEEEEEEECCC--CEEEEECCCCCCHHHHHHHHHHHHCCCCCEEEECCEEECCCCHHHH-HHHEEEECCCCCCCCCC
T ss_conf             84142258998599--9999999999979999999999609898779889988442467888-74367975665457853


Q ss_pred             -----------CCCHHHH----------------------------------HHHHHHHHHHCCCCCEEEEEEEECCCCC
Q ss_conf             -----------9990889----------------------------------9999999874069931999999689988
Q 030630           84 -----------SAGSEFV----------------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRF  118 (174)
Q Consensus        84 -----------~~~~~~~----------------------------------~~~~~~~~~~~~~~~~~ii~v~~~~~~~  118 (174)
                                 .......                                  .++....++..+..+++++ +..+++.+
T Consensus        92 i~eNi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~g~~LSGGqkQRv~iARal~~~p~ili-lDEpts~L  170 (242)
T d1mv5a_          92 IRENLTYGLEGDYTDEDLWQVLDLAFARSFVENMPDQLNTEVGERGVKISGGQRQRLAIARAFLRNPKILM-LDEATASL  170 (242)
T ss_dssp             HHHHTTSCTTSCSCHHHHHHHHHHHTCTTTTTSSTTGGGCEESTTSBCCCHHHHHHHHHHHHHHHCCSEEE-EECCSCSS
T ss_pred             HHHHEECCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCEEE-ECCCCCCC
T ss_conf             45430124455542356778999997555420374210152368789879999999999999852998999-65886556


Q ss_pred             CHHH-HHHHHHHHHHHHHHHCCCEEEEEEC
Q ss_conf             9889-9999999998704000828999957
Q 030630          119 SQEE-EAALHSLQTLFGKKIFDYMIVVFTG  147 (174)
Q Consensus       119 ~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk  147 (174)
                      +... ..+++.+.... .   ..+++++||
T Consensus       171 D~~~~~~i~~~l~~l~-~---~~Tvi~itH  196 (242)
T d1mv5a_         171 DSESESMVQKALDSLM-K---GRTTLVIAH  196 (242)
T ss_dssp             CSSSCCHHHHHHHHHH-T---TSEEEEECC
T ss_pred             CHHHHHHHHHHHHHHC-C---CCEEEEEEC
T ss_conf             9889999988788871-7---998999978

>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=99.36  E-value=1.3e-13  Score=82.51  Aligned_cols=135  Identities=16%  Similarity=0.146  Sum_probs=78.9

Q ss_pred             CCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCC-
Q ss_conf             7665433589999833899984999988899998738864323468987422567789997489579999389999999-
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS-   84 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~-   84 (174)
                      -+.++++|+++.|  .+++++|++|||||||++.|+|...+..|................+ .....++...|-+.... 
T Consensus        17 ~vL~~isl~i~~G--e~vaIvG~sGsGKSTLl~ll~gl~~p~~G~I~i~g~~i~~~~~~~l-r~~i~~v~Q~~~lf~~Ti   93 (241)
T d2pmka1          17 VILDNINLSIKQG--EVIGIVGRSGSGKSTLTKLIQRFYIPENGQVLIDGHDLALADPNWL-RRQVGVVLQDNVLLNRSI   93 (241)
T ss_dssp             EEEEEEEEEEETT--CEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEETTEETTTSCHHHH-HHHEEEECSSCCCTTSBH
T ss_pred             CEEEEEEEEECCC--CEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEECCEEECCCCHHHH-HCEEEEEECCCCCCCCCC
T ss_conf             0374248998499--9999999999989999999973578888899999999440024655-352889824465578400


Q ss_pred             ----------CCHHHH----------------------------------HHHHHHHHHHCCCCCEEEEEEEECCCCCCH
Q ss_conf             ----------990889----------------------------------999999987406993199999968998898
Q 030630           85 ----------AGSEFV----------------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQ  120 (174)
Q Consensus        85 ----------~~~~~~----------------------------------~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~  120 (174)
                                ...+..                                  .++.+..++..+..+++++ +..+++.++.
T Consensus        94 ~eNi~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~t~i~~~g~~LSGGq~QRvalARal~~~p~ili-lDEpts~LD~  172 (241)
T d2pmka1          94 IDNISLANPGMSVEKVIYAAKLAGAHDFISELREGYNTIVGEQGAGLSGGQRQRIAIARALVNNPKILI-FDEATSALDY  172 (241)
T ss_dssp             HHHHCTTSTTCCHHHHHHHHHHHTCHHHHTTSTTGGGSBCSTTTTCCCHHHHHHHHHHHHHTTCCSEEE-ECCCCSCCCH
T ss_pred             CCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHCCCCCCCCCHHHHHHHHHHHHHHCCCCHHH-HHCCCCCCCH
T ss_conf             035223575543888999999975578887632013443278788669889898754434441651355-6477655598


Q ss_pred             HH-HHHHHHHHHHHHHHHCCCEEEEEECC
Q ss_conf             89-99999999987040008289999576
Q 030630          121 EE-EAALHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus       121 ~~-~~~~~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      .. ..+++.+.+...    ..+++++||-
T Consensus       173 ~~~~~i~~~l~~l~~----~~Tvi~itH~  197 (241)
T d2pmka1         173 ESEHVIMRNMHKICK----GRTVIIIAHR  197 (241)
T ss_dssp             HHHHHHHHHHHHHHT----TSEEEEECSS
T ss_pred             HHHHHHHHHHHHHHC----CCEEEEEECC
T ss_conf             999999999999858----9989999788

>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=99.35  E-value=1.9e-11  Score=71.87  Aligned_cols=118  Identities=14%  Similarity=0.077  Sum_probs=74.2

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             83389998499998889999873886432346898742256778999748957999938999999999088999999998
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~   98 (174)
                      +..+++++|.+|+|||||+|.+++......     ..+.......... +...+.+++.++....           ....
T Consensus         4 ke~kI~ivG~~~vGKSSLi~~~~~~~~~~~-----~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~-----------~~~~   66 (169)
T d1upta_           4 REMRILILGLDGAGKTTILYRLQVGEVVTT-----IPTIGFNVETVTY-KNLKFQVWDLGGLTSI-----------RPYW   66 (169)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCCCC-----CCCSSEEEEEEEE-TTEEEEEEEECCCGGG-----------GGGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCCCCE-----ECCCCEEEEEECC-CCEEEEEEECCCCCCC-----------CCCC
T ss_conf             632999999999899999999967987603-----4132135654036-8668887504541112-----------2200


Q ss_pred             HHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf             740699319999996899889889-99999999987040008289999576788998
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus        99 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~  154 (174)
                      .......+.++++++..+...... .......... ......+++++.||.|+....
T Consensus        67 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~iv~nk~Dl~~~~  122 (169)
T d1upta_          67 RCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEE-EELRKAILVVFANKQDMEQAM  122 (169)
T ss_dssp             GGGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTC-GGGTTCEEEEEEECTTSTTCC
T ss_pred             HHHHHHHHHHHHHHHHHHCCHHHHCCCHHHHHHHH-HCCCCCEEEEEEEECCCCCCC
T ss_conf             12321013321134443010001000011466665-303554179998605541101

>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=99.34  E-value=1e-12  Score=78.15  Aligned_cols=139  Identities=17%  Similarity=0.120  Sum_probs=83.2

Q ss_pred             CCCCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEE----EE--------ECCC
Q ss_conf             88776654335899998338999849999888999987388643234689874225677899----97--------4895
Q 030630            3 GGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRT----VL--------KDGQ   70 (174)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~----~~--------~~~~   70 (174)
                      |+..+.++++|+++.|  ..++++|++|||||||++.|+|...+..|...............    ..        ....
T Consensus        13 g~~~al~~vs~~i~~G--Ei~~iiG~sGsGKSTLl~~i~Gl~~p~~G~I~~~G~~i~~~~~~~~~~~~~~~~~~~~~r~~   90 (258)
T d1b0ua_          13 GGHEVLKGVSLQARAG--DVISIIGSSGSGKSTFLRCINFLEKPSEGAIIVNGQNINLVRDKDGQLKVADKNQLRLLRTR   90 (258)
T ss_dssp             TTEEEEEEEEEEECTT--CEEEEECCTTSSHHHHHHHHTTSSCCSEEEEEETTEECCEEECTTSSEEESCHHHHHHHHHH
T ss_pred             CCEEEECCEEEEECCC--CEEEEECCCCCCHHHHHHHHHCCCCCCCCCEEECCEEECCCCCCCHHCCCCCHHHHHHHHCC
T ss_conf             9999881506688699--79999989998299999999747667899779999993367752000023517679997454


Q ss_pred             EEEEEECCCCCCCCCCHHHH-------------------------------------------HHHHHHHHHHCCCCCEE
Q ss_conf             79999389999999990889-------------------------------------------99999998740699319
Q 030630           71 VVNVIDTPGLFDFSAGSEFV-------------------------------------------GKEIVKCIGMAKDGIHA  107 (174)
Q Consensus        71 ~~~iiDtpg~~~~~~~~~~~-------------------------------------------~~~~~~~~~~~~~~~~~  107 (174)
                      ..++++.|.+.......+.+                                           .++-...++....+|++
T Consensus        91 ig~vfQ~~~l~~~~tv~env~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~p~~LSGG~~QRv~iAraL~~~P~l  170 (258)
T d1b0ua_          91 LTMVFQHFNLWSHMTVLENVMEAPIQVLGLSKHDARERALKYLAKVGIDERAQGKYPVHLSGGQQQRVSIARALAMEPDV  170 (258)
T ss_dssp             EEEECSSCCCCTTSCHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHTTCCHHHHTSCGGGSCHHHHHHHHHHHHHHTCCSE
T ss_pred             EEEEEECHHHCCCHHCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCHHHHCCCCCCCCHHHHHHHHHHHHHHCCCCE
T ss_conf             48998332314110102136565787629998999999999999829952443068220567788898999998439987


Q ss_pred             EEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEEC
Q ss_conf             999996899889889-9999999998704000828999957
Q 030630          108 VLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTG  147 (174)
Q Consensus       108 ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk  147 (174)
                       +++..++..++... ..+++.+++.. ..  ..+++++||
T Consensus       171 -lilDEPT~gLD~~~~~~i~~ll~~l~-~~--g~til~vtH  207 (258)
T d1b0ua_         171 -LLFDEPTSALDPELVGEVLRIMQQLA-EE--GKTMVVVTH  207 (258)
T ss_dssp             -EEEESTTTTSCHHHHHHHHHHHHHHH-HT--TCCEEEECS
T ss_pred             -EEECCCCCCCCHHHHHHHHHHHHHHC-CC--CCCEEEEEC
T ss_conf             -88524555688788889987655410-36--883389948

>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=99.33  E-value=3.6e-13  Score=80.36  Aligned_cols=135  Identities=21%  Similarity=0.199  Sum_probs=77.0

Q ss_pred             CCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCC
Q ss_conf             76654335899998338999849999888999987388643234689874225677899974895799993899999999
Q 030630            6 AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus         6 ~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~   85 (174)
                      .+.++++|+++.|  ..++++|++|||||||++.|++...+..|................+ .....++...|.+.....
T Consensus        29 ~~L~~isl~i~~G--e~iaivG~sGsGKSTLl~ll~gl~~p~~G~I~i~g~~i~~~~~~~~-r~~i~~v~Q~~~l~~~ti  105 (253)
T d3b60a1          29 PALRNINLKIPAG--KTVALVGRSGSGKSTIASLITRFYDIDEGHILMDGHDLREYTLASL-RNQVALVSQNVHLFNDTV  105 (253)
T ss_dssp             CSEEEEEEEECTT--CEEEEEECTTSSHHHHHHHHTTTTCCSEEEEEETTEETTTBCHHHH-HHTEEEECSSCCCCSSBH
T ss_pred             CEEECEEEEECCC--CEEEEECCCCCHHHHHHHHHHCCCCCCCCEEEECCCCCCHHHHHHH-HHEEEEEEECCCCCCCCH
T ss_conf             6353328998599--9999999999859999999862168884689878801211106654-206879950254478620


Q ss_pred             ------------CHHHH----------------------------------HHHHHHHHHHCCCCCEEEEEEEECCCCCC
Q ss_conf             ------------90889----------------------------------99999998740699319999996899889
Q 030630           86 ------------GSEFV----------------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRFS  119 (174)
Q Consensus        86 ------------~~~~~----------------------------------~~~~~~~~~~~~~~~~~ii~v~~~~~~~~  119 (174)
                                  ..+..                                  .++.+..++..+..++ ++++..+++.++
T Consensus       106 ~~n~~~~~~~~~~~~~i~~a~~~~~l~~~i~~l~~gl~t~~~~~~~~LSGGqkQRvaiARal~~~p~-ililDEpts~LD  184 (253)
T d3b60a1         106 ANNIAYARTEEYSREQIEEAARMAYAMDFINKMDNGLDTIIGENGVLLSGGQRQRIAIARALLRDSP-ILILDEATSALD  184 (253)
T ss_dssp             HHHHHTTTTSCCCHHHHHHHHHTTTCHHHHHHSTTGGGSBCCTTSCSSCHHHHHHHHHHHHHHHCCS-EEEEETTTSSCC
T ss_pred             HHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCHHHHCCCCCCCCHHHHHHHHHHHHHHCCCC-EEEECCCCCCCC
T ss_conf             2433205722089999999999981799997355441014348889849999999999999954998-899516444589


Q ss_pred             HHH-HHHHHHHHHHHHHHHCCCEEEEEECC
Q ss_conf             889-99999999987040008289999576
Q 030630          120 QEE-EAALHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus       120 ~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      ... ..+++.+.....    ..+++++||-
T Consensus       185 ~~~~~~i~~~l~~l~~----~~Tvi~itH~  210 (253)
T d3b60a1         185 TESERAIQAALDELQK----NRTSLVIAHR  210 (253)
T ss_dssp             HHHHHHHHHHHHHHHT----TSEEEEECSC
T ss_pred             HHHHHHHHHHHHHHCC----CCEEEEEECC
T ss_conf             8899999999987522----7889999887

>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=99.32  E-value=3.4e-13  Score=80.49  Aligned_cols=137  Identities=14%  Similarity=0.091  Sum_probs=81.6

Q ss_pred             CCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEE--ECCCEEEEEECCCCCCCC
Q ss_conf             665433589999833899984999988899998738864323468987422567789997--489579999389999999
Q 030630            7 IDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL--KDGQVVNVIDTPGLFDFS   84 (174)
Q Consensus         7 ~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~~~iiDtpg~~~~~   84 (174)
                      +.++++|+++.|  ..++++|+||||||||++.|.|...+..|.................  .+....++++.|.+....
T Consensus        20 al~~vsl~i~~G--e~~~iiG~sGsGKSTLl~~i~Gl~~p~sG~I~~~g~~i~~~~~~~~~~~rr~ig~VfQ~~~l~~~~   97 (240)
T d3dhwc1          20 ALNNVSLHVPAG--QIYGVIGASGAGKSTLIRCVNLLERPTEGSVLVDGQELTTLSESELTKARRQIGMIFQHFNLLSSR   97 (240)
T ss_dssp             EEEEEEEEECSS--CEEEEEESTTSSHHHHHHHHTTSSCCSEEEEEETTEEECTTCHHHHHHHHHHEEECCSSCCCCTTS
T ss_pred             EEECEEEEECCC--CEEEEECCCCCCHHHHHHHHCCCCCCCCCCEEECCEEEEECCHHHHHHHHCCCCCCCCCCCCCCCC
T ss_conf             861505788699--799998999898889999875886366773288676852087555115541664302252227996


Q ss_pred             CCHHHH-----------------------------------------HHHHHHHHHHCCCCCEEEEEEEECCCCCCHHH-
Q ss_conf             990889-----------------------------------------99999998740699319999996899889889-
Q 030630           85 AGSEFV-----------------------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-  122 (174)
Q Consensus        85 ~~~~~~-----------------------------------------~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~-  122 (174)
                      +..+.+                                         .++-...++.....|++++ +..++..+++.. 
T Consensus        98 tv~eni~~~l~~~~~~~~~~~~~v~~~L~~vgL~~~~~~~~~~LSGG~~QRvaiAraL~~~P~lLl-lDEPt~~LD~~~~  176 (240)
T d3dhwc1          98 TVFGNVALPLELDNTPKDEVKRRVTELLSLVGLGDKHDSYPSNLSGGQKQRVAIARALASNPKVLL-CDEATSALDPATT  176 (240)
T ss_dssp             BHHHHHHHHHHTTTCCTTHHHHHHHHHHHHHSTTTTTSSCBSCCCHHHHHHHHHHHHHHTCCSEEE-EESGGGSSCHHHH
T ss_pred             CHHHHHHHHHHHCCCCHHHHHHHHHHHHHHCCCCHHHHCCHHHCCHHHHHHHHHHHHHCCCCCEEE-ECCCCCCCCHHHH
T ss_conf             499999999998499989999999999997699035548943499999989998640105898687-4465565898885


Q ss_pred             HHHHHHHHHHHHHHHCCCEEEEEECC
Q ss_conf             99999999987040008289999576
Q 030630          123 EAALHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus       123 ~~~~~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      ..+++.+.+...+.  .-+++++||-
T Consensus       177 ~~i~~~l~~l~~~~--g~tvi~vTHd  200 (240)
T d3dhwc1         177 RSILELLKDINRRL--GLTILLITHE  200 (240)
T ss_dssp             HHHHHHHHHHHHHH--CCEEEEEBSC
T ss_pred             HHHHHHHHHHHHCC--CCEEEEECCC
T ss_conf             67999999998646--9789998389

>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=99.32  E-value=6e-13  Score=79.29  Aligned_cols=136  Identities=21%  Similarity=0.150  Sum_probs=77.7

Q ss_pred             CCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCC
Q ss_conf             77665433589999833899984999988899998738864323468987422567789997489579999389999999
Q 030630            5 SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   84 (174)
Q Consensus         5 ~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~   84 (174)
                      ..+.++++|+++.|  .+++++|++|||||||++.|+|...+..|................+ +....++...|-+....
T Consensus        31 ~~vL~~isl~i~~G--e~vaivG~sGsGKSTLl~ll~gl~~p~~G~I~i~g~~i~~~~~~~l-r~~i~~v~Q~~~lf~~T  107 (255)
T d2hyda1          31 APILKDINLSIEKG--ETVAFVGMSGGGKSTLINLIPRFYDVTSGQILIDGHNIKDFLTGSL-RNQIGLVQQDNILFSDT  107 (255)
T ss_dssp             CCSEEEEEEEECTT--CEEEEECSTTSSHHHHHTTTTTSSCCSEEEEEETTEEGGGSCHHHH-HHTEEEECSSCCCCSSB
T ss_pred             CCCEECEEEEECCC--CEEEEECCCCCCHHHHHHHHHHCCCCCCCCCCCCCEECCCCCHHHH-HHEEEEEECCCCCCCCC
T ss_conf             76064438998399--8999988999809999999971278630001539987530788886-34145651015689987


Q ss_pred             -----------CCHHHH----------------------------------HHHHHHHHHHCCCCCEEEEEEEECCCCCC
Q ss_conf             -----------990889----------------------------------99999998740699319999996899889
Q 030630           85 -----------AGSEFV----------------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRFS  119 (174)
Q Consensus        85 -----------~~~~~~----------------------------------~~~~~~~~~~~~~~~~~ii~v~~~~~~~~  119 (174)
                                 ...+..                                  .++.+..++..+..++++ ++..+++.++
T Consensus       108 i~eNi~~g~~~~~~~~~~~al~~~~l~~~i~~lp~gl~t~i~~~g~~LSgGq~QRi~iARal~~~p~il-ilDEpts~LD  186 (255)
T d2hyda1         108 VKENILLGRPTATDEEVVEAAKMANAHDFIMNLPQGYDTEVGERGVKLSGGQKQRLSIARIFLNNPPIL-ILDEATSALD  186 (255)
T ss_dssp             HHHHHGGGCSSCCHHHHHHHHHHTTCHHHHHTSTTGGGCBCCGGGTTSCHHHHHHHHHHHHHHHCCSEE-EEESTTTTCC
T ss_pred             HHHHHHCCCCCCCHHHHHHHHHHHCCHHHHHHCCCCCCCHHCCCCCCCCHHHHHHHHHHHHHHCCCCEE-EEECCCCCCC
T ss_conf             999985158679999999999996979999736242010333888984999999999999985599899-9837654479


Q ss_pred             HHH-HHHHHHHHHHHHHHHCCCEEEEEECC
Q ss_conf             889-99999999987040008289999576
Q 030630          120 QEE-EAALHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus       120 ~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      ... ..+++.+.... .   ..+++++||-
T Consensus       187 ~~t~~~i~~~l~~l~-~---~~TvI~itH~  212 (255)
T d2hyda1         187 LESESIIQEALDVLS-K---DRTTLIVAHR  212 (255)
T ss_dssp             HHHHHHHHHHHHHHT-T---TSEEEEECSS
T ss_pred             HHHHHHHHHHHHHHH-C---CCEEEEEECC
T ss_conf             779999999999875-3---8889999689

>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=99.31  E-value=2.7e-12  Score=76.12  Aligned_cols=135  Identities=9%  Similarity=0.056  Sum_probs=78.6

Q ss_pred             CCCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCC
Q ss_conf             87766543358999983389998499998889999873886432346898742256778999748957999938999999
Q 030630            4 GSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   83 (174)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~   83 (174)
                      +..+.++++|+++.|  ..++++|+||+|||||++.|+|...+..|...........     . +....++.+.+.+...
T Consensus        13 ~~~vl~~is~~i~~G--ei~~l~G~NGsGKSTLl~~i~gl~~p~~G~I~~~g~~i~~-----~-~~~i~~~~~~~~~~~~   84 (200)
T d1sgwa_          13 DKPVLERITMTIEKG--NVVNFHGPNGIGKTTLLKTISTYLKPLKGEIIYNGVPITK-----V-KGKIFFLPEEIIVPRK   84 (200)
T ss_dssp             SSEEEEEEEEEEETT--CCEEEECCTTSSHHHHHHHHTTSSCCSEEEEEETTEEGGG-----G-GGGEEEECSSCCCCTT
T ss_pred             CCEEEECEEEEECCC--CEEEEECCCCCHHHHHHHHHHCCCCCCCCEEEECCEEHHH-----H-CCCEEEEEECCCCCCC
T ss_conf             992884208898599--8999999999719999999966205677889999896267-----3-6708999501357888


Q ss_pred             CCCHHHH--------------------------------------HHHHHHHHHHCCCCCEEEEEEEECCCCCCHHHH-H
Q ss_conf             9990889--------------------------------------999999987406993199999968998898899-9
Q 030630           84 SAGSEFV--------------------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEE-A  124 (174)
Q Consensus        84 ~~~~~~~--------------------------------------~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~-~  124 (174)
                      ....+.+                                      .++-...++.....+++++ +..++..++...+ .
T Consensus        85 ~t~~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~LSgG~~qrv~ia~al~~~~~lll-lDEPt~gLD~~~~~~  163 (200)
T d1sgwa_          85 ISVEDYLKAVASLYGVKVNKNEIMDALESVEVLDLKKKLGELSQGTIRRVQLASTLLVNAEIYV-LDDPVVAIDEDSKHK  163 (200)
T ss_dssp             SBHHHHHHHHHHHTTCCCCHHHHHHHHHHTTCCCTTSBGGGSCHHHHHHHHHHHHTTSCCSEEE-EESTTTTSCTTTHHH
T ss_pred             CCHHHHHHHHHHHCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCEEE-ECCCCCCCCHHHHHH
T ss_conf             2899999999975488637999999998748856301268689718888999998864998999-868620169999999


Q ss_pred             HHHHHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             99999998704000828999957678
Q 030630          125 ALHSLQTLFGKKIFDYMIVVFTGGDE  150 (174)
Q Consensus       125 ~~~~l~~~~~~~~~~~~~iv~tk~D~  150 (174)
                      +++.+.+...+.   .++++.++-|.
T Consensus       164 i~~~l~~~~~~~---~~~ii~~~~~l  186 (200)
T d1sgwa_         164 VLKSILEILKEK---GIVIISSREEL  186 (200)
T ss_dssp             HHHHHHHHHHHH---SEEEEEESSCC
T ss_pred             HHHHHHHHHHCC---CEEEEEEECHH
T ss_conf             999999998679---99999991625

>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=99.31  E-value=2.1e-12  Score=76.67  Aligned_cols=93  Identities=17%  Similarity=0.122  Sum_probs=67.9

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEEC----------------CCEEEEEECCCCC
Q ss_conf             983389998499998889999873886432346898742256778999748----------------9579999389999
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD----------------GQVVNVIDTPGLF   81 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~----------------~~~~~iiDtpg~~   81 (174)
                      +...+++++|.+++|||||+|++++...+..+ ..+.+|...+...+....                ...+.++|.||+.
T Consensus         8 ~~~~kiGivG~Pn~GKSTlfnalT~~~~~~~a-nypftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv   86 (296)
T d1ni3a1           8 GNNLKTGIVGMPNVGKSTFFRAITKSVLGNPA-NYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLT   86 (296)
T ss_dssp             SSCCEEEEEECSSSSHHHHHHHHHHSTTTSTT-CCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHCCCCCCCC-CCCCCCCCCCEEEEECCCCCHHHHHHCCCCCCEECCCCEEEECCCCC
T ss_conf             88737999789999899999999778987747-89966703876899606634001431056774442543144135445


Q ss_pred             CCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECC
Q ss_conf             9999908899999999874069931999999689
Q 030630           82 DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVR  115 (174)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~  115 (174)
                      ........++.+++..++.+    |+++.|+++.
T Consensus        87 ~gA~~g~GLGn~fL~~ir~~----d~lihVV~~f  116 (296)
T d1ni3a1          87 KGASTGVGLGNAFLSHVRAV----DAIYQVVRAF  116 (296)
T ss_dssp             CCCCSSSSSCHHHHHHHTTC----SEEEEEEECC
T ss_pred             CCCCCCCCCHHHHHHHHHCC----CEEEEEEECC
T ss_conf             66401355089999986124----6269998514

>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=99.29  E-value=1e-12  Score=78.14  Aligned_cols=89  Identities=16%  Similarity=0.054  Sum_probs=55.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEE---E--------------------ECCCEEEEEEC
Q ss_conf             389998499998889999873886432346898742256778999---7--------------------48957999938
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTV---L--------------------KDGQVVNVIDT   77 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~---~--------------------~~~~~~~iiDt   77 (174)
                      .+|+++|.+++|||||+|+|++.... .+ ..+.+|...+.....   .                    .....+.++|+
T Consensus         1 ~~v~lvG~pn~GKStlfn~lt~~~~~-v~-nypftT~~pn~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~D~   78 (319)
T d1wxqa1           1 MEIGVVGKPNVGKSTFFSAATLVDVE-IA-NYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDV   78 (319)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC----------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEEC
T ss_pred             CCEEEECCCCCCHHHHHHHHHCCCCC-HH-CCCCCCCCCCCCEEECCCCCHHHHHHHCCCCCCCCCCCCCCCCCEEEEEC
T ss_conf             91768899999899999999788970-32-69977555862623277870465640036865332345556650799988


Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECC
Q ss_conf             99999999908899999999874069931999999689
Q 030630           78 PGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVR  115 (174)
Q Consensus        78 pg~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~  115 (174)
                      ||+.+..........+++.    ....+|+++.|+|+.
T Consensus        79 pGli~ga~~g~~~~~~~l~----~i~~~d~ii~VVd~~  112 (319)
T d1wxqa1          79 AGLVPGAHEGRGLGNKFLD----DLRMASALIHVVDAT  112 (319)
T ss_dssp             C---------------CCC----SSTTCSEEEEEEETT
T ss_pred             CCCCCCHHCCCCHHHHHHH----HHCCCEEEEEEECCC
T ss_conf             9744430001005899997----430552789985155

>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=99.28  E-value=1.8e-11  Score=72.06  Aligned_cols=114  Identities=17%  Similarity=0.167  Sum_probs=77.1

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             33899984999988899998738864323468987422567789997489579999389999999990889999999987
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~   99 (174)
                      ..+++++|..|+|||||++.+.....        ..|.......... ++..+.++|+.|...           .+..+.
T Consensus         6 ~~KilllG~~~vGKTsll~~~~~~~~--------~pTiG~~~~~~~~-~~~~~~~~D~~Gq~~-----------~r~~w~   65 (221)
T d1azta2           6 THRLLLLGAGESGKSTIVKQMRILHV--------VLTSGIFETKFQV-DKVNFHMFDVGGQRD-----------ERRKWI   65 (221)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHHC--------CCCCSCEEEEEEE-TTEEEEEEECCCSTT-----------TTTGGG
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCC--------CCCCCEEEEEEEE-CCEEEEEEECCCCCE-----------ECCCHH
T ss_conf             47799998999988999998950982--------7888867899997-769999986376512-----------201123


Q ss_pred             HCCCCCEEEEEEEECCCCC--------CHHHHHHHHHHHHHHHHHH--CCCEEEEEECCCCCCC
Q ss_conf             4069931999999689988--------9889999999999870400--0828999957678899
Q 030630          100 MAKDGIHAVLVVFSVRSRF--------SQEEEAALHSLQTLFGKKI--FDYMIVVFTGGDELED  153 (174)
Q Consensus       100 ~~~~~~~~ii~v~~~~~~~--------~~~~~~~~~~l~~~~~~~~--~~~~~iv~tk~D~~~~  153 (174)
                      .+...+++++++++.++..        .....+..+.+...+..+.  ..|+++++||+|+.+.
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
T ss_conf             4225665137999725410132232105778998999999861754379838998204666565

>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=99.28  E-value=2.1e-11  Score=71.75  Aligned_cols=118  Identities=14%  Similarity=0.080  Sum_probs=72.2

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHH
Q ss_conf             98338999849999888999987388643234689874225677899974895799993899999999908899999999
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   97 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~   97 (174)
                      .+..+|+++|.+|+|||||++++++.......     .+.........+ .......+|+++......           .
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~~~~~~~~-----~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~-----------~   73 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKDDRLGQHV-----PTLHPTSEELTI-AGMTFTTFDLGGHIQARR-----------V   73 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-----------CCCCCSCEEEEE-TTEEEEEEEECC----CC-----------G
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHCCCCCCEE-----CCCCCCEEEEEE-CCCCCCCCCCCCHHHHHH-----------H
T ss_conf             77778999999998989999999678875224-----023343258974-362112234440045656-----------7


Q ss_pred             HHHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             8740699319999996899889889-9999999998704000828999957678899
Q 030630           98 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        98 ~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ........+.++++++..+...... ...+...... ......|++++.||.|....
T Consensus        74 ~~~~~~~~~~~~~~~d~~d~~~~~~~~~~~~~~~~~-~~~~~~~~li~~~K~D~~~~  129 (186)
T d1f6ba_          74 WKNYLPAINGIVFLVDCADHERLLESKEELDSLMTD-ETIANVPILILGNKIDRPEA  129 (186)
T ss_dssp             GGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTC-GGGTTSCEEEEEECTTSTTC
T ss_pred             HHHHHCCCCEEEEEEECCCCCCHHHHHHHHHHHHCC-CCCCCCCEEEEEECCCCCCC
T ss_conf             765402322011245315742037789999875101-23578746998732475121

>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=99.24  E-value=3.1e-12  Score=75.77  Aligned_cols=130  Identities=15%  Similarity=0.041  Sum_probs=74.0

Q ss_pred             CCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHH
Q ss_conf             43358999983389998499998889999873886432346898742256778999748957999938999999999088
Q 030630           10 DWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEF   89 (174)
Q Consensus        10 ~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~   89 (174)
                      +++|+.. +  ..++++|+||||||||++.|+|...+..|..............  . +....++.+.|.+.+..+..+.
T Consensus        17 ~vs~~~~-~--e~~~liGpnGaGKSTll~~i~Gl~~p~~G~I~~~G~~i~~~~~--~-~r~ig~v~Q~~~l~~~ltV~en   90 (240)
T d2onka1          17 NVDFEMG-R--DYCVLLGPTGAGKSVFLELIAGIVKPDRGEVRLNGADITPLPP--E-RRGIGFVPQDYALFPHLSVYRN   90 (240)
T ss_dssp             EEEEEEC-S--SEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEETTEECTTSCT--T-TSCCBCCCSSCCCCTTSCHHHH
T ss_pred             EEEEEEC-C--EEEEEECCCCCHHHHHHHHHHCCCCCCCEEEEECCEECCCCCH--H-HCCCEEECCCHHHCCCCHHHHH
T ss_conf             9999749-9--7999997999809999999973999896289999999886998--9-9285225231443522015576


Q ss_pred             H---------------------------------------HHHHHHHHHHCCCCCEEEEEEEECCCCCCHHH-HHHHHHH
Q ss_conf             9---------------------------------------99999998740699319999996899889889-9999999
Q 030630           90 V---------------------------------------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSL  129 (174)
Q Consensus        90 ~---------------------------------------~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l  129 (174)
                      +                                       .++....++.....|+.++ +..++..+++.. ..+.+.+
T Consensus        91 l~~~l~~~~~~~~~~~v~~~l~~~gl~~~~~~~~~~LSGG~kQRvaiAral~~~P~ill-lDEPts~LD~~~~~~i~~~i  169 (240)
T d2onka1          91 IAYGLRNVERVERDRRVREMAEKLGIAHLLDRKPARLSGGERQRVALARALVIQPRLLL-LDEPLSAVDLKTKGVLMEEL  169 (240)
T ss_dssp             HHTTCTTSCHHHHHHHHHHHHHTTTCTTTTTCCGGGSCHHHHHHHHHHHHHTTCCSSBE-EESTTSSCCHHHHHHHHHHH
T ss_pred             HHHHHCCCCHHHHHHHHHHHHHHCCCHHHHHCCHHHCCHHHHHHHHHHHHHHCCCCCEE-ECCCCCCCCHHHHHHHHHHH
T ss_conf             66532336778899999999986383756657944489999899999877751677067-52865558879999999999


Q ss_pred             HHHHHHHHCCCEEEEEECC
Q ss_conf             9987040008289999576
Q 030630          130 QTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus       130 ~~~~~~~~~~~~~iv~tk~  148 (174)
                      ++...+.  ..+++++||-
T Consensus       170 ~~l~~~~--g~tvi~vtHd  186 (240)
T d2onka1         170 RFVQREF--DVPILHVTHD  186 (240)
T ss_dssp             HHHHHHH--TCCEEEEESC
T ss_pred             HHHHHHC--CCEEEEEECC
T ss_conf             9998743--9769998189

>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=99.23  E-value=6.8e-11  Score=69.21  Aligned_cols=114  Identities=16%  Similarity=0.093  Sum_probs=75.4

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             33899984999988899998738864323468987422567789997489579999389999999990889999999987
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   99 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~   99 (174)
                      ..+++++|.+|+|||||++.+...    ..   ...|.......... +...+.++|++|...           .+..+.
T Consensus         2 ~iKivllG~~~vGKTsll~r~~f~----~~---~~pTiG~~~~~~~~-~~~~~~~~D~~gq~~-----------~~~~~~   62 (200)
T d1zcba2           2 LVKILLLGAGESGKSTFLKQMRII----HG---QDPTKGIHEYDFEI-KNVPFKMVDVGGQRS-----------ERKRWF   62 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH----HS---CCCCSSEEEEEEEE-TTEEEEEEEECC------------------CT
T ss_pred             EEEEEEECCCCCCHHHHHHHHHCC----CC---CCCEEEEEEEEEEE-EEEEEEEECCCCEEE-----------ECCCCC
T ss_conf             589999989999989999988468----98---88724149999960-144566513531144-----------114233


Q ss_pred             HCCCCCEEEEEEEECCCCCCH--------HHHHHHHHHHHHHHHH--HCCCEEEEEECCCCCC
Q ss_conf             406993199999968998898--------8999999999987040--0082899995767889
Q 030630          100 MAKDGIHAVLVVFSVRSRFSQ--------EEEAALHSLQTLFGKK--IFDYMIVVFTGGDELE  152 (174)
Q Consensus       100 ~~~~~~~~ii~v~~~~~~~~~--------~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~  152 (174)
                      .....+++++++++.++....        ........+...+...  ...|++++.||.|+..
T Consensus        63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~  125 (200)
T d1zcba2          63 ECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLE  125 (200)
T ss_dssp             TSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHH
T ss_pred             CCCCCCCEEEEEEECCCCCEEEEECCCCHHHHHHHHHHHHHHHCHHHCCCEEEEEECCCHHHH
T ss_conf             201000036799984770102310100114467889999996176546963999823114566

>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=99.23  E-value=3.4e-12  Score=75.58  Aligned_cols=88  Identities=18%  Similarity=0.121  Sum_probs=62.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEEC----------------CCEEEEEECCCCCCCC
Q ss_conf             389998499998889999873886432346898742256778999748----------------9579999389999999
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD----------------GQVVNVIDTPGLFDFS   84 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~----------------~~~~~iiDtpg~~~~~   84 (174)
                      .+++++|.+++|||||+|+|++.....+  ....+|...+...+...+                .-.+.++|.||+.+..
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 FKCGIVGLPNVGKSTLFNALTKAGIEAA--NYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGA   80 (278)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC--------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCCC--CCCCCCCCCCEEEEECCCHHHHHHHHHCCCCCEEEEEEEEEECCCCCCCC
T ss_conf             3488889999988999999977997413--69988877845899643586898977438884552168999726317885


Q ss_pred             CCHHHHHHHHHHHHHHCCCCCEEEEEEEEC
Q ss_conf             990889999999987406993199999968
Q 030630           85 AGSEFVGKEIVKCIGMAKDGIHAVLVVFSV  114 (174)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~  114 (174)
                      .....++.++++.++.+    |+++.|+++
T Consensus        81 ~~g~Glg~~FL~~ir~~----d~LihVVr~  106 (278)
T d1jala1          81 SKGEGLGNKFLANIRET----DAIGHVVRC  106 (278)
T ss_dssp             HHHGGGTCCHHHHHHTC----SEEEEEEEC
T ss_pred             CCCCCCCHHHHHHHHHC----CCEEEEEEC
T ss_conf             35787658999999850----625888514

>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=99.18  E-value=3.1e-11  Score=70.87  Aligned_cols=45  Identities=22%  Similarity=0.325  Sum_probs=39.8

Q ss_pred             CCCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCC
Q ss_conf             87766543358999983389998499998889999873886432346
Q 030630            4 GSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   50 (174)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~   50 (174)
                      +..+.++++|+++.|  ..++++|++|+|||||++.|+|...+..|.
T Consensus        48 g~pvL~~isl~i~~G--e~vaivG~nGsGKSTLl~~i~Gl~~p~~G~   92 (281)
T d1r0wa_          48 GNPVLKNINLNIEKG--EMLAITGSTGSGKTSLLMLILGELEASEGI   92 (281)
T ss_dssp             TCEEEEEEEEEECTT--CEEEEEESTTSSHHHHHHHHHTSSCCSEEE
T ss_pred             CCEEEECEEEEECCC--CEEEEECCCCCHHHHHHHHHHCCCCCCCCE
T ss_conf             976773759998599--999999899982999999995797478828

>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=99.15  E-value=7.5e-11  Score=68.99  Aligned_cols=116  Identities=14%  Similarity=0.085  Sum_probs=75.8

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             83389998499998889999873886432346898742256778999748957999938999999999088999999998
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~   98 (174)
                      ++.+++++|..|+|||||++.+.... +.. .    .|.......... ....+.++|++|...           .+..+
T Consensus         1 ke~Kiv~lG~~~vGKTsll~r~~~~~-~~~-~----pTiG~~~~~~~~-~~~~~~~~d~~g~~~-----------~~~~~   62 (200)
T d2bcjq2           1 RELKLLLLGTGESGKSTFIKQMRIIH-GSG-V----PTTGIIEYPFDL-QSVIFRMVDVGGQRS-----------ERRKW   62 (200)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHT-SSC-C----CCCSCEEEEEEC-SSCEEEEEECCCSTT-----------GGGGG
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHCCC-CCC-C----CEEEEEEEEEEC-CCEEEEECCCCCCCC-----------CCCCC
T ss_conf             90599999999998899999996799-999-8----166279999840-201444203466421-----------13433


Q ss_pred             HHCCCCCEEEEEEEECCCCCC--------HHHHHHHHHHHHHHHHH--HCCCEEEEEECCCCCC
Q ss_conf             740699319999996899889--------88999999999987040--0082899995767889
Q 030630           99 GMAKDGIHAVLVVFSVRSRFS--------QEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELE  152 (174)
Q Consensus        99 ~~~~~~~~~ii~v~~~~~~~~--------~~~~~~~~~l~~~~~~~--~~~~~~iv~tk~D~~~  152 (174)
                      ...+..++.++++++..+...        ....+.++.+...+...  ...+++++.||.|...
T Consensus        63 ~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~  126 (200)
T d2bcjq2          63 IHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLE  126 (200)
T ss_dssp             GGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHH
T ss_pred             CCCCCCCCEEEEEEECCCHHHHHHHHCCCCCHHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHH
T ss_conf             2002343204676403523321344313001599999999997114206851798613011566

>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=99.12  E-value=1.2e-10  Score=67.94  Aligned_cols=112  Identities=12%  Similarity=0.084  Sum_probs=72.9

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHH
Q ss_conf             83389998499998889999873886432346898742256778999748957999938999999999088999999998
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~   98 (174)
                      +..+++++|..|+|||||++.+.....+..+         ........ ....+.++|+.|...           .+..+
T Consensus         1 ~e~KivllG~~~vGKTsl~~r~~~~~~~t~~---------~~~~~~~~-~~~~~~i~D~~Gq~~-----------~~~~~   59 (195)
T d1svsa1           1 REVKLLLLGAGESGKSTIVKQMKIIHEAGTG---------IVETHFTF-KDLHFKMFDVGGQRS-----------ERKKW   59 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHSCCCS---------EEEEEEEE-TTEEEEEEEECCSGG-----------GGGGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHCCCCCCC---------EEEEEEEE-EEEEEEEECCCCCCC-----------CCCCH
T ss_conf             9169999999998889999988408979724---------79999974-331221002466510-----------01111


Q ss_pred             HHCCCCCEEEEEEEECCCCCCH--------HHHHHHHHHHHHHHH--HHCCCEEEEEECCCCC
Q ss_conf             7406993199999968998898--------899999999998704--0008289999576788
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQ--------EEEAALHSLQTLFGK--KIFDYMIVVFTGGDEL  151 (174)
Q Consensus        99 ~~~~~~~~~ii~v~~~~~~~~~--------~~~~~~~~l~~~~~~--~~~~~~~iv~tk~D~~  151 (174)
                      ..++..+++++++++.++....        ...+...........  ....|+++++||.|..
T Consensus        60 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~  122 (195)
T d1svsa1          60 IHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLF  122 (195)
T ss_dssp             GGGCTTCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHH
T ss_pred             HHCCCCCCEEEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCHHH
T ss_conf             101467753666875034211777764367899999999999611202798789981532145

>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=99.09  E-value=2e-10  Score=66.87  Aligned_cols=70  Identities=21%  Similarity=0.308  Sum_probs=48.1

Q ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHH
Q ss_conf             999833899984999988899998738864323468987422567789997489579999389999999990889
Q 030630           16 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFV   90 (174)
Q Consensus        16 ~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~   90 (174)
                      ......+++++|.+|+|||||+|+|.+......+ ..++.|....  .. . .+..++++||||+..........
T Consensus       108 ~~~~~~~v~vvG~PNvGKSsliN~L~~~~~~~~~-~~pG~Tr~~~--~i-~-~~~~~~l~DTPGi~~p~~~~~~~  177 (273)
T d1puja_         108 VKPRAIRALIIGIPNVGKSTLINRLAKKNIAKTG-DRPGITTSQQ--WV-K-VGKELELLDTPGILWPKFEDELV  177 (273)
T ss_dssp             CCCCCEEEEEEESTTSSHHHHHHHHHTSCCC-------------C--CE-E-ETTTEEEEECCCCCCSCCCCHHH
T ss_pred             CCCCCEEEEEEECCCCCHHHHHHHHHCCCEEEEC-CCCCCCCCCE--EE-E-CCCCEEEECCCCCCCCCCCCHHH
T ss_conf             7777527899866754435554254266158878-9532245534--89-8-79975995389744467764888

>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=99.05  E-value=6.5e-11  Score=69.29  Aligned_cols=63  Identities=25%  Similarity=0.294  Sum_probs=40.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCC-CC---CCCCEEEEEEEEEEECCCEEEEEECCCCCCCCC
Q ss_conf             389998499998889999873886432346-89---874225677899974895799993899999999
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRA-SS---SGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~-~~---~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~   85 (174)
                      .+.+++|++|+|||||+|.|.+......+. +.   .+..+++...-..+  .....++||||+.++..
T Consensus        96 kt~~~~G~SGVGKSTLiN~L~~~~~~~T~~vs~~~~rGrHTTt~~~l~~l--~~gg~iiDTPG~r~~~l  162 (225)
T d1u0la2          96 KISTMAGLSGVGKSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQLLKF--DFGGYVVDTPGFANLEI  162 (225)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTTCCCC-------------CCCSCCEEEC--TTSCEEESSCSSTTCCC
T ss_pred             CEEEEECCCCCCHHHHHHHHCCHHHHHCCCCCCCCCCCCCCCCCEEEEEE--CCCCEEEECCCCCCCCC
T ss_conf             80899788987788887730535550106842004898751133147897--89917996876554555

>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=99.03  E-value=6.4e-10  Score=64.41  Aligned_cols=139  Identities=18%  Similarity=0.183  Sum_probs=74.5

Q ss_pred             CCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEE------------------EEEEEEE--------
Q ss_conf             35899998338999849999888999987388643234689874225------------------6778999--------
Q 030630           12 ELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTST------------------CEMQRTV--------   65 (174)
Q Consensus        12 ~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~------------------~~~~~~~--------   65 (174)
                      .+..++.++..++++|++|+||||++-.|+..... .+....-.+..                  .......        
T Consensus         3 ~l~~~~~~p~vi~lvGptGvGKTTTiAKLAa~~~~-~~~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~   81 (213)
T d1vmaa2           3 KLNVPPEPPFVIMVVGVNGTGKTTSCGKLAKMFVD-EGKSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAV   81 (213)
T ss_dssp             CCCCCSSSCEEEEEECCTTSSHHHHHHHHHHHHHH-TTCCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHH
T ss_pred             CCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHH-CCCCEEEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCCCHHHH
T ss_conf             67679999989999899999889999999999997-79906999601334204678887764327641036777768998


Q ss_pred             --------EECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHHCC----CCCEEEEEEEECCCCCCHHHHHHHHHHHHHH
Q ss_conf             --------7489579999389999999990889999999987406----9931999999689988988999999999987
Q 030630           66 --------LKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAK----DGIHAVLVVFSVRSRFSQEEEAALHSLQTLF  133 (174)
Q Consensus        66 --------~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~~~----~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~  133 (174)
                              ..++..+.++||||....   ......++........    ..++..++|+++...  ..+   +..+...+
T Consensus        82 ~~~~~~~~~~~~~d~ilIDTaGr~~~---d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~--~~~---~~~~~~~~  153 (213)
T d1vmaa2          82 AFDAVAHALARNKDVVIIDTAGRLHT---KKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTG--QNG---LVQAKIFK  153 (213)
T ss_dssp             HHHHHHHHHHTTCSEEEEEECCCCSC---HHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGH--HHH---HHHHHHHH
T ss_pred             HHHHHHHHHHCCCCEEEEECCCCCCC---HHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCC--CCH---HHHHHHHC
T ss_conf             78878999876999899824553301---68888998888766420256665025786212348--433---55656540


Q ss_pred             HHHHCCCEEEEEECCCCCCCCHHHHHHHH
Q ss_conf             04000828999957678899801089985
Q 030630          134 GKKIFDYMIVVFTGGDELEDNDETLEDYL  162 (174)
Q Consensus       134 ~~~~~~~~~iv~tk~D~~~~~~~~~~~~~  162 (174)
                      ..-  ...-+++||.|....- ..+-...
T Consensus       154 ~~~--~~~~lI~TKlDe~~~~-G~~l~~~  179 (213)
T d1vmaa2         154 EAV--NVTGIILTKLDGTAKG-GITLAIA  179 (213)
T ss_dssp             HHS--CCCEEEEECGGGCSCT-THHHHHH
T ss_pred             CCC--CCCEEEEECCCCCCCC-CHHHHHH
T ss_conf             122--7865898424678762-3999999

>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=98.95  E-value=1.4e-10  Score=67.71  Aligned_cols=40  Identities=23%  Similarity=0.190  Sum_probs=35.8

Q ss_pred             CCCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCC
Q ss_conf             877665433589999833899984999988899998738864
Q 030630            4 GSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRA   45 (174)
Q Consensus         4 ~~~~~~~~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~   45 (174)
                      .+....+++|+++.|  ..++++|+||||||||++.|+|..+
T Consensus        11 ~~~~l~~isl~I~~G--ei~~iiG~nGaGKSTLl~~l~Gl~~   50 (231)
T d1l7vc_          11 ESTRLGPLSGEVRAG--EILHLVGPNGAGKSTLLARMAGMTS   50 (231)
T ss_dssp             CTTTSCSEEEEEETT--CEEECBCCTTSSHHHHHHHHHTSCC
T ss_pred             CCCEECCEEEEECCC--CEEEEECCCCCCHHHHHHHHHCCCC
T ss_conf             571555888899489--8999998999809999999948879

>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=98.91  E-value=4e-09  Score=60.50  Aligned_cols=128  Identities=16%  Similarity=0.087  Sum_probs=66.8

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCC--CCC-CCCCCCC--------EEEEEE------------------------EE-
Q ss_conf             38999849999888999987388643--234-6898742--------256778------------------------99-
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAF--KSR-ASSSGVT--------STCEMQ------------------------RT-   64 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~--~~~-~~~~~~t--------~~~~~~------------------------~~-   64 (174)
                      ..++++|+.|||||||++.|+.....  ..+ ......+        ......                        .. 
T Consensus         1 ~vi~v~G~~GsGKTTLl~~ll~~~~~~~~~~ivn~d~~~~~~~~~~~id~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (244)
T d1yrba1           1 MIVVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVNLDTGVKELPYEPSIDVREFVTVEEIMREGYGPNGAIVESYDRLMEK   80 (244)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHHTTTSCEEEEECCSSCSCCSSCCSEEGGGTCCHHHHHTTTCCHHHHHHHHHHHHHTT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHCCEEEEEECCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHH
T ss_conf             98999918998399999999998843876899966766445788645309999887877676403677512202867766


Q ss_pred             ---------EEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHH
Q ss_conf             ---------97489579999389999999990889999999987406993199999968998898899999999998704
Q 030630           65 ---------VLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK  135 (174)
Q Consensus        65 ---------~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~  135 (174)
                               .......+.++|+||..+.     .........+.. ....+.+++++|+.....+...............
T Consensus        81 ~~~~~~~~~~~~~~~~~~~id~~g~~~~-----~~~~~~~~~~~~-~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~  154 (244)
T d1yrba1          81 FNEYLNKILRLEKENDYVLIDTPGQMET-----FLFHEFGVRLME-NLPYPLVVYISDPEILKKPNDYCFVRFFALLIDL  154 (244)
T ss_dssp             HHHHHHHHHHHHHHCSEEEEECCSSHHH-----HHHSHHHHHHHH-TSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCCCEEEECCCCCHHH-----HHHHHHHHHHHH-HCCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHH
T ss_conf             8999999984125654365436653147-----889999999986-3247658999636556675047669999999998


Q ss_pred             HHCCCEEEEEECCCCCCCC
Q ss_conf             0008289999576788998
Q 030630          136 KIFDYMIVVFTGGDELEDN  154 (174)
Q Consensus       136 ~~~~~~~iv~tk~D~~~~~  154 (174)
                      ....+.++++||+|....+
T Consensus       155 ~~~~~~ivvinK~D~~~~~  173 (244)
T d1yrba1         155 RLGATTIPALNKVDLLSEE  173 (244)
T ss_dssp             HHTSCEEEEECCGGGCCHH
T ss_pred             HHCCCCEEEEECCCCCCHH
T ss_conf             7078742665320143577

>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=98.90  E-value=9.3e-11  Score=68.53  Aligned_cols=61  Identities=28%  Similarity=0.337  Sum_probs=39.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCC----CC-CCEEEEEEEEEEECCCEEEEEECCCCCCCCC
Q ss_conf             38999849999888999987388643234689----87-4225677899974895799993899999999
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASS----SG-VTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   85 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~----~~-~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~   85 (174)
                      .+.+++|++|+|||||+|+|.+......+...    .+ .|+.. ..-... .  ...++||||+.++..
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~~~~~t~~vs~~~~rGrHTTt~-~~l~~~-~--gg~iiDTPG~r~~~l  163 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPELGLRTNEISEHLGRGKHTTRH-VELIHT-S--GGLVADTPGFSSLEF  163 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC-------------------CCC-CCEEEE-T--TEEEESSCSCSSCCC
T ss_pred             CEEEEECCCCCCHHHHHHHHCCHHHHHHCCCCCCCCCCCEEEEE-EEEEEC-C--CCEEEECCCCCCCCC
T ss_conf             64999877873487898751517676403555335897124434-788862-7--978997876666656

>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=98.88  E-value=3.7e-09  Score=60.66  Aligned_cols=130  Identities=16%  Similarity=0.091  Sum_probs=69.0

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEE------------------EEEEEE---------------
Q ss_conf             83389998499998889999873886432346898742256------------------778999---------------
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTC------------------EMQRTV---------------   65 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~------------------~~~~~~---------------   65 (174)
                      +...++++|++|+||||++-.|+..... .+....-.+..+                  ......               
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~~~-~g~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~~~~~   83 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYYQN-LGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDPAALAYDAVQA   83 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHT-TTCCEEEECCCCSSTTHHHHHHHHHHHHTCCEECCCTTCCHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHH-CCCCEEEEEECCCCCCCHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHH
T ss_conf             9779999899999889999999999997-799079998136665402667640545682389616774278899998999


Q ss_pred             -EECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHH----CCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             -74895799993899999999908899999999874----0699319999996899889889999999999870400082
Q 030630           66 -LKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM----AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDY  140 (174)
Q Consensus        66 -~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~----~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  140 (174)
                       ...+..+.++||||.....   .....++......    ....++-+++|+++.... ........ ....+     ..
T Consensus        84 ~~~~~~d~ilIDTaGr~~~d---~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~-~~~~~~~~-~~~~~-----~~  153 (207)
T d1okkd2          84 MKARGYDLLFVDTAGRLHTK---HNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQ-NGLEQAKK-FHEAV-----GL  153 (207)
T ss_dssp             HHHHTCSEEEECCCCCCTTC---HHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCT-HHHHHHHH-HHHHH-----CC
T ss_pred             HHHCCCCEEECCCCCCCHHH---HHHHHHHHHHHHHHHHCCCCCCCEEEEEEECCCCC-HHHHHHHH-HHHCC-----CC
T ss_conf             99879999971752223112---77888877777776532567873599996200471-67899997-50213-----88


Q ss_pred             EEEEEECCCCCCCCHHHHH
Q ss_conf             8999957678899801089
Q 030630          141 MIVVFTGGDELEDNDETLE  159 (174)
Q Consensus       141 ~~iv~tk~D~~~~~~~~~~  159 (174)
                      .-+++||.|....-+.-+.
T Consensus       154 ~~lI~TKlDet~~~G~~l~  172 (207)
T d1okkd2         154 TGVIVTKLDGTAKGGVLIP  172 (207)
T ss_dssp             SEEEEECTTSSCCCTTHHH
T ss_pred             CEEEEECCCCCCCCCHHHH
T ss_conf             6489833688887349999

>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=98.83  E-value=6.4e-09  Score=59.51  Aligned_cols=132  Identities=14%  Similarity=0.159  Sum_probs=68.9

Q ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCC----------------------CCCEEEEEEEEE---------
Q ss_conf             9983389998499998889999873886432346898----------------------742256778999---------
Q 030630           17 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSS----------------------GVTSTCEMQRTV---------   65 (174)
Q Consensus        17 ~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~----------------------~~t~~~~~~~~~---------   65 (174)
                      ...+..++++|++|+||||++-.|+..... .+....                      +..........+         
T Consensus         6 ~~~p~vi~lvGptGvGKTTTiAKLA~~~~~-~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~~~   84 (211)
T d2qy9a2           6 GKAPFVILMVGVNGVGKTTTIGKLARQFEQ-QGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDAI   84 (211)
T ss_dssp             SCTTEEEEEECCTTSCHHHHHHHHHHHHHT-TTCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHH-CCCCEEEEECCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHH
T ss_conf             999979999899999989999999999997-7994799823213666120455543433886211356877999999999


Q ss_pred             ---EECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHHCC----CCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHC
Q ss_conf             ---7489579999389999999990889999999987406----993199999968998898899999999998704000
Q 030630           66 ---LKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAK----DGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIF  138 (174)
Q Consensus        66 ---~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~~~----~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~  138 (174)
                         ..++..+.++||||....   ......++........    ..++.+++|+++..+  ..+........+..     
T Consensus        85 ~~a~~~~~d~ilIDTaGr~~~---d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~--~~~~~~~~~~~~~~-----  154 (211)
T d2qy9a2          85 QAAKARNIDVLIADTAGRLQN---KSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTG--QNAVSQAKLFHEAV-----  154 (211)
T ss_dssp             HHHHHTTCSEEEECCCCCGGG---HHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGT--HHHHHHHHHHHHHS-----
T ss_pred             HHHHHCCCCEEEECCCCCCCC---CHHHHHHHHHHHHHHHHHCCCCCCEEEEEHHCCCC--CCHHHHHHHHHHCC-----
T ss_conf             999876998899656887632---07789999999999853046686001220012357--63377876442101-----


Q ss_pred             CCEEEEEECCCCCCCCHHHHH
Q ss_conf             828999957678899801089
Q 030630          139 DYMIVVFTGGDELEDNDETLE  159 (174)
Q Consensus       139 ~~~~iv~tk~D~~~~~~~~~~  159 (174)
                      ...-+++||.|....-+.-+.
T Consensus       155 ~~~~lIlTKlDe~~~~G~~l~  175 (211)
T d2qy9a2         155 GLTGITLTKLDGTAKGGVIFS  175 (211)
T ss_dssp             CCCEEEEECCTTCTTTTHHHH
T ss_pred             CCCEEEEEECCCCCCCCHHHH
T ss_conf             786489961278887209999

>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=98.83  E-value=7.3e-09  Score=59.23  Aligned_cols=137  Identities=15%  Similarity=0.106  Sum_probs=71.2

Q ss_pred             CCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCC----------------------CCCEEEEEEEEE------
Q ss_conf             8999983389998499998889999873886432346898----------------------742256778999------
Q 030630           14 TSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSS----------------------GVTSTCEMQRTV------   65 (174)
Q Consensus        14 ~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~----------------------~~t~~~~~~~~~------   65 (174)
                      ..|...+..++++|++|+||||++-.|+..... .+....                      +...........      
T Consensus         6 ~~~~k~p~vi~lvGptGvGKTTTiAKLA~~~~~-~g~kV~lit~Dt~R~ga~eQL~~~a~~l~v~~~~~~~~~~~~~~~~   84 (211)
T d1j8yf2           6 VIPDKIPYVIMLVGVQGTGKATTAGKLAYFYKK-KGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAK   84 (211)
T ss_dssp             CSCSSSSEEEEEECSCCC----HHHHHHHHHHH-TTCCEEEEECCCSSHHHHHHHHHHHHHHTCCEECCTTCCCHHHHHH
T ss_pred             CCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHH-CCCCEEEEEEECCCCCHHHHHHHHCCCCCCCEEECCCCHHHHHHHH
T ss_conf             689999989999899999989999999999997-7993699972023551567898740146842230244102447899


Q ss_pred             ------EECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCC
Q ss_conf             ------74895799993899999999908899999999874069931999999689988988999999999987040008
Q 030630           66 ------LKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFD  139 (174)
Q Consensus        66 ------~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~  139 (174)
                            ...+..+.++||||..... .......++.......  .++-+++|+++.....  ............     .
T Consensus        85 ~a~~~~~~~~~d~IlIDTaGr~~~~-~~~~~~~el~~~~~~~--~~~~~~LVl~a~~~~~--~~~~~~~~~~~~-----~  154 (211)
T d1j8yf2          85 RGVEKFLSEKMEIIIVDTAGRHGYG-EEAALLEEMKNIYEAI--KPDEVTLVIDASIGQK--AYDLASKFNQAS-----K  154 (211)
T ss_dssp             HHHHHHHHTTCSEEEEECCCSCCTT-CHHHHHHHHHHHHHHH--CCSEEEEEEEGGGGGG--HHHHHHHHHHHC-----T
T ss_pred             HHHHHHHCCCCCEEEEECCCCCCCC-HHHHHHHHHHHHHHHC--CCCEEEEEEECCCCCC--HHHHHHHHHCCC-----C
T ss_conf             9998740267736998537767631-3667899999998625--9766899984356840--677876653036-----7


Q ss_pred             CEEEEEECCCCCCCCHHHHHHHH
Q ss_conf             28999957678899801089985
Q 030630          140 YMIVVFTGGDELEDNDETLEDYL  162 (174)
Q Consensus       140 ~~~iv~tk~D~~~~~~~~~~~~~  162 (174)
                      ..-+++||.|....- ..+-...
T Consensus       155 ~~~lI~TKlDet~~~-G~~l~~~  176 (211)
T d1j8yf2         155 IGTIIITKMDGTAKG-GGALSAV  176 (211)
T ss_dssp             TEEEEEECTTSCSCH-HHHHHHH
T ss_pred             CCEEEEECCCCCCCC-CHHHHHH
T ss_conf             553788603688861-4998899

>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=98.69  E-value=3.1e-08  Score=56.15  Aligned_cols=128  Identities=17%  Similarity=0.137  Sum_probs=70.6

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCC------------------CCCEEEEEEEEEE----------------
Q ss_conf             389998499998889999873886432346898------------------7422567789997----------------
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSS------------------GVTSTCEMQRTVL----------------   66 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~------------------~~t~~~~~~~~~~----------------   66 (174)
                      ..++++|++|+||||++-.|+..... .+....                  .............                
T Consensus        11 ~vi~lvGp~GvGKTTTiaKLA~~~~~-~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~~~~~~~   89 (207)
T d1ls1a2          11 NLWFLVGLQGSGKTTTAAKLALYYKG-KGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKAR   89 (207)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHHHHH-TTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHH-CCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHH
T ss_conf             68999899999889999999999997-79927999544346408888999998628863111244203678888988876


Q ss_pred             ECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEE
Q ss_conf             48957999938999999999088999999998740699319999996899889889999999999870400082899995
Q 030630           67 KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFT  146 (174)
Q Consensus        67 ~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~t  146 (174)
                      ..+..+.++||+|....   ......++.......  .++-+++|+++..+  .......+.+.+.+     ...-+++|
T Consensus        90 ~~~~d~vlIDTaGr~~~---d~~~~~el~~~~~~~--~~~~~llv~~a~~~--~~~~~~~~~f~~~~-----~~~~~I~T  157 (207)
T d1ls1a2          90 LEARDLILVDTAGRLQI---DEPLMGELARLKEVL--GPDEVLLVLDAMTG--QEALSVARAFDEKV-----GVTGLVLT  157 (207)
T ss_dssp             HHTCCEEEEECCCCSSC---CHHHHHHHHHHHHHH--CCSEEEEEEEGGGT--HHHHHHHHHHHHHT-----CCCEEEEE
T ss_pred             HCCCCCEEECCCCCCHH---HHHHHHHHHHHHHHC--CCCEEEEEECCCCC--HHHHHHHHHHHHHC-----CCCEEEEE
T ss_conf             33676403345442000---036688999998631--87369998434556--16899999998647-----99705886


Q ss_pred             CCCCCCCCHHHHHHHH
Q ss_conf             7678899801089985
Q 030630          147 GGDELEDNDETLEDYL  162 (174)
Q Consensus       147 k~D~~~~~~~~~~~~~  162 (174)
                      |.|....- ..+-...
T Consensus       158 KlDe~~~~-G~~l~~~  172 (207)
T d1ls1a2         158 KLDGDARG-GAALSAR  172 (207)
T ss_dssp             CGGGCSSC-HHHHHHH
T ss_pred             ECCCCCCC-HHHHHHH
T ss_conf             03765653-1899999

>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=98.53  E-value=3.6e-07  Score=50.93  Aligned_cols=28  Identities=21%  Similarity=0.425  Sum_probs=23.8

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCC
Q ss_conf             3899984999988899998738864323
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKS   48 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~   48 (174)
                      .+++++|++|+|||||++.+++...+..
T Consensus         1 ~ki~I~G~~G~GKSTLl~~i~~~l~~~~   28 (178)
T d1ye8a1           1 MKIIITGEPGVGKTTLVKKIVERLGKRA   28 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHGGGE
T ss_pred             CEEEEECCCCCHHHHHHHHHHHCCCCCC
T ss_conf             9899998999389999999981488886

>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=98.34  E-value=1.8e-06  Score=47.43  Aligned_cols=69  Identities=26%  Similarity=0.289  Sum_probs=46.7

Q ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHCCC-CCCCCCCCCCCCEEEEEEEEEE--ECCCEEEEEECCCCCCCC
Q ss_conf             99983389998499998889999873886-4323468987422567789997--489579999389999999
Q 030630           16 PSNGERTVVLVGRTGNGKSATGNSILGRR-AFKSRASSSGVTSTCEMQRTVL--KDGQVVNVIDTPGLFDFS   84 (174)
Q Consensus        16 ~~~~~~~i~i~G~~g~GKStlin~l~~~~-~~~~~~~~~~~t~~~~~~~~~~--~~~~~~~iiDtpg~~~~~   84 (174)
                      -.++...|+++|+.++|||+|+|.|.+.. .+..+......|...-......  .....+.++||.|+.+..
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
T ss_conf             799879999889999979999999809987876478777777765899854157887469998245434544

>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=98.34  E-value=1.7e-06  Score=47.56  Aligned_cols=139  Identities=17%  Similarity=0.137  Sum_probs=65.9

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCCC-CCCCC--CC-CCCEEEEEE------EEEEEC--------------------
Q ss_conf             8338999849999888999987388643-23468--98-742256778------999748--------------------
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRRAF-KSRAS--SS-GVTSTCEMQ------RTVLKD--------------------   68 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~~~-~~~~~--~~-~~t~~~~~~------~~~~~~--------------------   68 (174)
                      +-+..++.|.-|||||||++.++..... .....  .. .........      ..+...                    
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~~~~~riaVI~Ne~g~~~iD~~~~~~~~~~~~el~~gcicc~~~~~~~~~l~~~~~   81 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNEQHGYKIAVIENEFGEVSVDDQLIGDRATQIKTLTNGCICCSRSNELEDALLDLLD   81 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHSCCCCCEEEECSSCCSCCEEEEEECTTSCEEEEETTSCEEECTTSCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHCCCCCCEEEECCCCCEECCCHHHHHHHHHHHH
T ss_conf             97889986488899999999998567898379997366411223343025665248843884000000367777889999


Q ss_pred             -------CCEEEEEECCCCCCCCCCHHHHHHHHHH-HHHHCCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCC
Q ss_conf             -------9579999389999999990889999999-98740699319999996899889889999999999870400082
Q 030630           69 -------GQVVNVIDTPGLFDFSAGSEFVGKEIVK-CIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDY  140 (174)
Q Consensus        69 -------~~~~~iiDtpg~~~~~~~~~~~~~~~~~-~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  140 (174)
                             .....++.+.|...    ...+...+.. .........+.++.++|+. .+...... ...+.+.+.    .-
T Consensus        82 ~~~~~~~~~d~iiIE~sG~~~----p~~l~~~~~~~~~~~~~~~l~~vi~vVDa~-~~~~~~~~-~~~~~~Qi~----~A  151 (222)
T d1nija1          82 NLDKGNIQFDRLVIECTGMAD----PGPIIQTFFSHEVLCQRYLLDGVIALVDAV-HADEQMNQ-FTIAQSQVG----YA  151 (222)
T ss_dssp             HHHHTSCCCSEEEEEEETTCC----HHHHHHHHHHSHHHHHHEEEEEEEEEEETT-THHHHHHH-CHHHHHHHH----TC
T ss_pred             HHHHCCCCCCEEEEEECCCCH----HHHHHHHHHHHHCCCCCCCCCCHHHHHHHH-HHHHHHHH-HHHHHHHHH----HC
T ss_conf             986046776536786224210----468999988520144421113402133355-44444334-678999998----68


Q ss_pred             EEEEEECCCCCCCCHHHHHHHHCCCCCC
Q ss_conf             8999957678899801089985022999
Q 030630          141 MIVVFTGGDELEDNDETLEDYLGRECPK  168 (174)
Q Consensus       141 ~~iv~tk~D~~~~~~~~~~~~~~~~~~~  168 (174)
                      =++++||+|+.... ..+++.+++.++.
T Consensus       152 D~ivlNK~Dl~~~~-~~~~~~l~~lNP~  178 (222)
T d1nija1         152 DRILLTKTDVAGEA-EKLHERLARINAR  178 (222)
T ss_dssp             SEEEEECTTTCSCT-HHHHHHHHHHCSS
T ss_pred             CCCCCCCCCCCCHH-HHHHHHHHHHHCC
T ss_conf             83024464553379-9999999997079

>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=97.96  E-value=2.5e-06  Score=46.75  Aligned_cols=27  Identities=19%  Similarity=0.119  Sum_probs=23.6

Q ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             999833899984999988899998738
Q 030630           16 PSNGERTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        16 ~~~~~~~i~i~G~~g~GKStlin~l~~   42 (174)
                      ..++..+|+++|++|+|||||++.+..
T Consensus        50 ~~~~~~~IgitG~pGaGKSTLi~~l~~   76 (327)
T d2p67a1          50 YCGNTLRLGVTGTPGAGKSTFLEAFGM   76 (327)
T ss_dssp             GCSCSEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHH
T ss_conf             169832897438999989999999999

>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=97.86  E-value=4e-07  Score=50.71  Aligned_cols=24  Identities=21%  Similarity=0.318  Sum_probs=20.9

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             389998499998889999873886
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      ..|+++|.+|+||||+.+.|+...
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~~l   26 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTRYL   26 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             899998999999999999999999

>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=97.78  E-value=8.6e-06  Score=44.15  Aligned_cols=28  Identities=25%  Similarity=0.247  Sum_probs=23.7

Q ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9998338999849999888999987388
Q 030630           16 PSNGERTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        16 ~~~~~~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      ..++..+|++.|++|+|||||++.+...
T Consensus        47 ~~~~~~~igitG~pGaGKSTli~~l~~~   74 (323)
T d2qm8a1          47 QTGRAIRVGITGVPGVGKSTTIDALGSL   74 (323)
T ss_dssp             GCCCSEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             0698159861179988899999999998

>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=97.71  E-value=9.9e-06  Score=43.85  Aligned_cols=23  Identities=13%  Similarity=0.289  Sum_probs=20.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             38999849999888999987388
Q 030630           21 RTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      +.++++|++|||||||++.|...
T Consensus         3 Pvi~itG~~GSGKTTL~~~L~~~   25 (170)
T d1np6a_           3 PLLAFAAWSGTGKTTLLKKLIPA   25 (170)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
T ss_conf             88999918999899999999999

>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=97.63  E-value=1.3e-05  Score=43.30  Aligned_cols=25  Identities=28%  Similarity=0.380  Sum_probs=22.0

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             3389998499998889999873886
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      ..+|++.|++|+|||||.+.|....
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~~   31 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAVF   31 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             3289998999998999999999984

>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=97.62  E-value=9.6e-06  Score=43.91  Aligned_cols=58  Identities=12%  Similarity=0.116  Sum_probs=39.7

Q ss_pred             HHHHHCCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCHHHHHHHH
Q ss_conf             9987406993199999968998898899999999998704000828999957678899801089985
Q 030630           96 KCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYL  162 (174)
Q Consensus        96 ~~~~~~~~~~~~ii~v~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~~~~~~~~~~  162 (174)
                      +.+......+|++++|+|+..+++..+..+.+.++       .+|.++|+||+|+...  ...+.+.
T Consensus         7 r~i~~~i~~~DvIl~V~DaR~P~ss~~~~l~~~~~-------~Kp~IlVlNK~DLv~~--~~~~~w~   64 (273)
T d1puja_           7 REVTEKLKLIDIVYELVDARIPMSSRNPMIEDILK-------NKPRIMLLNKADKADA--AVTQQWK   64 (273)
T ss_dssp             HHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHCS-------SSCEEEEEECGGGSCH--HHHHHHH
T ss_pred             HHHHHHHHHCCEEEEEEECCCCCCCCCHHHHHHHC-------CCCEEEEEECCCCCCH--HHHHHHH
T ss_conf             99999997699999998888998988989999986-------9985999987368866--7799999

>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=97.62  E-value=0.00011  Score=38.63  Aligned_cols=24  Identities=33%  Similarity=0.643  Sum_probs=21.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             389998499998889999873886
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      .-+++.||+|+|||++++.++...
T Consensus        46 ~~iLL~GppGtGKT~la~~iA~~~   69 (256)
T d1lv7a_          46 KGVLMVGPPGTGKTLLAKAIAGEA   69 (256)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCCCHHHHHHHHHC
T ss_conf             867866899888228999999982

>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=97.54  E-value=7.4e-05  Score=39.55  Aligned_cols=113  Identities=14%  Similarity=0.137  Sum_probs=57.3

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             38999849999888999987388643234689874225677899974895799993899999999908899999999874
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      ..++++|++|+|||+++..+.....  .+..+..  .          ....+.-+|...+..+......+...+...+..
T Consensus        40 ~n~lLVG~~GvGKTalv~~la~ri~--~~~vp~~--l----------~~~~i~~l~~~~liag~~~~g~~e~r~~~i~~~  105 (268)
T d1r6bx2          40 NNPLLVGESGVGKTAIAEGLAWRIV--QGDVPEV--M----------ADCTIYSLDIGSLLAGTKYRGDFEKRFKALLKQ  105 (268)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHH--HTCSCGG--G----------TTCEEEECCCC---CCCCCSSCHHHHHHHHHHH
T ss_pred             CCCEEECCCCCCHHHHHHHHHHHHH--HCCCCCC--C----------CCCEEEEEEECHHHCCCCCCHHHHHHHHHHHHH
T ss_conf             8967988898867799999999998--1784500--0----------354127864056750676300589999999998


Q ss_pred             CCCCCEEEEEEEECCCCC-----CHHHHHHHHHHHHHHHHHHCCCEEEEEECCC
Q ss_conf             069931999999689988-----9889999999999870400082899995767
Q 030630          101 AKDGIHAVLVVFSVRSRF-----SQEEEAALHSLQTLFGKKIFDYMIVVFTGGD  149 (174)
Q Consensus       101 ~~~~~~~ii~v~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~~iv~tk~D  149 (174)
                      .....++++|+-+.+.-+     +.........++-.+...  .-.+|..|-.|
T Consensus       106 ~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~rg--~i~vIgatT~e  157 (268)
T d1r6bx2         106 LEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSSG--KIRVIGSTTYQ  157 (268)
T ss_dssp             HSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSSC--CCEEEEEECHH
T ss_pred             HHCCCCCEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHHCC--CCEEEEECCHH
T ss_conf             61267846884336988627777886411798764887479--87599957999

>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=97.51  E-value=3.8e-05  Score=40.99  Aligned_cols=29  Identities=17%  Similarity=0.268  Sum_probs=23.4

Q ss_pred             CCCCCCCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             89999833899984999988899998738
Q 030630           14 TSPSNGERTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        14 ~~~~~~~~~i~i~G~~g~GKStlin~l~~   42 (174)
                      ..+......|++.|++||||||+.+.|..
T Consensus        16 ~~~~~~~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          16 AIKTAGRLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             TSCCSSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             HCCCCCCEEEEEECCCCCCHHHHHHHHHH
T ss_conf             52679988999789887899999999999

>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=97.47  E-value=2.7e-05  Score=41.72  Aligned_cols=26  Identities=19%  Similarity=0.313  Sum_probs=22.1

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCC
Q ss_conf             33899984999988899998738864
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRA   45 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~   45 (174)
                      +..++++||+|+||+||++.|+...+
T Consensus         2 G~livi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           2 GTLYIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHCC
T ss_conf             80999999999999999999986398

>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=97.46  E-value=4.1e-05  Score=40.80  Aligned_cols=26  Identities=19%  Similarity=0.396  Sum_probs=22.3

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             83389998499998889999873886
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      +...|+++|++||||||+.+.|....
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~l   29 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAEL   29 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEEECCCCCHHHHHHHHHHHH
T ss_conf             98889998289998899999999985

>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=97.44  E-value=5.1e-05  Score=40.35  Aligned_cols=26  Identities=23%  Similarity=0.434  Sum_probs=22.0

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             98338999849999888999987388
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      .++..|+++|++||||||+.+.|+..
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~   29 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRD   29 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             89948999899999889999999999

>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=97.42  E-value=4.6e-05  Score=40.57  Aligned_cols=23  Identities=17%  Similarity=0.202  Sum_probs=20.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             38999849999888999987388
Q 030630           21 RTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      ..++++|.+|||||||++.|+..
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~   24 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAA   24 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCHHHHHHHHHHH
T ss_conf             09999809999899999999999

>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=97.41  E-value=3.9e-05  Score=40.92  Aligned_cols=27  Identities=30%  Similarity=0.423  Sum_probs=23.0

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCC
Q ss_conf             389998499998889999873886432
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFK   47 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~   47 (174)
                      ..+++.|++|+||||++|+|++..++.
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i~~~  193 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFIPKE  193 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGSCTT
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHCCCC
T ss_conf             888999403566257899986530145

>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=97.41  E-value=5.4e-05  Score=40.22  Aligned_cols=26  Identities=27%  Similarity=0.496  Sum_probs=21.8

Q ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9998338999849999888999987388
Q 030630           16 PSNGERTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        16 ~~~~~~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      |.+  .+|+++|++||||||..+.|+..
T Consensus         1 p~~--~riil~G~pGSGKsT~a~~La~~   26 (190)
T d1ak2a1           1 PKG--VRAVLLGPPGAGKGTQAPKLAKN   26 (190)
T ss_dssp             CCC--CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCC--CEEEEECCCCCCHHHHHHHHHHH
T ss_conf             996--38999899999889999999998

>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=97.36  E-value=2.8e-05  Score=41.66  Aligned_cols=24  Identities=29%  Similarity=0.639  Sum_probs=20.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             389998499998889999873886
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      ..++++||+|+||+|+++.|+...
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHC
T ss_conf             719999989999999999999709

>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=97.33  E-value=5e-05  Score=40.40  Aligned_cols=24  Identities=25%  Similarity=0.549  Sum_probs=20.6

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             338999849999888999987388
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      -++|+++|++||||||+.+.|...
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La~~   27 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELASK   27 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             897989899999989999999999

>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=97.33  E-value=7.1e-05  Score=39.66  Aligned_cols=23  Identities=22%  Similarity=0.550  Sum_probs=19.3

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             38999849999888999987388
Q 030630           21 RTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      ..|++.|++||||||+.+.|...
T Consensus         3 klIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
T ss_conf             79999899999999999999995

>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=97.32  E-value=5.7e-05  Score=40.10  Aligned_cols=26  Identities=19%  Similarity=0.272  Sum_probs=21.7

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             83389998499998889999873886
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      ++.+|+++|++||||||+.+.|....
T Consensus         2 ~Pm~I~i~GppGsGKsT~a~~La~~~   27 (189)
T d1zaka1           2 DPLKVMISGAPASGKGTQCELIKTKY   27 (189)
T ss_dssp             CSCCEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             97299998899999899999999987

>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=97.31  E-value=7.2e-05  Score=39.60  Aligned_cols=24  Identities=38%  Similarity=0.443  Sum_probs=21.3

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             389998499998889999873886
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      ..++++||+||||||+++.|....
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~~   26 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRERI   26 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHC
T ss_conf             499998999999999999998458

>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=97.30  E-value=9.1e-05  Score=39.12  Aligned_cols=28  Identities=21%  Similarity=0.297  Sum_probs=23.3

Q ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9983389998499998889999873886
Q 030630           17 SNGERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        17 ~~~~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      +++..+|+++|++||||||+...|+...
T Consensus         3 ~~r~mrIiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           3 SARLLRAAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             SSCCCEEEEECCTTSSHHHHHHHHHHHB
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             7762169998899998799999999997

>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=97.28  E-value=9e-05  Score=39.13  Aligned_cols=23  Identities=26%  Similarity=0.303  Sum_probs=20.1

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             33899984999988899998738
Q 030630           20 ERTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~   42 (174)
                      +..|++.|++||||||+.+.|..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~   24 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQ   24 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
T ss_conf             98999989997879999999999

>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=97.26  E-value=0.00012  Score=38.55  Aligned_cols=27  Identities=15%  Similarity=0.361  Sum_probs=22.8

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             983389998499998889999873886
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      .+..+|+++|++||||||+...|+...
T Consensus         6 ~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           6 DQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             997289998999999899999999985

>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=97.25  E-value=0.0001  Score=38.87  Aligned_cols=26  Identities=23%  Similarity=0.254  Sum_probs=21.9

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             83389998499998889999873886
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      ++..|.++|.+||||||+.+.|....
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~L   30 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVTL   30 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             97699988999999999999999998

>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=97.24  E-value=0.00011  Score=38.77  Aligned_cols=26  Identities=23%  Similarity=0.316  Sum_probs=22.0

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             83389998499998889999873886
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      ....|++.|++||||||+.+.|....
T Consensus         2 ~~kiI~l~G~~GsGKsTva~~L~~~l   27 (178)
T d1qhxa_           2 TTRMIILNGGSSAGKSGIVRCLQSVL   27 (178)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHHHS
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHC
T ss_conf             98599998999999899999999972

>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=97.23  E-value=0.0017  Score=32.86  Aligned_cols=121  Identities=14%  Similarity=0.017  Sum_probs=54.9

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCC-CCCCCCCCCCEEEEEEEEEEECCCEEEEEECCC-CCCCCCCHHHHHHHHHHHH
Q ss_conf             38999849999888999987388643-234689874225677899974895799993899-9999999088999999998
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAF-KSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPG-LFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~-~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg-~~~~~~~~~~~~~~~~~~~   98 (174)
                      ..+++.|+|.+||||+++++.-.... ..|...+     ........ -+..++-+..+. +.........-.+++...+
T Consensus        36 ~~~iiTGpN~~GKSt~lk~i~l~~ilAq~G~~vp-----A~~~~i~~-~d~I~~~~~~~d~~~~~~StF~~el~~~~~il  109 (224)
T d1ewqa2          36 ELVLITGPNMAGKSTFLRQTALIALLAQVGSFVP-----AEEAHLPL-FDGIYTRIGASDDLAGGKSTFMVEMEEVALIL  109 (224)
T ss_dssp             CEEEEESCSSSSHHHHHHHHHHHHHHHTTTCCBS-----SSEEEECC-CSEEEEECCC------CCSHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCCCHHHHHHHHHHHHHHCCCEEE-----CCCEEEEE-CCEEEEEECCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf             6799978873453234556589999985250461-----37519940-11699998777602378307898678898775


Q ss_pred             HHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCC
Q ss_conf             740699319999996899889889-99999999987040008289999576788
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDEL  151 (174)
Q Consensus        99 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~  151 (174)
                      ..+  ..+.++++...-.+-+..+ ......+.+.+...  ....++.||...+
T Consensus       110 ~~~--~~~sLvliDE~~~gT~~~eg~ala~aile~L~~~--~~~~i~tTH~~eL  159 (224)
T d1ewqa2         110 KEA--TENSLVLLDEVGRGTSSLDGVAIATAVAEALHER--RAYTLFATHYFEL  159 (224)
T ss_dssp             HHC--CTTEEEEEESTTTTSCHHHHHHHHHHHHHHHHHH--TCEEEEECCCHHH
T ss_pred             CCC--CCCCEEEECCCCCCCCHHHHCCHHHHHHHHHHHC--CCCEEEEEECHHH
T ss_conf             028--9772785545456862332002588888888623--7613786520233

>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=97.22  E-value=0.0001  Score=38.91  Aligned_cols=23  Identities=22%  Similarity=0.466  Sum_probs=20.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             38999849999888999987388
Q 030630           21 RTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      ..|++.|++||||||+.+.|...
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~   24 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDN   24 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
T ss_conf             88999899998989999999999

>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=97.22  E-value=0.0001  Score=38.83  Aligned_cols=24  Identities=25%  Similarity=0.446  Sum_probs=20.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             389998499998889999873886
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      ..|++.|++|+||||+.+.|....
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~~   26 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQL   26 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHC
T ss_conf             089998999999899999999980

>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=97.22  E-value=0.0002  Score=37.43  Aligned_cols=112  Identities=14%  Similarity=0.109  Sum_probs=54.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             38999849999888999987388643234689874225677899974895799993899999999908899999999874
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      -.++++|++|+|||+++..+.....  .+..+..  .          .+..++-+|...+..+......+...+...+..
T Consensus        44 ~n~llvG~~GvGKtaiv~~la~~i~--~~~vp~~--l----------~~~~i~~ld~~~l~ag~~~~g~~e~r~~~i~~~  109 (387)
T d1qvra2          44 NNPVLIGEPGVGKTAIVEGLAQRIV--KGDVPEG--L----------KGKRIVSLQMGSLLAGAKYRGEFEERLKAVIQE  109 (387)
T ss_dssp             CCCEEEECTTSCHHHHHHHHHHHHH--HTCSCTT--S----------TTCEEEEECC-----------CHHHHHHHHHHH
T ss_pred             CCCEEECCCCCCHHHHHHHHHHHHH--HCCCCHH--H----------CCCEEEEEEHHHHHCCCCCCHHHHHHHHHHHHH
T ss_conf             9976879999889999999999998--0899978--8----------696689955766652667413689999999998


Q ss_pred             CCC-CCEEEEEEEECCCCCCH----HHHHHHHHHHHHHHHHHCCCEEEEEECC
Q ss_conf             069-93199999968998898----8999999999987040008289999576
Q 030630          101 AKD-GIHAVLVVFSVRSRFSQ----EEEAALHSLQTLFGKKIFDYMIVVFTGG  148 (174)
Q Consensus       101 ~~~-~~~~ii~v~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~~iv~tk~  148 (174)
                      ... ....|+|+.+.+.-+..    ......+.|+-.+...- .. +|..|-.
T Consensus       110 ~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~rg~-~~-~I~~tT~  160 (387)
T d1qvra2         110 VVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALARGE-LR-LIGATTL  160 (387)
T ss_dssp             HHTTCSSEEEEECCC-------------------HHHHHTTC-CC-EEEEECH
T ss_pred             HCCCCCCEEEEECCHHHHHCCCCCCCCCCHHHHHHHHHHCCC-CC-EEEECCH
T ss_conf             505899669872408888427778774138999999973788-51-6663689

>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=97.19  E-value=9.1e-05  Score=39.11  Aligned_cols=24  Identities=29%  Similarity=0.302  Sum_probs=20.6

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             389998499998889999873886
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      +.|.++|++|+|||||+..+....
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l   25 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             699998899971999999999999

>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=97.19  E-value=0.00015  Score=38.02  Aligned_cols=25  Identities=24%  Similarity=0.450  Sum_probs=21.8

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             3389998499998889999873886
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      ...|++.|++||||||+.+.|....
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTCS
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             8599998899998899999999995

>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=97.19  E-value=0.00011  Score=38.72  Aligned_cols=24  Identities=29%  Similarity=0.509  Sum_probs=20.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             389998499998889999873886
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      .+|+++|++||||||..+.|+...
T Consensus         1 m~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           1 MNLVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             989998899999899999999987

>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=97.18  E-value=0.00011  Score=38.67  Aligned_cols=25  Identities=24%  Similarity=0.477  Sum_probs=21.4

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             3389998499998889999873886
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      +.-+++.|++|+||||+...|++..
T Consensus        32 P~~ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          32 PTAFLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             9799988979988999999999986

>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=97.18  E-value=0.00013  Score=38.33  Aligned_cols=25  Identities=32%  Similarity=0.504  Sum_probs=21.0

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             3389998499998889999873886
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      ...++++|++||||||+.+.|....
T Consensus         6 ~~iivl~G~~GsGKsT~a~~La~~l   30 (171)
T d1knqa_           6 HHIYVLMGVSGSGKSAVASEVAHQL   30 (171)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             7189998999989899999999986

>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=97.18  E-value=0.00013  Score=38.29  Aligned_cols=30  Identities=23%  Similarity=0.295  Sum_probs=24.2

Q ss_pred             CCCCCCEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             999983389998499998889999873886
Q 030630           15 SPSNGERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        15 ~~~~~~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      ....++..|++-|..||||||+++.|....
T Consensus         4 ~~~~kp~~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1           4 AEGTQPFTVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             TTTCCCEEEEEECSTTSCHHHHHHTTGGGT
T ss_pred             CCCCCCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             679986199988999988899999999870

>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=97.17  E-value=0.00018  Score=37.69  Aligned_cols=25  Identities=36%  Similarity=0.324  Sum_probs=21.1

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             8338999849999888999987388
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      .+..|+++|.+||||||+.+.++..
T Consensus        13 ~p~liil~G~pGsGKST~a~~l~~~   37 (172)
T d1yj5a2          13 NPEVVVAVGFPGAGKSTFIQEHLVS   37 (172)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHTGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             9989999899999899999999976

>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=97.17  E-value=0.0023  Score=32.21  Aligned_cols=124  Identities=10%  Similarity=-0.009  Sum_probs=54.4

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCC-CCCCCCCCCCEEEEEEEEEEECCCEEEEEECCC-CCCCCCCHHHHHHHHHHHH
Q ss_conf             38999849999888999987388643-234689874225677899974895799993899-9999999088999999998
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAF-KSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPG-LFDFSAGSEFVGKEIVKCI   98 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~-~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg-~~~~~~~~~~~~~~~~~~~   98 (174)
                      ..+++.|+|.+||||+++++.-.... ..|...+     ........ -+..++-+..+. +.........-.+++...+
T Consensus        42 ~~~iiTGpN~~GKSt~lk~i~l~~~laq~G~~Vp-----A~~a~~~~-~d~I~~~~~~~d~~~~~~S~F~~E~~~~~~il  115 (234)
T d1wb9a2          42 RMLIITGPNMGGKSTYMRQTALIALMAYIGSYVP-----AQKVEIGP-IDRIFTRVGAADDLASGRSTFMVEMTETANIL  115 (234)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHHTTTCCBS-----SSEEEECC-CCEEEEEEC-----------CHHHHHHHHHHH
T ss_pred             EEEEEECCCCHHHHHHHHHHHHHHHHHHCCCEEE-----CCCEECCC-CHHHEEEECCCCCCCCCHHHHHHHHHHHHHHH
T ss_conf             3999954673136899998799999987297674-----17666134-42023487467534365318999999999999


Q ss_pred             HHCCCCCEEEEEEEECCCCCCHHH-HHHHHHHHHHHHHHHCCCEEEEEECCCCCCC
Q ss_conf             740699319999996899889889-9999999998704000828999957678899
Q 030630           99 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  153 (174)
Q Consensus        99 ~~~~~~~~~ii~v~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~~iv~tk~D~~~~  153 (174)
                      ..+.  .+.++++...-.+-++.+ ......+.+.+... ..+.+++.||...+..
T Consensus       116 ~~~~--~~sLvliDE~~~gT~~~eg~~l~~a~l~~l~~~-~~~~~i~tTH~~~l~~  168 (234)
T d1wb9a2         116 HNAT--EYSLVLMDEIGRGTSTYDGLSLAWACAENLANK-IKALTLFATHYFELTQ  168 (234)
T ss_dssp             HHCC--TTEEEEEESCCCCSSSSHHHHHHHHHHHHHHHT-TCCEEEEECSCGGGGG
T ss_pred             HHCC--CCCEEEECCCCCCCCHHHHHHHHHHHHHHHHCC-CCCEEEEECCHHHHHH
T ss_conf             7454--660885322235877456667898764543204-5442898524687764

>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=97.16  E-value=0.00011  Score=38.70  Aligned_cols=23  Identities=26%  Similarity=0.499  Sum_probs=19.9

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             89998499998889999873886
Q 030630           22 TVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      -|+++||+||||+|+++.|+...
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~~   25 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAEY   25 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHC
T ss_conf             69998999999899999999748

>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=97.14  E-value=0.00015  Score=38.08  Aligned_cols=25  Identities=24%  Similarity=0.409  Sum_probs=21.1

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             3389998499998889999873886
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      +.+|+++|++||||||..+.|+...
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             9399997999999899999999986

>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=97.14  E-value=0.00014  Score=38.22  Aligned_cols=114  Identities=18%  Similarity=0.161  Sum_probs=61.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             38999849999888999987388643234689874225677899974895799993899999999908899999999874
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM  100 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~~~~~~~~~~~~~~~~~~~  100 (174)
                      ..++++|++|+|||+++..++....  .+..+..  .          .+..++-+|...+.........+...+...+..
T Consensus        44 ~n~lLvG~pGVGKTalv~~LA~ri~--~~~vp~~--L----------~~~~i~~ld~~~LiAg~~~rG~~E~rl~~il~e  109 (195)
T d1jbka_          44 NNPVLIGEPGVGKTAIVEGLAQRII--NGEVPEG--L----------KGRRVLALDMGALVAGAKYRGEFEERLKGVLND  109 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHHHH--HTCSCGG--G----------TTCEEEEECHHHHHTTTCSHHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH--HCCCCHH--H----------CCCEEEEEEHHHHHCCCCCCHHHHHHHHHHHHH
T ss_conf             8739983587544799999999998--0899978--8----------185699966999864587407799999999998


Q ss_pred             CC-CCCEEEEEEEECCCCCCHHH----HHHHHHHHHHHHHHHCCCEEEEEECCCC
Q ss_conf             06-99319999996899889889----9999999998704000828999957678
Q 030630          101 AK-DGIHAVLVVFSVRSRFSQEE----EAALHSLQTLFGKKIFDYMIVVFTGGDE  150 (174)
Q Consensus       101 ~~-~~~~~ii~v~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~~iv~tk~D~  150 (174)
                      .. ...++|+|+.+...-+....    ....+.++-.+...  .-.+|..+-.|.
T Consensus       110 ~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~rg--~l~~IgatT~ee  162 (195)
T d1jbka_         110 LAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALARG--ELHCVGATTLDE  162 (195)
T ss_dssp             HHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHTT--SCCEEEEECHHH
T ss_pred             HHCCCCCEEEECCHHHHHHCCCCCCCCCCHHHHHHHHHHCC--CCEEEECCCHHH
T ss_conf             73179808997260899843787777523899999998579--954985189999

>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=97.13  E-value=0.00014  Score=38.26  Aligned_cols=24  Identities=29%  Similarity=0.569  Sum_probs=20.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             389998499998889999873886
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      ++|+++|++||||||+.+.|+...
T Consensus         1 M~I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           1 MNIVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             989998899998799999999987

>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=97.12  E-value=0.0002  Score=37.42  Aligned_cols=21  Identities=29%  Similarity=0.469  Sum_probs=18.0

Q ss_pred             EEEEEECCCCCCHHHHHHHHH
Q ss_conf             389998499998889999873
Q 030630           21 RTVVLVGRTGNGKSATGNSIL   41 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~   41 (174)
                      ..-+++|+||+|||+++.+|.
T Consensus        26 ~l~~i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          26 NFTSIIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             SEEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHH
T ss_conf             989999999998899999999

>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=97.10  E-value=7.3e-05  Score=39.58  Aligned_cols=25  Identities=28%  Similarity=0.323  Sum_probs=21.5

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             8338999849999888999987388
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      ++..|.++|.+||||||+.+.|...
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~~   42 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEEY   42 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             9969998899999999999999999

>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=97.09  E-value=0.00016  Score=37.88  Aligned_cols=20  Identities=35%  Similarity=0.531  Sum_probs=17.5

Q ss_pred             EEEEECCCCCCHHHHHHHHH
Q ss_conf             89998499998889999873
Q 030630           22 TVVLVGRTGNGKSATGNSIL   41 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~   41 (174)
                      .-+++|+||+||||++.+|.
T Consensus        26 lnvlvG~NgsGKS~iL~Ai~   45 (308)
T d1e69a_          26 VTAIVGPNGSGKSNIIDAIK   45 (308)
T ss_dssp             EEEEECCTTTCSTHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
T ss_conf             19999999984899999999

>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=97.08  E-value=0.00017  Score=37.78  Aligned_cols=26  Identities=23%  Similarity=0.512  Sum_probs=22.0

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCC
Q ss_conf             33899984999988899998738864
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRA   45 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~   45 (174)
                      +..|.++|++||||||..+.|+....
T Consensus         8 ~~iI~l~G~pGSGKsT~a~~La~~~g   33 (194)
T d3adka_           8 SKIIFVVGGPGSGKGTQCEKIVQKYG   33 (194)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHC
T ss_conf             82899989999987999999999869

>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=97.05  E-value=0.00014  Score=38.17  Aligned_cols=23  Identities=39%  Similarity=0.590  Sum_probs=19.4

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             38999849999888999987388
Q 030630           21 RTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      ++|+++|.+|+||||+.+.|...
T Consensus         2 p~IvliG~~G~GKSTig~~La~~   24 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLAKA   24 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHH
T ss_conf             94899889999889999999998

>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=97.02  E-value=0.00011  Score=38.79  Aligned_cols=24  Identities=17%  Similarity=0.321  Sum_probs=20.7

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             833899984999988899998738
Q 030630           19 GERTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~   42 (174)
                      ++..|++.|.+||||||+.+.|..
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~   26 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQ   26 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
T ss_conf             888999989997809999999999

>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=97.01  E-value=0.00015  Score=38.04  Aligned_cols=24  Identities=21%  Similarity=0.497  Sum_probs=20.8

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             338999849999888999987388
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      ..-++++||+|+|||.|.+++++.
T Consensus        49 ~~~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          49 PKNILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHC
T ss_conf             866999899998888999998621

>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=97.01  E-value=0.0028  Score=31.81  Aligned_cols=24  Identities=25%  Similarity=0.401  Sum_probs=20.3

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             338999849999888999987388
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      ...+++.|++|+||||++..++..
T Consensus        33 ~~~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          33 LPHLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             CCCEEEECSTTSSHHHHHHTHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             785998899999889999999976

>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=97.00  E-value=0.00019  Score=37.50  Aligned_cols=23  Identities=35%  Similarity=0.523  Sum_probs=19.4

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             89998499998889999873886
Q 030630           22 TVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      -|+++||+|+||+|+.+.|+...
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~   24 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEH   24 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHC
T ss_conf             19999999999999999999748

>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=97.00  E-value=0.00029  Score=36.61  Aligned_cols=31  Identities=23%  Similarity=0.272  Sum_probs=24.6

Q ss_pred             CCCCCCCEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             8999983389998499998889999873886
Q 030630           14 TSPSNGERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        14 ~~~~~~~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      ....+....+++.||+|+||||++..++...
T Consensus        46 ~~~~~~~~~lll~GPpG~GKTt~a~~la~~~   76 (253)
T d1sxja2          46 KDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL   76 (253)
T ss_dssp             TTSTTSCSEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCCCCCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             2578887449998799998889999999998

>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=96.99  E-value=0.00022  Score=37.23  Aligned_cols=24  Identities=25%  Similarity=0.441  Sum_probs=20.4

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             389998499998889999873886
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      .+|+++|++||||||+.+.|+...
T Consensus         1 m~I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           1 MRVLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             989998899999799999999998

>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=96.98  E-value=0.00021  Score=37.34  Aligned_cols=23  Identities=22%  Similarity=0.443  Sum_probs=19.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             38999849999888999987388
Q 030630           21 RTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      .+|+++|++||||||..+.|...
T Consensus         1 m~I~i~G~pGSGKsT~~~~La~~   23 (179)
T d1e4va1           1 MRIILLGAPVAGKGTQAQFIMEK   23 (179)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
T ss_conf             98999879999989999999998

>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=96.97  E-value=0.00021  Score=37.30  Aligned_cols=23  Identities=39%  Similarity=0.702  Sum_probs=19.9

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             38999849999888999987388
Q 030630           21 RTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      ..|.++|++|+||||+.+.|...
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~   25 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQ   25 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
T ss_conf             74999899999999999999999

>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=96.94  E-value=0.00036  Score=36.17  Aligned_cols=25  Identities=20%  Similarity=0.258  Sum_probs=20.8

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             9833899984999988899998738
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~   42 (174)
                      .....|++.|++||||||+.+.|..
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~  102 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCCCHHHHHHHH
T ss_conf             9988999968999987689999999

>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=96.94  E-value=0.0003  Score=36.54  Aligned_cols=24  Identities=33%  Similarity=0.389  Sum_probs=21.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             389998499998889999873886
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      -.+++.|++|+||||++.+++...
T Consensus       159 GliLvtGpTGSGKSTTl~~~l~~~  182 (401)
T d1p9ra_         159 GIILVTGPTGSGKSTTLYAGLQEL  182 (401)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCCCHHHHHHHHHH
T ss_conf             548987678777447799986662

>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=96.93  E-value=0.00028  Score=36.71  Aligned_cols=23  Identities=30%  Similarity=0.551  Sum_probs=20.4

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             38999849999888999987388
Q 030630           21 RTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      .+|+++|++||||||+.+.|+..
T Consensus         3 mrIvl~G~pGSGKtT~a~~La~~   25 (180)
T d1akya1           3 IRMVLIGPPGAGKGTQAPNLQER   25 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
T ss_conf             69999899999989999999999

>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=96.90  E-value=0.0003  Score=36.60  Aligned_cols=23  Identities=22%  Similarity=0.265  Sum_probs=19.6

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             38999849999888999987388
Q 030630           21 RTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      ..+++.|.+||||||+.+.|...
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~   24 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEI   24 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
T ss_conf             19999898998989999999999

>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=96.88  E-value=0.00036  Score=36.15  Aligned_cols=27  Identities=22%  Similarity=0.271  Sum_probs=22.5

Q ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             998338999849999888999987388
Q 030630           17 SNGERTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        17 ~~~~~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      ..+...|.+.|.+||||||+.+.|...
T Consensus        21 ~~kg~vIwltGlsGsGKTTia~~L~~~   47 (208)
T d1m7ga_          21 NQRGLTIWLTGLSASGKSTLAVELEHQ   47 (208)
T ss_dssp             TSSCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             899869999899999989999999988

>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=96.84  E-value=0.00026  Score=36.90  Aligned_cols=25  Identities=24%  Similarity=0.339  Sum_probs=21.2

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             3389998499998889999873886
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      ..-+++.||+|+||||+.+.+++..
T Consensus        35 ~~~~Ll~GPpG~GKTtla~~la~~~   59 (239)
T d1ixsb2          35 LEHLLLFGPPGLGKTTLAHVIAHEL   59 (239)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             8738988979987888999999984

>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=96.84  E-value=0.00029  Score=36.62  Aligned_cols=22  Identities=27%  Similarity=0.543  Sum_probs=18.8

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             8999849999888999987388
Q 030630           22 TVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~   43 (174)
                      .|+++|++||||||+.+.|+..
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~   23 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKD   23 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
T ss_conf             3999899999889999999998

>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=96.82  E-value=0.00035  Score=36.26  Aligned_cols=25  Identities=28%  Similarity=0.306  Sum_probs=21.6

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             8338999849999888999987388
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      +..-+++.||+|+|||++.+.+++.
T Consensus        39 p~~~vLL~GppGtGKT~la~alA~~   63 (246)
T d1d2na_          39 PLVSVLLEGPPHSGKTALAAKIAEE   63 (246)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHC
T ss_conf             9807998896999889999998620

>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=96.80  E-value=0.00054  Score=35.31  Aligned_cols=28  Identities=25%  Similarity=0.311  Sum_probs=21.7

Q ss_pred             CCCCCCCEEEEEECCCCCCHHHHHHHHH
Q ss_conf             8999983389998499998889999873
Q 030630           14 TSPSNGERTVVLVGRTGNGKSATGNSIL   41 (174)
Q Consensus        14 ~~~~~~~~~i~i~G~~g~GKStlin~l~   41 (174)
                      +.....+..|++.|++|||||||...|.
T Consensus        21 ~~~~~~P~iIGi~G~qGSGKSTl~~~l~   48 (286)
T d1odfa_          21 ETGNKCPLFIFFSGPQGSGKSFTSIQIY   48 (286)
T ss_dssp             TTTCCSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             HCCCCCCEEEEEECCCCCCHHHHHHHHH
T ss_conf             0489998899837998788999999999

>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=96.79  E-value=0.00044  Score=35.78  Aligned_cols=23  Identities=22%  Similarity=0.358  Sum_probs=20.3

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             33899984999988899998738
Q 030630           20 ERTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~   42 (174)
                      +..|+++|.+||||||+.+.|..
T Consensus         3 p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
T ss_conf             98999989887789999999998

>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=96.76  E-value=0.00033  Score=36.38  Aligned_cols=27  Identities=19%  Similarity=0.254  Sum_probs=21.5

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             983389998499998889999873886
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      +....+.+.|++|+||||+++.++...
T Consensus        31 ~~~~~lll~Gp~G~GKTtl~~~i~~~l   57 (237)
T d1sxjd2          31 ANLPHMLFYGPPGTGKTSTILALTKEL   57 (237)
T ss_dssp             TTCCCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             998859998999998499999999997

>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=96.75  E-value=0.00052  Score=35.41  Aligned_cols=26  Identities=19%  Similarity=0.225  Sum_probs=21.7

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             83389998499998889999873886
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      +..+|++-||+||||||....|+...
T Consensus         2 k~i~IaIdGp~GsGKgT~ak~La~~l   27 (223)
T d1q3ta_           2 KTIQIAIDGPASSGKSTVAKIIAKDF   27 (223)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             96599978999879899999999996

>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=96.74  E-value=0.00061  Score=35.06  Aligned_cols=29  Identities=28%  Similarity=0.410  Sum_probs=23.2

Q ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             99983389998499998889999873886
Q 030630           16 PSNGERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        16 ~~~~~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      +......+++.|++|+|||++++.++...
T Consensus        39 ~~~~~~~lll~GppGtGKT~l~~~l~~~l   67 (276)
T d1fnna2          39 PGHHYPRATLLGRPGTGKTVTLRKLWELY   67 (276)
T ss_dssp             TTSSCCEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCCCCCEEEECCCCCCHHHHHHHHHHHH
T ss_conf             89888816888989998999999999997

>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=96.72  E-value=0.00034  Score=36.29  Aligned_cols=23  Identities=22%  Similarity=0.525  Sum_probs=20.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             38999849999888999987388
Q 030630           21 RTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      ..|+++||+|+|||-|.++|++.
T Consensus        50 sNILliGPTGvGKTlLAr~LAk~   72 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAKL   72 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHH
T ss_conf             64799899998899999999987

>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=96.72  E-value=0.00085  Score=34.36  Aligned_cols=31  Identities=19%  Similarity=0.255  Sum_probs=24.2

Q ss_pred             CCCCCCCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             5899998338999849999888999987388
Q 030630           13 LTSPSNGERTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        13 ~~~~~~~~~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      +..+..+...++++||+|+|||.|.+.|+..
T Consensus        45 l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~   75 (315)
T d1r6bx3          45 LGHEHKPVGSFLFAGPTGVGKTEVTVQLSKA   75 (315)
T ss_dssp             CSCTTSCSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCCCCCEEEEEECCCCCHHHHHHHHHHHH
T ss_conf             7888887658999778750069999999863

>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=96.68  E-value=0.00048  Score=35.57  Aligned_cols=24  Identities=29%  Similarity=0.418  Sum_probs=20.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             389998499998889999873886
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      .-+++.||+|+||||+.+.++...
T Consensus        36 ~~~L~~GPpGtGKT~lA~~la~~~   59 (238)
T d1in4a2          36 DHVLLAGPPGLGKTTLAHIIASEL   59 (238)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHCC
T ss_conf             748987999973889999998503

>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=96.66  E-value=0.00052  Score=35.41  Aligned_cols=22  Identities=23%  Similarity=0.524  Sum_probs=18.3

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             8999849999888999987388
Q 030630           22 TVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~   43 (174)
                      .|.++|++||||||+.+.|+..
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~   25 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARA   25 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
T ss_conf             8899889999889999999999

>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=96.64  E-value=0.004  Score=31.07  Aligned_cols=59  Identities=24%  Similarity=0.254  Sum_probs=37.0

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCC
Q ss_conf             338999849999888999987388643234689874225677899974895799993899999
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   82 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~   82 (174)
                      ...+++.|.-|||||||++.++........+.++.-+.. +.+  .. ....++=+|..-+.+
T Consensus        33 g~ii~L~G~LGaGKTtfvr~~~~~lg~~~~V~SPTF~l~-~~Y--~~-~~~~i~H~DlYRl~~   91 (158)
T d1htwa_          33 AIMVYLNGDLGAGKTTLTRGMLQGIGHQGNVKSPTYTLV-EEY--NI-AGKMIYHFDLYRLAD   91 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHTTCCSCCCCCTTTCE-EEE--EE-TTEEEEEEECTTCSC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCEEEE-EEE--CC-CCCEEEEEEEECCCC
T ss_conf             829999668776588999998764223466678753788-763--05-785289999751588

>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=96.63  E-value=8.4e-05  Score=39.29  Aligned_cols=21  Identities=33%  Similarity=0.452  Sum_probs=17.9

Q ss_pred             EEEEEECCCCCCHHHHHHHHH
Q ss_conf             389998499998889999873
Q 030630           21 RTVVLVGRTGNGKSATGNSIL   41 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~   41 (174)
                      ...+|+|+||+||||++.+|.
T Consensus        25 ~~tvi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          25 LVTTLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHHHHSCCSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHH
T ss_conf             808998899998799999999

>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=96.61  E-value=0.00076  Score=34.60  Aligned_cols=25  Identities=16%  Similarity=0.303  Sum_probs=21.3

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             3389998499998889999873886
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      ...+++.|++|+||||+++.++...
T Consensus        45 ~~~lll~Gp~G~GKTtla~~iak~l   69 (231)
T d1iqpa2          45 MPHLLFAGPPGVGKTTAALALAREL   69 (231)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             9769997899974879999999998

>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=96.59  E-value=0.00072  Score=34.71  Aligned_cols=24  Identities=17%  Similarity=0.317  Sum_probs=20.6

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             389998499998889999873886
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      +.|++.||+||||||.-..|....
T Consensus         4 piI~I~GppGSGKgT~ak~La~~~   27 (225)
T d1ckea_           4 PVITIDGPSGAGKGTLCKAMAEAL   27 (225)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             889977999889899999999996

>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=96.55  E-value=0.00078  Score=34.53  Aligned_cols=24  Identities=17%  Similarity=0.297  Sum_probs=19.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             389998499998889999873886
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      .-+++.|++|+||||+...++...
T Consensus        35 ~~~Ll~Gp~G~GKtt~a~~~~~~l   58 (239)
T d1njfa_          35 HAYLFSGTRGVGKTSIARLLAKGL   58 (239)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             059888899875899999999984

>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=96.42  E-value=0.00097  Score=34.06  Aligned_cols=22  Identities=18%  Similarity=0.203  Sum_probs=19.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             3899984999988899998738
Q 030630           21 RTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~   42 (174)
                      ..+++.|+.|+|||||++.++.
T Consensus        30 ~~i~i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          30 PITLVLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
T ss_conf             8799986999829999999999

>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=96.42  E-value=0.00027  Score=36.79  Aligned_cols=24  Identities=17%  Similarity=0.333  Sum_probs=20.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             389998499998889999873886
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      .-+++.|++|+||||+++.++...
T Consensus        37 ~~~ll~Gp~G~GKTt~a~~la~~l   60 (224)
T d1sxjb2          37 PHMIISGMPGIGKTTSVHCLAHEL   60 (224)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHH
T ss_conf             749998899987054699999997

>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=96.42  E-value=0.0014  Score=33.32  Aligned_cols=24  Identities=25%  Similarity=0.531  Sum_probs=21.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             389998499998889999873886
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      .-+++.||+|+|||++++.++...
T Consensus        39 ~giLL~GppGtGKT~l~~ala~~~   62 (258)
T d1e32a2          39 RGILLYGPPGTGKTLIARAVANET   62 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHH
T ss_conf             646876699888308999999874

>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=96.40  E-value=0.00077  Score=34.57  Aligned_cols=25  Identities=20%  Similarity=0.189  Sum_probs=21.8

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             3389998499998889999873886
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      ...|++-|+-||||||+++.|....
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~l   26 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQLC   26 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGGC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             9889998788877999999999997

>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=96.39  E-value=0.0011  Score=33.73  Aligned_cols=23  Identities=35%  Similarity=0.644  Sum_probs=20.6

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             38999849999888999987388
Q 030630           21 RTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      .-+++.|++|+|||++++++.+.
T Consensus        43 ~giLl~GppGtGKT~la~aia~~   65 (247)
T d1ixza_          43 KGVLLVGPPGVGKTHLARAVAGE   65 (247)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
T ss_conf             64887668988835999999987

>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=96.38  E-value=0.0011  Score=33.72  Aligned_cols=26  Identities=19%  Similarity=0.284  Sum_probs=22.2

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             83389998499998889999873886
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      +...+++.||+|+|||++.+++++..
T Consensus       153 ~~~~~~~~g~~~~gk~~~~~~~~~~~  178 (362)
T d1svma_         153 KKRYWLFKGPIDSGKTTLAAALLELC  178 (362)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHC
T ss_conf             76769998999988899999999985

>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=96.37  E-value=0.001  Score=33.90  Aligned_cols=24  Identities=25%  Similarity=0.430  Sum_probs=21.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             389998499998889999873886
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      .-+++.|++|+|||++++++++..
T Consensus        42 ~giLL~Gp~GtGKT~l~~ala~~~   65 (265)
T d1r7ra3          42 KGVLFYGPPGCGKTLLAKAIANEC   65 (265)
T ss_dssp             CEEEEBCCTTSSHHHHHHHHHHHT
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHH
T ss_conf             757887899876304778878771

>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=96.33  E-value=0.0013  Score=33.40  Aligned_cols=24  Identities=25%  Similarity=0.591  Sum_probs=20.7

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             338999849999888999987388
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      ...++++||+|+|||-+.++|+..
T Consensus        68 ~~niLfiGPTGvGKTElAk~LA~~   91 (364)
T d1um8a_          68 KSNILLIGPTGSGKTLMAQTLAKH   91 (364)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHH
T ss_conf             753244189986378999999864

>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=96.23  E-value=0.0019  Score=32.64  Aligned_cols=23  Identities=13%  Similarity=0.157  Sum_probs=19.3

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             38999849999888999987388
Q 030630           21 RTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      .-+++.|++|+||||+...++..
T Consensus        25 h~lLl~Gp~G~GKtt~a~~~a~~   47 (207)
T d1a5ta2          25 HALLIQALPGMGDDALIYALSRY   47 (207)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
T ss_conf             37988899987599999999982

>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=96.23  E-value=0.0016  Score=33.03  Aligned_cols=22  Identities=36%  Similarity=0.539  Sum_probs=19.4

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             3899984999988899998738
Q 030630           21 RTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~   42 (174)
                      ..|+++|..||||||..+.+..
T Consensus         4 ~iIgitG~igSGKStv~~~l~~   25 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFAD   25 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
T ss_conf             7999789886889999999998

>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=96.23  E-value=0.00099  Score=34.02  Aligned_cols=23  Identities=26%  Similarity=0.335  Sum_probs=18.7

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             89998499998889999873886
Q 030630           22 TVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      .+.+.|++|+|||++++.++...
T Consensus        48 ~l~l~GppGtGKT~l~~~l~~~l   70 (287)
T d1w5sa2          48 IYGSIGRVGIGKTTLAKFTVKRV   70 (287)
T ss_dssp             EEECTTCCSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
T ss_conf             89967899989999999999998

>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=0.0015  Score=33.07  Aligned_cols=22  Identities=32%  Similarity=0.418  Sum_probs=19.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             3899984999988899998738
Q 030630           21 RTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~   42 (174)
                      ..|+++|..||||||+.+.+..
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
T ss_conf             8999888887889999999998

>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=96.15  E-value=0.00037  Score=36.13  Aligned_cols=24  Identities=21%  Similarity=0.336  Sum_probs=20.3

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             389998499998889999873886
Q 030630           21 RTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      ..+++.|++|+||||++..++...
T Consensus        36 ~~lLl~Gp~G~GKttl~~~la~~l   59 (227)
T d1sxjc2          36 PHLLFYGPPGTGKTSTIVALAREI   59 (227)
T ss_dssp             CCEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             859998899877558999999985

>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=96.07  E-value=0.002  Score=32.57  Aligned_cols=22  Identities=23%  Similarity=0.394  Sum_probs=19.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             3899984999988899998738
Q 030630           21 RTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~   42 (174)
                      ..|++-|.-||||||+++.|..
T Consensus         1 mlI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           1 MLIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
T ss_conf             9899989987899999999999

>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=96.05  E-value=0.0021  Score=32.43  Aligned_cols=23  Identities=26%  Similarity=0.384  Sum_probs=19.5

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             33899984999988899998738
Q 030630           20 ERTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~   42 (174)
                      +..|++-|..||||||+++.|..
T Consensus         3 G~lI~ieG~dGsGKsT~~~~L~~   25 (209)
T d1nn5a_           3 GALIVLEGVDRAGKSTQSRKLVE   25 (209)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHH
T ss_conf             05999989988899999999999

>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=96.03  E-value=0.0022  Score=32.34  Aligned_cols=23  Identities=26%  Similarity=0.543  Sum_probs=20.0

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             33899984999988899998738
Q 030630           20 ERTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~   42 (174)
                      +..|++-|..||||||+++.|..
T Consensus         2 gkfIviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           2 SKYIVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
T ss_conf             87899989988879999999999

>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=95.99  E-value=0.0025  Score=32.09  Aligned_cols=26  Identities=15%  Similarity=0.335  Sum_probs=21.7

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             98338999849999888999987388
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      |++..|++-|.-||||||+++.|...
T Consensus         1 ~kGk~I~iEG~DGsGKST~~~~L~~~   26 (214)
T d1tmka_           1 GRGKLILIEGLDRTGKTTQCNILYKK   26 (214)
T ss_dssp             CCCCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             97689999899888699999999999

>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=95.97  E-value=0.0025  Score=32.02  Aligned_cols=24  Identities=21%  Similarity=0.228  Sum_probs=20.8

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             338999849999888999987388
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      +..|++-|.-||||||+++.|...
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~   25 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             819999899888599999999998

>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=95.74  E-value=0.0029  Score=31.72  Aligned_cols=23  Identities=30%  Similarity=0.400  Sum_probs=18.4

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             38999849999888999987388
Q 030630           21 RTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      .-++++|++|+|||++++.++..
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~~   73 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAYT   73 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCHHHHHHHHHHH
T ss_conf             65899907999689999999999

>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=95.69  E-value=0.0051  Score=30.54  Aligned_cols=31  Identities=19%  Similarity=0.393  Sum_probs=22.9

Q ss_pred             CCCCCCCEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             8999983389998499998889999873886
Q 030630           14 TSPSNGERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        14 ~~~~~~~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      ..+..+.-.++++|++|+|||.+.+.|....
T Consensus        47 ~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l   77 (315)
T d1qvra3          47 KDPNRPIGSFLFLGPTGVGKTELAKTLAATL   77 (315)
T ss_dssp             SCSSSCSEEEEEBSCSSSSHHHHHHHHHHHH
T ss_pred             CCCCCCCEEEEEECCCCCHHHHHHHHHHHHH
T ss_conf             9988876699997888624899999999983

>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=95.68  E-value=0.0039  Score=31.08  Aligned_cols=23  Identities=26%  Similarity=0.479  Sum_probs=20.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             38999849999888999987388
Q 030630           21 RTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      ..|++.|..||||||..+.|...
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~   24 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
T ss_conf             89999799998899999999986

>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=95.62  E-value=0.0031  Score=31.58  Aligned_cols=27  Identities=11%  Similarity=0.167  Sum_probs=21.7

Q ss_pred             CCCCCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             99998338999849999888999987388
Q 030630           15 SPSNGERTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        15 ~~~~~~~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      .+.|  ..+.+.|++|+|||+|...++..
T Consensus        20 i~~G--~v~~i~G~~GsGKT~l~l~la~~   46 (242)
T d1n0wa_          20 IETG--SITEMFGEFRTGKTQICHTLAVT   46 (242)
T ss_dssp             EETT--SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCC--EEEEEEECCCCCHHHHHHHHHHH
T ss_conf             8599--79999958999999999999999

>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=95.60  E-value=0.0047  Score=30.71  Aligned_cols=25  Identities=32%  Similarity=0.351  Sum_probs=22.2

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             3389998499998889999873886
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      ..+|.+-|.-|+||||+++.|....
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l   30 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAA   30 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGG
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             5899998886678999999999986

>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=95.60  E-value=0.0039  Score=31.12  Aligned_cols=23  Identities=26%  Similarity=0.355  Sum_probs=20.8

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             38999849999888999987388
Q 030630           21 RTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      .+|.|-|.-|+||||+++.|...
T Consensus         5 lrI~IEG~iGsGKTTl~~~La~~   27 (329)
T d1e2ka_           5 LRVYIDGPHGMGKTTTTQLLVAL   27 (329)
T ss_dssp             EEEEECSCTTSSHHHHHHHHTC-
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
T ss_conf             29999898677899999999998

>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=95.49  E-value=0.0033  Score=31.47  Aligned_cols=27  Identities=19%  Similarity=0.192  Sum_probs=21.8

Q ss_pred             CCCCCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             99998338999849999888999987388
Q 030630           15 SPSNGERTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        15 ~~~~~~~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      .+.+  ..+.+.|++|+|||+|...++..
T Consensus        31 i~~G--~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          31 VETG--SITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             EESS--SEEEEEESTTSSHHHHHHHHTTT
T ss_pred             CCCC--EEEEEECCCCCCHHHHHHHHHHH
T ss_conf             8699--69999838999889999999998

>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=95.48  E-value=0.0035  Score=31.32  Aligned_cols=26  Identities=27%  Similarity=0.365  Sum_probs=22.4

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             83389998499998889999873886
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      ...+|.+-|.-|+||||+++.|....
T Consensus         4 ~~lrI~IEG~iGsGKSTl~~~L~~~l   29 (331)
T d1osna_           4 GVLRIYLDGAYGIGKTTAAEEFLHHF   29 (331)
T ss_dssp             EEEEEEEEESSSSCTTHHHHHHHHTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             61699998887788999999999987

>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=95.36  E-value=0.0051  Score=30.54  Aligned_cols=22  Identities=36%  Similarity=0.579  Sum_probs=19.4

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             3899984999988899998738
Q 030630           21 RTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~   42 (174)
                      .-+++.|++|+||||+...+..
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~   37 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLIN   37 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
T ss_conf             9999981899998999999998

>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=95.35  E-value=0.0051  Score=30.52  Aligned_cols=22  Identities=32%  Similarity=0.496  Sum_probs=19.0

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             3899984999988899998738
Q 030630           21 RTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~   42 (174)
                      .-+++.|++|+||||+.-.+..
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~   36 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQ   36 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEEECCCCCHHHHHHHHHH
T ss_conf             9999980899998999999998

>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=95.31  E-value=0.0055  Score=30.36  Aligned_cols=26  Identities=15%  Similarity=0.287  Sum_probs=20.9

Q ss_pred             CCCCCCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             9999833899984999988899998738
Q 030630           15 SPSNGERTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        15 ~~~~~~~~i~i~G~~g~GKStlin~l~~   42 (174)
                      .+.+  ..+.+.|++|+|||+|.-.++.
T Consensus        33 lp~G--~~~li~G~pGsGKT~~~lq~~~   58 (254)
T d1pzna2          33 IETQ--AITEVFGEFGSGKTQLAHTLAV   58 (254)
T ss_dssp             EESS--EEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCC--EEEEEECCCCCCHHHHHHHHHH
T ss_conf             5588--7999985898988999999999

>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=95.29  E-value=0.0043  Score=30.87  Aligned_cols=34  Identities=21%  Similarity=0.229  Sum_probs=27.2

Q ss_pred             CCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             3358999983389998499998889999873886
Q 030630           11 WELTSPSNGERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        11 ~~~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      ++.=.|-++..+++++|++|+|||+|+..+....
T Consensus        34 ID~l~PigrGQr~~I~g~~g~GKT~l~~~i~~~~   67 (289)
T d1xpua3          34 LDLASPIGRGQRGLIVAPPKAGKTMLLQNIAQSI   67 (289)
T ss_dssp             HHHHSCCBTTCEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             EEECCCCCCCCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             6412564578755686799988789999999977

>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=95.23  E-value=0.008  Score=29.56  Aligned_cols=26  Identities=15%  Similarity=0.114  Sum_probs=22.1

Q ss_pred             CCCCCCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             9999833899984999988899998738
Q 030630           15 SPSNGERTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        15 ~~~~~~~~i~i~G~~g~GKStlin~l~~   42 (174)
                      ++.+  ..+.+.|++|+|||+|.-.++.
T Consensus        34 ip~G--~~~~i~G~~GsGKT~lalq~~~   59 (258)
T d1v5wa_          34 IESM--AITEAFGEFRTGKTQLSHTLCV   59 (258)
T ss_dssp             BCSS--EEEEEECCTTCTHHHHHHHHHH
T ss_pred             CCCC--EEEEEECCCCCCHHHHHHHHHH
T ss_conf             7689--7999988998878899999999

>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=95.22  E-value=0.003  Score=31.69  Aligned_cols=23  Identities=26%  Similarity=0.427  Sum_probs=19.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             38999849999888999987388
Q 030630           21 RTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      .-+++.|++|+|||++.+.+.+.
T Consensus        29 h~vLl~G~pG~GKT~lar~~~~i   51 (333)
T d1g8pa_          29 GGVLVFGDRGTGKSTAVRALAAL   51 (333)
T ss_dssp             CCEEEECCGGGCTTHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
T ss_conf             70899889985299999999873

>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=95.18  E-value=0.0073  Score=29.76  Aligned_cols=25  Identities=16%  Similarity=0.238  Sum_probs=19.7

Q ss_pred             CCCCCCEEEEEECCCCCCHHHHHHHHH
Q ss_conf             999983389998499998889999873
Q 030630           15 SPSNGERTVVLVGRTGNGKSATGNSIL   41 (174)
Q Consensus        15 ~~~~~~~~i~i~G~~g~GKStlin~l~   41 (174)
                      ...|  ..+++.|++|+|||+|...++
T Consensus        32 ~~~G--~l~vi~G~~G~GKT~~~~~la   56 (277)
T d1cr2a_          32 ARGG--EVIMVTSGSGMGKSTFVRQQA   56 (277)
T ss_dssp             BCTT--CEEEEECSTTSSHHHHHHHHH
T ss_pred             CCCC--EEEEEEECCCCCHHHHHHHHH
T ss_conf             7898--089999479997999999999

>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=95.06  E-value=0.006  Score=30.19  Aligned_cols=23  Identities=17%  Similarity=0.310  Sum_probs=19.3

Q ss_pred             EEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             89998499998889999873886
Q 030630           22 TVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        22 ~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      .+++.|++|+|||.+.+.|.+..
T Consensus       125 ~~l~~G~pG~GKT~la~ala~~~  147 (321)
T d1w44a_         125 MVIVTGKGNSGKTPLVHALGEAL  147 (321)
T ss_dssp             EEEEECSSSSCHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
T ss_conf             38887799850889999999986

>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=95.00  E-value=0.011  Score=28.97  Aligned_cols=65  Identities=14%  Similarity=0.069  Sum_probs=36.8

Q ss_pred             CCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCEEEEEEEEEEECCCEEEEEECCCCCC
Q ss_conf             5899998338999849999888999987388643234689874225677899974895799993899999
Q 030630           13 LTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   82 (174)
Q Consensus        13 ~~~~~~~~~~i~i~G~~g~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~iiDtpg~~~   82 (174)
                      ++....+...+.+.|+.+.|||+|+++|...... .+.....  . ....-..+ .+..+.++|.|....
T Consensus        97 L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~lg~-~~~~~~~--~-~~f~l~~l-~~k~~~~~~e~~~~~  161 (267)
T d1u0ja_          97 ATKKFGKRNTIWLFGPATTGKTNIAEAIAHTVPF-YGCVNWT--N-ENFPFNDC-VDKMVIWWEEGKMTA  161 (267)
T ss_dssp             HTTCSTTCCEEEEECSTTSSHHHHHHHHHHHSSC-EEECCTT--C-SSCTTGGG-SSCSEEEECSCCEET
T ss_pred             HCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHCC-HHHCCCC--C-CCCCCCCC-CCCEEEEEECCCCCC
T ss_conf             7599976179999858988778999999998362-0200266--7-88622003-798799983888530

>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=94.77  E-value=0.014  Score=28.34  Aligned_cols=24  Identities=33%  Similarity=0.522  Sum_probs=20.8

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             338999849999888999987388
Q 030630           20 ERTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      ...+++.|..|.|||||...+...
T Consensus        44 ~~~v~I~GmgGiGKTtLA~~v~~~   67 (277)
T d2a5yb3          44 SFFLFLHGRAGSGKSVIASQALSK   67 (277)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             408999779978889999999985

>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=94.74  E-value=0.008  Score=29.57  Aligned_cols=27  Identities=19%  Similarity=0.282  Sum_probs=21.2

Q ss_pred             CCCCCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             99998338999849999888999987388
Q 030630           15 SPSNGERTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        15 ~~~~~~~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      .+.+  ..+.+.|++|+|||+|...++..
T Consensus        23 i~~g--sl~li~G~pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          23 FFKD--SIILATGATGTGKTLLVSRFVEN   49 (242)
T ss_dssp             EESS--CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCC--EEEEEEECCCCCHHHHHHHHHHH
T ss_conf             8698--49999918999999999999999

>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=94.74  E-value=0.01  Score=29.05  Aligned_cols=26  Identities=19%  Similarity=0.156  Sum_probs=21.4

Q ss_pred             CCCCCCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             9999833899984999988899998738
Q 030630           15 SPSNGERTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        15 ~~~~~~~~i~i~G~~g~GKStlin~l~~   42 (174)
                      .+.+  ..+.+.|++|+|||+|...++.
T Consensus        31 l~~G--~l~~i~G~~G~GKT~~~l~~a~   56 (258)
T d2i1qa2          31 LESQ--SVTEFAGVFGSGKTQIMHQSCV   56 (258)
T ss_dssp             EETT--EEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCC--EEEEEEECCCCCHHHHHHHHHH
T ss_conf             6288--5999991799998999999999

>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=94.73  E-value=0.009  Score=29.30  Aligned_cols=22  Identities=32%  Similarity=0.504  Sum_probs=18.6

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             3899984999988899998738
Q 030630           21 RTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~   42 (174)
                      .-+++.|++|+||||+.-.+..
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~   37 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIK   37 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEEECCCCCHHHHHHHHHH
T ss_conf             9999980899999999999998

>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=94.42  E-value=0.0079  Score=29.58  Aligned_cols=27  Identities=26%  Similarity=0.303  Sum_probs=22.6

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             983389998499998889999873886
Q 030630           18 NGERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      .+...+++.||+++|||++.++|++..
T Consensus        51 PKkn~i~~~GP~~TGKS~f~~sl~~~l   77 (205)
T d1tuea_          51 PKKNCLVFCGPANTGKSYFGMSFIHFI   77 (205)
T ss_dssp             TTCSEEEEESCGGGCHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             873189998899856899999999982

>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=94.33  E-value=0.011  Score=28.90  Aligned_cols=25  Identities=28%  Similarity=0.515  Sum_probs=20.2

Q ss_pred             CCCCCCEEEEEECCCCCCHHHHHHHHH
Q ss_conf             999983389998499998889999873
Q 030630           15 SPSNGERTVVLVGRTGNGKSATGNSIL   41 (174)
Q Consensus        15 ~~~~~~~~i~i~G~~g~GKStlin~l~   41 (174)
                      .+.|  ..+.+.|++|+|||+|.-.++
T Consensus        23 i~~G--~~~~I~G~~G~GKT~la~~~~   47 (242)
T d1tf7a1          23 LPIG--RSTLVSGTSGTGKTLFSIQFL   47 (242)
T ss_dssp             EETT--SEEEEEESTTSSHHHHHHHHH
T ss_pred             CCCC--EEEEEEECCCCCHHHHHHHHH
T ss_conf             9698--399999479999999999999

>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=94.30  E-value=0.016  Score=28.03  Aligned_cols=21  Identities=33%  Similarity=0.559  Sum_probs=17.2

Q ss_pred             CEEEEEECCCCCCHHHHHHHH
Q ss_conf             338999849999888999987
Q 030630           20 ERTVVLVGRTGNGKSATGNSI   40 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l   40 (174)
                      ....++.|++|+||||++..+
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~  183 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKL  183 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHH
T ss_pred             CCEEEEECCCCCCCEEHHHHH
T ss_conf             885999768988752169999

>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=93.99  E-value=0.019  Score=27.74  Aligned_cols=21  Identities=29%  Similarity=0.287  Sum_probs=17.6

Q ss_pred             EEEEEECCCCCCHHHHHHHHH
Q ss_conf             389998499998889999873
Q 030630           21 RTVVLVGRTGNGKSATGNSIL   41 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~   41 (174)
                      ...++.|++|+|||+|.-.++
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la   50 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLA   50 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHH
T ss_pred             CEEEEEECCCCCHHHHHHHHH
T ss_conf             589999289998999999999

>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=93.79  E-value=0.013  Score=28.52  Aligned_cols=18  Identities=22%  Similarity=0.431  Sum_probs=14.3

Q ss_pred             EEEEECCCCCCHHHHH-HH
Q ss_conf             8999849999888999-98
Q 030630           22 TVVLVGRTGNGKSATG-NS   39 (174)
Q Consensus        22 ~i~i~G~~g~GKStli-n~   39 (174)
                      -++|.|++|+||||++ ..
T Consensus        16 ~~lI~g~aGTGKTt~l~~r   34 (306)
T d1uaaa1          16 PCLVLAGAGSGKTRVITNK   34 (306)
T ss_dssp             EEEECCCTTSCHHHHHHHH
T ss_pred             CEEEEEECCCCHHHHHHHH
T ss_conf             9899962884389999999

>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=93.77  E-value=0.02  Score=27.65  Aligned_cols=22  Identities=18%  Similarity=0.305  Sum_probs=19.6

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9998499998889999873886
Q 030630           23 VVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        23 i~i~G~~g~GKStlin~l~~~~   44 (174)
                      +.+.|++|+|||-|+++++...
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~~   60 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNEA   60 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
T ss_conf             7998889983999999999874

>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=93.62  E-value=0.017  Score=28.00  Aligned_cols=16  Identities=19%  Similarity=0.459  Sum_probs=13.6

Q ss_pred             EEEEECCCCCCHHHHH
Q ss_conf             8999849999888999
Q 030630           22 TVVLVGRTGNGKSATG   37 (174)
Q Consensus        22 ~i~i~G~~g~GKStli   37 (174)
                      .++|.|++|+||||.+
T Consensus        26 ~~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVL   41 (318)
T ss_dssp             CEEEEECTTSCHHHHH
T ss_pred             CEEEEECCCCCHHHHH
T ss_conf             9899952986689999

>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=92.91  E-value=0.031  Score=26.67  Aligned_cols=31  Identities=23%  Similarity=0.358  Sum_probs=23.5

Q ss_pred             CCCCCCCCCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             3589999833899984999988899998738
Q 030630           12 ELTSPSNGERTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        12 ~~~~~~~~~~~i~i~G~~g~GKStlin~l~~   42 (174)
                      +.=.+-++..+++++|.+|+|||+|+-.+..
T Consensus        60 D~l~pigkGQr~~If~~~g~GKt~l~~~i~~   90 (276)
T d2jdid3          60 DLLAPYAKGGKIGLFGGAGVGKTVLIMELIN   90 (276)
T ss_dssp             HHHSCEETTCEEEEEECTTSSHHHHHHHHHH
T ss_pred             EEECCCCCCCEEEEECCCCCCHHHHHHHHHH
T ss_conf             1025636788777667999898999999999

>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=91.68  E-value=0.05  Score=25.65  Aligned_cols=23  Identities=22%  Similarity=0.388  Sum_probs=18.9

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             38999849999888999987388
Q 030630           21 RTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      ....+.|++|+|||+|.-.++..
T Consensus        55 ~itei~G~~gsGKTtl~l~~~~~   77 (263)
T d1u94a1          55 RIVEIYGPESSGKTTLTLQVIAA   77 (263)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCHHHHHHHHHHHH
T ss_conf             58998057774789999999999

>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=91.50  E-value=0.069  Score=24.98  Aligned_cols=24  Identities=13%  Similarity=0.099  Sum_probs=21.0

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             833899984999988899998738
Q 030630           19 GERTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~   42 (174)
                      +...|.+.|-+|+||||+.++|..
T Consensus         5 qgf~i~~tg~~~~gk~~ia~al~~   28 (122)
T d1g8fa3           5 QGFSIVLGNSLTVSREQLSIALLS   28 (122)
T ss_dssp             CCEEEEECTTCCSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
T ss_conf             516999808887788899999999

>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=90.24  E-value=0.074  Score=24.81  Aligned_cols=31  Identities=16%  Similarity=0.319  Sum_probs=23.3

Q ss_pred             CCCCCCCCCCCEEEEEECCCCCCHHHHHHHH
Q ss_conf             4335899998338999849999888999987
Q 030630           10 DWELTSPSNGERTVVLVGRTGNGKSATGNSI   40 (174)
Q Consensus        10 ~~~~~~~~~~~~~i~i~G~~g~GKStlin~l   40 (174)
                      -++.=.+-++..+++++|.+|+|||+|+..+
T Consensus        57 ~ID~l~pig~GQr~~Ifg~~g~GKt~l~~~~   87 (276)
T d1fx0a3          57 AIDAMIPVGRGQRELIIGDRQTGKTAVATDT   87 (276)
T ss_dssp             TTTTTSCCBTTCBCBEEESSSSSHHHHHHHH
T ss_pred             EEECCCCCCCCCEEEECCCCCCCHHHHHHHH
T ss_conf             7750145467766760067788857999997

>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=90.20  E-value=0.052  Score=25.56  Aligned_cols=30  Identities=13%  Similarity=0.308  Sum_probs=22.4

Q ss_pred             CCCCCCCCCEEEEEECCCCCCHHHHHHHHH
Q ss_conf             358999983389998499998889999873
Q 030630           12 ELTSPSNGERTVVLVGRTGNGKSATGNSIL   41 (174)
Q Consensus        12 ~~~~~~~~~~~i~i~G~~g~GKStlin~l~   41 (174)
                      +.=.+-++..+++++|.+|+|||+++..+.
T Consensus        60 D~l~pig~GQr~~If~~~g~GKt~ll~~~~   89 (285)
T d2jdia3          60 DSLVPIGRGQRELIIGDRQTGKTSIAIDTI   89 (285)
T ss_dssp             HHHSCCBTTCBCEEEESTTSSHHHHHHHHH
T ss_pred             ECCCCCCCCCEEEEECCCCCCHHHHHHHHH
T ss_conf             434676678778765688888589999999

>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=89.40  E-value=0.17  Score=23.05  Aligned_cols=24  Identities=17%  Similarity=0.565  Sum_probs=19.6

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             833899984999988899998738
Q 030630           19 GERTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~   42 (174)
                      ....|++.|.+|||||...+.++.
T Consensus       124 ~nQsIiisGeSGaGKTe~~k~il~  147 (712)
T d1d0xa2         124 QNQSLLITGESGAGKTENTKKVIQ  147 (712)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
T ss_conf             991699967998888999999999

>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=89.39  E-value=0.14  Score=23.42  Aligned_cols=20  Identities=40%  Similarity=0.672  Sum_probs=16.8

Q ss_pred             EEEEEECCCCCCHHHHHHHH
Q ss_conf             38999849999888999987
Q 030630           21 RTVVLVGRTGNGKSATGNSI   40 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l   40 (174)
                      ++|++.|+=|+||||+.-.|
T Consensus         2 r~Iai~gKGGvGKTT~a~nL   21 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNL   21 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
T ss_conf             79999899857799999999

>d2mysa2 c.37.1.9 (A:4-33,A:80-843) 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=89.22  E-value=0.17  Score=23.05  Aligned_cols=23  Identities=17%  Similarity=0.619  Sum_probs=18.3

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             33899984999988899998738
Q 030630           20 ERTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~   42 (174)
                      ...|++.|.+|||||...+.++.
T Consensus       123 ~QsIiisGeSGaGKTe~~K~il~  145 (794)
T d2mysa2         123 NQSILITGESGAGKTVNTKRVIQ  145 (794)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
T ss_conf             80799971798878999999999

>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=89.21  E-value=0.13  Score=23.69  Aligned_cols=22  Identities=27%  Similarity=0.434  Sum_probs=18.8

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             3899984999988899998738
Q 030630           21 RTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l~~   42 (174)
                      .-+++.|++|+||+.+.+.|-.
T Consensus        24 ~pvlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2          24 CPVLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             SCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHH
T ss_conf             9789989998179999999999

>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=89.21  E-value=0.18  Score=22.92  Aligned_cols=23  Identities=26%  Similarity=0.638  Sum_probs=18.7

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             33899984999988899998738
Q 030630           20 ERTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~   42 (174)
                      ...|++.|.+|||||...+.++.
T Consensus        86 ~QsIiisGeSGsGKTe~~k~il~  108 (684)
T d1lkxa_          86 NQCVIISGESGAGKTEASKKIMQ  108 (684)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
T ss_conf             81899973898998999999999

>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=89.18  E-value=0.18  Score=22.87  Aligned_cols=22  Identities=18%  Similarity=0.348  Sum_probs=17.5

Q ss_pred             CEEEEEECCCCCCHHHHHHHHH
Q ss_conf             3389998499998889999873
Q 030630           20 ERTVVLVGRTGNGKSATGNSIL   41 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~   41 (174)
                      .+.+.+.|+-|+||||+.-.+.
T Consensus         8 p~~i~~sGKGGVGKTTvaa~lA   29 (296)
T d1ihua1           8 PPYLFFTGKGGVGKTSISCATA   29 (296)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHH
T ss_pred             CEEEEEECCCCCHHHHHHHHHH
T ss_conf             8599997998674999999999

>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=89.18  E-value=0.42  Score=21.13  Aligned_cols=26  Identities=19%  Similarity=0.397  Sum_probs=20.2

Q ss_pred             CCCCCCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             9999833899984999988899998738
Q 030630           15 SPSNGERTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        15 ~~~~~~~~i~i~G~~g~GKStlin~l~~   42 (174)
                      .+.+  ....+.|++++|||++.-.++.
T Consensus        57 ~~~g--~i~e~~G~~~~GKT~l~l~~~~   82 (269)
T d1mo6a1          57 LPRG--RVIEIYGPESSGKTTVALHAVA   82 (269)
T ss_dssp             BCSS--SEEEEECSSSSSHHHHHHHHHH
T ss_pred             CCCC--EEEEEECCCCCHHHHHHHHHHH
T ss_conf             6663--3699964887488999999999

>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=88.90  E-value=0.19  Score=22.77  Aligned_cols=23  Identities=17%  Similarity=0.586  Sum_probs=18.6

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             33899984999988899998738
Q 030630           20 ERTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~~   42 (174)
                      ...|++.|.+|||||...+.++.
T Consensus        91 ~Q~IiisGeSGaGKTe~~k~il~  113 (710)
T d1br2a2          91 DQSILCTGESGAGKTENTKKVIQ  113 (710)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCHHHHHHHHHH
T ss_conf             91799971898888999999999

>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=88.80  E-value=0.12  Score=23.86  Aligned_cols=27  Identities=22%  Similarity=0.427  Sum_probs=21.0

Q ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             99983389998499998889999873886
Q 030630           16 PSNGERTVVLVGRTGNGKSATGNSILGRR   44 (174)
Q Consensus        16 ~~~~~~~i~i~G~~g~GKStlin~l~~~~   44 (174)
                      |.+  ....+.|++++|||+|.-.++...
T Consensus        55 p~g--~itei~G~~~sGKT~l~l~~~~~a   81 (268)
T d1xp8a1          55 PRG--RITEIYGPESGGKTTLALAIVAQA   81 (268)
T ss_dssp             ETT--SEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CCC--EEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             675--478980587652279999999999

>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=88.36  E-value=0.14  Score=23.43  Aligned_cols=22  Identities=27%  Similarity=0.246  Sum_probs=17.1

Q ss_pred             CEEEEEECCCCCCHHHHHHHHH
Q ss_conf             3389998499998889999873
Q 030630           20 ERTVVLVGRTGNGKSATGNSIL   41 (174)
Q Consensus        20 ~~~i~i~G~~g~GKStlin~l~   41 (174)
                      ....++.+++|+|||+.+-.++
T Consensus         8 ~~~~ll~apTGsGKT~~~~~~~   29 (136)
T d1a1va1           8 FQVAHLHAPTGSGKSTKVPAAY   29 (136)
T ss_dssp             CEEEEEECCTTSCTTTHHHHHH
T ss_pred             CCEEEEEECCCCCHHHHHHHHH
T ss_conf             8889999688779999999999

>d1kk8a2 c.37.1.9 (A:1-28,A:77-837) Myosin S1, motor domain {Bay scallop (Aequipecten irradians) [TaxId: 31199]}

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: Bay scallop (Aequipecten irradians) [TaxId: 31199]

Probab=88.03  E-value=0.23  Score=22.39  Aligned_cols=24  Identities=17%  Similarity=0.508  Sum_probs=18.6

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             833899984999988899998738
Q 030630           19 GERTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~   42 (174)
                      ....|++.|.+|||||...+.++.
T Consensus       120 ~nQ~IiisGESGaGKTe~~K~il~  143 (789)
T d1kk8a2         120 ENQSCLITGESGAGKTENTKKVIM  143 (789)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCHHHHHHHHHH
T ss_conf             994799970899987999999999

>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=87.86  E-value=0.2  Score=22.65  Aligned_cols=21  Identities=19%  Similarity=0.401  Sum_probs=17.0

Q ss_pred             EEEEEECCC-CCCHHHHHHHHH
Q ss_conf             389998499-998889999873
Q 030630           21 RTVVLVGRT-GNGKSATGNSIL   41 (174)
Q Consensus        21 ~~i~i~G~~-g~GKStlin~l~   41 (174)
                      .++.+.|.. |+||||+.-.|.
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La   23 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALL   23 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHH
T ss_conf             5199998999942999999999

>d1w7ja2 c.37.1.9 (A:63-792) Myosin S1, motor domain {Chicken (Gallus gallus), Va isoform [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), Va isoform [TaxId: 9031]

Probab=87.33  E-value=0.28  Score=22.00  Aligned_cols=24  Identities=17%  Similarity=0.529  Sum_probs=19.0

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             833899984999988899998738
Q 030630           19 GERTVVLVGRTGNGKSATGNSILG   42 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~   42 (174)
                      ....|++.|.+|||||...+.++.
T Consensus        93 ~~Q~IiisGeSGsGKTe~~k~il~  116 (730)
T d1w7ja2          93 RNQSIIVSGESGAGKTVSAKYAMR  116 (730)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEEECCCCCHHHHHHHHHH
T ss_conf             980799971799987999999999

>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=86.98  E-value=0.19  Score=22.81  Aligned_cols=17  Identities=29%  Similarity=0.575  Sum_probs=15.1

Q ss_pred             EEEEEECCCCCCHHHHH
Q ss_conf             38999849999888999
Q 030630           21 RTVVLVGRTGNGKSATG   37 (174)
Q Consensus        21 ~~i~i~G~~g~GKStli   37 (174)
                      ..-++.|-+|.|||||-
T Consensus        15 ~~alfFGLSGTGKTTLs   31 (313)
T d2olra1          15 DVAVFFGLSGTGKTTLS   31 (313)
T ss_dssp             CEEEEECSTTSSHHHHH
T ss_pred             CEEEEECCCCCCCCCCE
T ss_conf             88999704779856023

>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=86.80  E-value=0.33  Score=21.62  Aligned_cols=23  Identities=26%  Similarity=0.517  Sum_probs=17.6

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHH
Q ss_conf             83389998499998889999873
Q 030630           19 GERTVVLVGRTGNGKSATGNSIL   41 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~   41 (174)
                      ....+.+.|+-|+||||+.-.|.
T Consensus        19 ~~~iii~sGKGGVGKTT~a~nLA   41 (279)
T d1ihua2          19 EHGLIMLMGKGGVGKTTMAAAIA   41 (279)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHH
T ss_conf             97899997999887899999999

>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=86.58  E-value=0.31  Score=21.76  Aligned_cols=20  Identities=35%  Similarity=0.615  Sum_probs=16.5

Q ss_pred             EEEEEECCCCCCHHHHHHHH
Q ss_conf             38999849999888999987
Q 030630           21 RTVVLVGRTGNGKSATGNSI   40 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin~l   40 (174)
                      ++|++-|+=|+||||+.-.|
T Consensus         3 r~IaisgKGGVGKTT~a~NL   22 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNL   22 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHH
T ss_conf             28999899987799999999

>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=86.46  E-value=0.2  Score=22.69  Aligned_cols=17  Identities=29%  Similarity=0.575  Sum_probs=15.1

Q ss_pred             EEEEEECCCCCCHHHHH
Q ss_conf             38999849999888999
Q 030630           21 RTVVLVGRTGNGKSATG   37 (174)
Q Consensus        21 ~~i~i~G~~g~GKStli   37 (174)
                      ..-++.|-+|.|||||-
T Consensus        15 ~valffGLSGTGKTTLs   31 (318)
T d1j3ba1          15 DVAVFFGLSGTGKTTLS   31 (318)
T ss_dssp             CEEEEEECTTSCHHHHT
T ss_pred             CEEEEECCCCCCCCCCC
T ss_conf             88999736879814221

>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=85.58  E-value=0.25  Score=22.19  Aligned_cols=17  Identities=29%  Similarity=0.573  Sum_probs=15.0

Q ss_pred             EEEEEECCCCCCHHHHH
Q ss_conf             38999849999888999
Q 030630           21 RTVVLVGRTGNGKSATG   37 (174)
Q Consensus        21 ~~i~i~G~~g~GKStli   37 (174)
                      ..-++.|-+|.|||||-
T Consensus        15 d~alfFGLSGTGKTTLs   31 (323)
T d1ii2a1          15 DVTVFFGLSGTGKTTLS   31 (323)
T ss_dssp             CEEEEECCTTSSHHHHH
T ss_pred             CEEEEECCCCCCCCCCE
T ss_conf             87999736778812051

>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=83.48  E-value=0.44  Score=21.01  Aligned_cols=25  Identities=4%  Similarity=-0.035  Sum_probs=21.3

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             8338999849999888999987388
Q 030630           19 GERTVVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        19 ~~~~i~i~G~~g~GKStlin~l~~~   43 (174)
                      ...-+++.|++|+||+++...+...
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~~   38 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPEY   38 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             9855998898998889999999999

>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=82.57  E-value=0.55  Score=20.54  Aligned_cols=21  Identities=24%  Similarity=0.608  Sum_probs=18.4

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999849999888999987388
Q 030630           23 VVLVGRTGNGKSATGNSILGR   43 (174)
Q Consensus        23 i~i~G~~g~GKStlin~l~~~   43 (174)
                      ++++|...+|||.+...+...
T Consensus         2 iLVtGGarSGKS~~AE~l~~~   22 (180)
T d1c9ka_           2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             899789876599999999845

>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=82.17  E-value=0.43  Score=21.07  Aligned_cols=18  Identities=28%  Similarity=0.315  Sum_probs=13.6

Q ss_pred             EEEEEECCCCCCHHHHHH
Q ss_conf             389998499998889999
Q 030630           21 RTVVLVGRTGNGKSATGN   38 (174)
Q Consensus        21 ~~i~i~G~~g~GKStlin   38 (174)
                      ..+++++++|+|||...-
T Consensus        24 ~n~lv~~pTGsGKT~i~~   41 (200)
T d1wp9a1          24 TNCLIVLPTGLGKTLIAM   41 (200)
T ss_dssp             SCEEEECCTTSCHHHHHH
T ss_pred             CCEEEEECCCCCHHHHHH
T ss_conf             996999189972889999

>d1xx6a1 c.37.1.24 (A:2-142) Thymidine kinase, TK1, N-terminal domain {Clostridium acetobutylicum [TaxId: 1488]}

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: Clostridium acetobutylicum [TaxId: 1488]

Probab=81.06  E-value=0.84  Score=19.63  Aligned_cols=24  Identities=29%  Similarity=0.243  Sum_probs=17.9

Q ss_pred             CCCEEEEEECCCCCCHHHH-HHHHH
Q ss_conf             9833899984999988899-99873
Q 030630           18 NGERTVVLVGRTGNGKSAT-GNSIL   41 (174)
Q Consensus        18 ~~~~~i~i~G~~g~GKStl-in~l~   41 (174)
                      ..+..-+++||=.|||||- ++.+-
T Consensus         5 ~~G~l~lI~GpMfSGKTteLi~~~~   29 (141)
T d1xx6a1           5 DHGWVEVIVGPMYSGKSEELIRRIR   29 (141)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEEEECCCCHHHHHHHHHHH
T ss_conf             6505999990606689999999999

>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=80.17  E-value=0.29  Score=21.88  Aligned_cols=17  Identities=35%  Similarity=0.245  Sum_probs=14.1

Q ss_pred             EEEEEECCCCCCHHHHH
Q ss_conf             38999849999888999
Q 030630           21 RTVVLVGRTGNGKSATG   37 (174)
Q Consensus        21 ~~i~i~G~~g~GKStli   37 (174)
                      ..+++.+++|+|||...
T Consensus         8 ~~~il~~~tGsGKT~~~   24 (140)
T d1yksa1           8 MTTVLDFHPGAGKTRRF   24 (140)
T ss_dssp             CEEEECCCTTSSTTTTH
T ss_pred             CCEEEECCCCCCHHHHH
T ss_conf             96799817998855999